##maf version=1 scoring=roast.v3.3
a score=22178.000000
s hg38.chr12_GL383549v1_alt         0 3 +    120804 AAT
s panTro5.chr12              62694867 3 + 137163284 aat
i panTro5.chr12             N 0 C 0
s panPan2.chr12              60821466 3 + 135337776 aat
i panPan2.chr12             N 0 C 0
s gorGor5.CYUI01000003v1      3036637 3 -  32808036 aat
i gorGor5.CYUI01000003v1    N 0 C 0
s rheMac8.chr11             104536670 3 - 133663169 aat
i rheMac8.chr11             N 0 C 0
s macFas5.chr11             108936137 3 - 137757926 aat
i macFas5.chr11             N 0 C 0
s macNem1.NW_012011422v1      1313951 3 -   7948249 aat
i macNem1.NW_012011422v1    N 0 C 0
s cerAty1.NW_011999477v1      8207310 3 -  10730278 aat
i cerAty1.NW_011999477v1    N 0 C 0
s chlSab2.chr11             100705653 3 - 128539186 aat
i chlSab2.chr11             N 0 C 0
s manLeu1.NW_012101287v1       100464 3 +    435186 aat
i manLeu1.NW_012101287v1    N 0 C 0
s colAng1.NW_012114364v1      3489129 3 +   9309688 aat
i colAng1.NW_012114364v1    N 0 C 0
s saiBol1.JH378123           11323053 3 -  29834108 aat
i saiBol1.JH378123          N 0 C 0
s cebCap1.NW_016107911v1       778738 3 -   1015025 aat
i cebCap1.NW_016107911v1    N 0 C 0
s dasNov3.JH562883             862449 3 -   1687904 aag
i dasNov3.JH562883          N 0 C 0

a score=15347.000000
s hg38.chr12_GL383549v1_alt         3 2 +    120804 TC
s panTro5.chr12              62694870 2 + 137163284 tc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821469 2 + 135337776 tc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036640 2 -  32808036 tc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221698 2 +  34552619 tt
i nomLeu3.chr23             N 0 C 0
s rheMac8.chr11             104536673 2 - 133663169 tc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936140 2 - 137757926 tc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313954 2 -   7948249 tc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207313 2 -  10730278 tc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705656 2 - 128539186 tc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100467 2 +    435186 tc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489132 2 +   9309688 tc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323056 2 -  29834108 tc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778741 2 -   1015025 tc
i cebCap1.NW_016107911v1    C 0 C 0
s dasNov3.JH562883             862452 2 -   1687904 ta
i dasNov3.JH562883          C 0 C 0

a score=78795.000000
s hg38.chr12_GL383549v1_alt         5 7 +    120804 TCCTTGG
s panTro5.chr12              62694872 7 + 137163284 tccttgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821471 7 + 135337776 tccttgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036642 7 -  32808036 tccttgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221700 7 +  34552619 tccttgg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104536675 7 - 133663169 tccttgg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936142 7 - 137757926 tccttgg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313956 7 -   7948249 tccttgg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207315 7 -  10730278 tccttgg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705658 7 - 128539186 tccttgg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100469 7 +    435186 tccttgg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489134 7 +   9309688 tccttgg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323058 7 -  29834108 tccttgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778743 7 -   1015025 tccttgg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1792637 7 -   2295209 tccttgg
i aotNan1.NW_018488218v1    N 0 C 0
s dasNov3.JH562883             862454 7 -   1687904 tccttag
i dasNov3.JH562883          C 0 C 0

a score=13600.000000
s hg38.chr12_GL383549v1_alt        12 1 +    120804 G
s panTro5.chr12              62694879 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821478 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036649 1 -  32808036 g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221707 1 +  34552619 g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104536682 1 - 133663169 g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936149 1 - 137757926 g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313963 1 -   7948249 g
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207322 1 -  10730278 g
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705665 1 - 128539186 g
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100476 1 +    435186 g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489141 1 +   9309688 g
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323065 1 -  29834108 g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778750 1 -   1015025 g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1792644 1 -   2295209 g
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5008677 1 +  13104022 g
i proCoq1.NW_012140524v1    N 0 C 0
s dasNov3.JH562883             862461 1 -   1687904 g
i dasNov3.JH562883          C 0 C 0

a score=27846.000000
s hg38.chr12_GL383549v1_alt        13 2 +    120804 AT
s panTro5.chr12              62694880 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821479 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036650 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221708 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104536683 2 - 133663169 at
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936150 2 - 137757926 at
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313964 2 -   7948249 at
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207323 2 -  10730278 at
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705666 2 - 128539186 at
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100477 2 +    435186 at
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489142 2 +   9309688 at
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323066 2 -  29834108 at
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778751 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1792645 2 -   2295209 at
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5008678 2 +  13104022 at
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19652531 2 +  45876710 at
i canFam3.chr27             N 0 C 0
s dasNov3.JH562883             862462 2 -   1687904 at
i dasNov3.JH562883          C 0 C 0

a score=203939.000000
s hg38.chr12_GL383549v1_alt        15 16 +    120804 ACTAGTGTGTGAGTAC
s panTro5.chr12              62694882 16 + 137163284 actagtgtgtgagtac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821481 16 + 135337776 actagtgtgtgagcac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036652 16 -  32808036 actagtgtgtgagtac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221710 16 +  34552619 actagtttgtgagtac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104536685 16 - 133663169 actagtttgtgagtac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936152 16 - 137757926 actagtttgtgagtac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313966 16 -   7948249 actagtttgtgagtac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207325 16 -  10730278 actagtttgtgagtac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705668 16 - 128539186 actagtttgtgagtac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100479 16 +    435186 actagtttgtgagtac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489144 16 +   9309688 actaatttgtgaatac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323068 16 -  29834108 actagtttgtgagtac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778753 16 -   1015025 actagtttgtgagtac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1792647 16 -   2295209 actagtttgtgagtac
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2911552 16 +  31815103 actagtttgtgagtat
i micMur3.chr21             N 0 C 0
s proCoq1.NW_012140524v1      5008680 16 +  13104022 actagtttgcgagtgt
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19652533 16 +  45876710 actagtctgtgagtat
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             862464 16 -   1687904 gctcatgtgtgttgat
i dasNov3.JH562883          C 0 C 0

a score=5296105.000000
s hg38.chr12_GL383549v1_alt        31 453 +    120804  
s panTro5.chr12              62694898 453 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821497 453 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3036668 453 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7221726 453 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104536701 454 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936168 454 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1313982 454 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207341 451 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100705684 453 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100495 463 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489160 454 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323084 449 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       778769 451 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1792663 448 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2911568 457 +  31815103  
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5008696 448 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 20
s mm10.chr6                   2353933 453 - 149736546  
i mm10.chr6                 N 0 I 2
s canFam3.chr27              19652552 429 +  45876710  
i canFam3.chr27             I 3 I 1
s dasNov3.JH562883             862480 408 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=40895.000000
s hg38.chr12_GL383549v1_alt       484 7 +    120804 -aaaaaca
s panTro5.chr12              62695351 7 + 137163284 -aaaaaca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821950 7 + 135337776 -aaaaaca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037121 7 -  32808036 -aaaagca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222179 7 +  34552619 -aaaaaca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537155 7 - 133663169 -AAAAAAA
i rheMac8.chr11             C 0 I 3
s macFas5.chr11             108936622 7 - 137757926 -AAAAAAA
i macFas5.chr11             C 0 I 1
s macNem1.NW_012011422v1      1314436 7 -   7948249 -aaaaaaa
i macNem1.NW_012011422v1    C 0 I 4
s cerAty1.NW_011999477v1      8207792 7 -  10730278 -AAAAAAA
i cerAty1.NW_011999477v1    C 0 I 3
s chlSab2.chr11             100706137 7 - 128539186 -aaaaaaa
i chlSab2.chr11             C 0 I 2
s manLeu1.NW_012101287v1       100958 6 +    435186 -aaaaaa-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489614 7 +   9309688 -aaaaaaA
i colAng1.NW_012114364v1    C 0 I 5
s saiBol1.JH378123           11323533 7 -  29834108 -taaaaaa
i saiBol1.JH378123          C 0 I 2
s cebCap1.NW_016107911v1       779220 7 -   1015025 -TAAAAAA
i cebCap1.NW_016107911v1    C 0 I 2
s aotNan1.NW_018488218v1      1793111 7 -   2295209 -taaaaaa
i aotNan1.NW_018488218v1    C 0 I 2
s micMur3.chr21               2912026 6 +  31815103 -aaaaaa-
i micMur3.chr21             I 1 I 14
s mm10.chr6                   2354388 7 - 149736546 -TAAAATA
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19652982 7 +  45876710 -gagaata
i canFam3.chr27             I 1 I 63
s dasNov3.JH562883             862888 7 -   1687904 ggagaag-
i dasNov3.JH562883          C 0 I 4
e proCoq1.NW_012140524v1      5009144 20 +  13104022 I

a score=59222.000000
s hg38.chr12_GL383549v1_alt       491 6 +    120804 tcttga
s panTro5.chr12              62695358 6 + 137163284 tcttga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821957 6 + 135337776 tcttga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037128 6 -  32808036 tcttga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222186 6 +  34552619 tcttga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537165 6 - 133663169 TCTTGA
i rheMac8.chr11             I 3 C 0
s macFas5.chr11             108936630 6 - 137757926 TCTTGA
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1314447 6 -   7948249 tcttga
i macNem1.NW_012011422v1    I 4 C 0
s cerAty1.NW_011999477v1      8207802 6 -  10730278 TCTTGA
i cerAty1.NW_011999477v1    I 3 C 0
s chlSab2.chr11             100706146 6 - 128539186 tcttga
i chlSab2.chr11             I 2 C 0
s colAng1.NW_012114364v1      3489626 6 +   9309688 CCTTGA
i colAng1.NW_012114364v1    I 5 C 0
s saiBol1.JH378123           11323542 6 -  29834108 tctcga
i saiBol1.JH378123          I 2 C 0
s cebCap1.NW_016107911v1       779229 6 -   1015025 TCTTGA
i cebCap1.NW_016107911v1    I 2 C 0
s aotNan1.NW_018488218v1      1793120 6 -   2295209 tcttga
i aotNan1.NW_018488218v1    I 2 C 0
s mm10.chr6                   2354395 5 - 149736546 -CCTGT
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19653052 6 +  45876710 gcttga
i canFam3.chr27             I 63 I 16
s dasNov3.JH562883             862899 6 -   1687904 tcttta
i dasNov3.JH562883          I 4 C 0
e micMur3.chr21               2912032 14 +  31815103 I
e proCoq1.NW_012140524v1      5009144 20 +  13104022 I
e manLeu1.NW_012101287v1       100964 0 +    435186 C

a score=15230.000000
s hg38.chr12_GL383549v1_alt       497 3 +    120804 -tta
s panTro5.chr12              62695364 3 + 137163284 -tta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821963 3 + 135337776 -tta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037134 3 -  32808036 -tta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222192 3 +  34552619 -tta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537171 3 - 133663169 -TTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936636 3 - 137757926 -TTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1314453 3 -   7948249 -tta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207808 3 -  10730278 -TTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706152 3 - 128539186 -tta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100964 1 +    435186 ---a
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489632 3 +   9309688 -TTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323548 3 -  29834108 -tta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779235 3 -   1015025 -TTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793126 3 -   2295209 -tta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912046 2 +  31815103 -tt-
i micMur3.chr21             I 14 C 0
s mm10.chr6                   2354401 3 - 149736546 -TTG
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19653074 3 +  45876710 -tta
i canFam3.chr27             I 16 I 45
s dasNov3.JH562883             862905 3 -   1687904 ttt-
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5009144 20 +  13104022 I

a score=3261929.000000
s hg38.chr12_GL383549v1_alt       500 246 +    120804 cacctattttaaaactgcaaatcATGTATTCAAATTTT--AACAATGACTTCTATGATCAATAAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTATATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCACAGTCTTTACAAAACATAAAGAGCAGCT-----T-----ACAGCCTTGCCTACAACCTCTAGCACATATTT
s panTro5.chr12              62695367 246 + 137163284 cacctattttaaaactgcaaatcATGTATTCAAATTTT--AACAATGACTTCTATGATCAATAAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTATATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCACAGTCTTTACAAAACATAAAGAGCAGCT-----T-----ACAGCCTTGCCTACAACCTCTAGCACTTATTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60821966 246 + 135337776 cacctattttaaaactgcaaatcATGTATTCAAATTTT--AACAATGACTTCTATGATCAATAAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTATATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCACAGTCTTTACAAAACATAAAGAGCAGCT-----T-----ACAGCCTTGCCTACAACCTCTAGCACTTATTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037137 246 -  32808036 cacctatttcaaaactgcaaatcATGTATTCAAATTTT--AACAATGACTTCTATGATCAATAAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTATATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCACAGTCTTTACAAAACATAAAGAGCAGCT-----T-----ACAGCCTTGCCTACAACCTCTAGCACATATTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222195 245 +  34552619 cacctattttaaaactgcaaatcATGTATTCAAATTTT--AACAATGACTTCTATGATC-ATAAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATGTCTAACTC----TTTAGTTATATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCACAGTCTTTACAAAACATAAAGAGCAGCT-----T-----ACAGCCTTGCCTACAACCTCTAGCACATATTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537174 246 - 133663169 CACCTATTTTAAAACTGCAAATCATGTATTCAAGTTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCTACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCTCTGGCACATATTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936639 246 - 137757926 CACCTATTTTAAAACTGCAAATCATGTATTCAAGTTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCTACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCTCTGGCACATATTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1314456 246 -   7948249 cacctattttaaaactgcaaatcATGTATTCAAGTTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCTACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCTCTGGCACATATTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8207811 246 -  10730278 CACCTATTTTAAAACTGCAAATTATGTATTCAAATTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCTCTGGCACATATTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706155 246 - 128539186 cacctattttaaaactgcaaatcATGTATTCAAATTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGATCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCTACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGTATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCTCTGGCACATATTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       100965 245 +    435186 cacctattttaAAACTGCAAATCATGTATTCAAATTTT--AACAATGACCTCTATAATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCAACAACTTATTTTCAATCCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T------GAGCCTTGCCTACAACCTCTGGCACATATTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489635 246 +   9309688 CACCTATTTGAAAACTGCAAATCATGTATTCAAATTTT--AACAATGACCTCTATGATCAATGAC-TTTAAATACT--C--TCTT--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTA------TTTCTTTATGACTATCTACAACTTATTTTCAACTCTGCTCAATTAAATTTTAGAAGTAAGGGCATAGTCTTTACAAAACATAAAGAGCAGCT-----T-----AGAGCCTTGCCTACAACCCCTGGCACATATTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323551 250 -  29834108 cacttattttaaaactggaaatcATGTATTCAGATTTT--AACAATAACTTCTATGATGAATAAC-TTTAAATACT--C--TCTG--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACATTTATTCC--TTTCTTTATGACTGTCTACAACTTATTTTCAATCCTGTTCAATTAAATTTTAAAAGTAATGGCATAGTCCTTACAAAGCATAAAGCACAGTT-----T-----ACAGCCTTGCCTGCAACCTCTAGTGCATATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779238 249 -   1015025 CACTTATTTTAAAACTGCAAATCATGTATTCAGATTTT--AACAATGACTTCTATGATGAATAAC-TTTAAATACT--C--TCTG--AATTTCTTCGCTGCTCTCATTTCTAACTC----TTTAGTTACATTTATTCC--TTTCTTTATGACTATCTACAACTTATTTTCAA-CCTGTTCAATTAAATTTTAAAAGTAATGGCATAGTCCTTACAAAGCATAAAGAGCAGTT-----T-----ACAGCCTTGCCTGCAACCTCTAGCCCATATTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793129 250 -   2295209 cacttattttaaaactgcaaatcATGTATTCAGATTTT--AACAATGACTTCTATGACAAATAAC-TTTAAATACT--C--TCTG--AATTTCTTCACTGCTCTCATTTCTAACTC----TTTAGTTACGTTTATTCC--TTTCTTTATGACTATCTACAAATTATTTTCAATCCTGTTCAATTAAATTTTAAAAGTAATGGCATAGTCCTTACAAAGCATAAAGAGCAGCT-----T-----ACAGCCTTGCCTGCAACCTCTAGCACATATTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912048 257 +  31815103 cccctattttaaaactgcaaatcATGTATTAAACTTTTAAAAAAAGAGCTTCTCTGATCAATAAC-TTTTAGTAGT--C--TCCTTGAATTTCTTCATTGCTTTTATTTCTAACTC----TTTAGTCACATTTATTTCTTTTTCTTTATTACTATCTACAACTTATTTTCAATCCTGTTCAATTAAATTTTGGAAATATGGGCATAGTCCTTACCAAACATAAAGAGTAGTT-----T----TAAAGCCACGCCTAAAACCTCTAGTGTATATTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5009164 255 +  13104022 cacctattttaaaactgcaaatTATGTATTAAAATTTT--AAAAAGAACTTCTATGATCAATGAC-TTTTAATATT--C--TCTTTGAATTTCTTCACTGCTTTCATTTCTAACTC----TTTAGTCATATTTATTCCTTTTTCTTTATTACTATCTACAACTTATTTTCAATCCTGTTCAACTAAATTTTAGAAATACGGGCATAGTCCTTACAAAACATAAAGAGTAGTT-----T----TAAAGCTGCGCCTAAAACCTCTAGTGTATATTT
i proCoq1.NW_012140524v1    I 20 C 0
s mm10.chr6                   2354404 245 - 149736546 CATTCACTGCAAAACTGTAAGCCTAGTATAAAGATTTC-------TAAGTCCTGTAGCTAGTGAC-TGTAACTGTTG-C--TTTA--AATGTGCCCA--GTTTTCATCCCTAACCCTTGTTTCAGTTCTTTTTGTTTC--TTTCGTTCCAACAATCCACATCTTATTTCCAGACCTGCTCAA-------TTTGAAGCAATTGCACAGTGCTAAGAAGCCTAAAAGATTAATTGATTGT-----AGAGCCTTGCCCATGGTC-CTAGCACATATTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19653122 255 +  45876710 TATCCATTTAAAAACTGTACATTCTGTATTTAAATTTT--AAGGA--GTCTCTATGGCAGAAAACTTTTAAATACT--CCATTTT--AATTTC-TCACTGCTTTGATTTCTAACTC----TTTAGTCACATTCATTCC--TTTCTTTATGACTATTTACAACTTATTTTCAATCCTGTGCAACTGAATTTTAGAAATAAGGGCATAGTCCCTACAAAGCATAAAAAACAATT-----TACTTTAGAGCCTTGCCTAAAACCTCTGGTATATACTT
i canFam3.chr27             I 45 I 146
s dasNov3.JH562883             862908 257 -   1687904 cacttttttggaaactgcaaatcccgtATTTAAATTTT--TAAAAGAGCATTTATAACCAGTCAC-TCTTAATTCTGCC--TTTG--AATTTCTTCACTGCTTTCATTTCTAACTC----TTTAATCACATTCACTCC--TTTCTTTATGATTATCTACAAATTACTTTCAATCCTGTTCAATTTAATTTTAGAAACAAGGGCACGGTGCTTCTAAAGCCTAAGGAGCAGTT-----TGCTTTAAAGGCTTGCCGACAACCTCTGGCATCTATTT
i dasNov3.JH562883          C 0 C 0

a score=5151412.000000
s hg38.chr12_GL383549v1_alt       746 412 +    120804  
s panTro5.chr12              62695613 412 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60822212 412 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037383 412 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222440 410 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537420 410 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108936885 410 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1314702 410 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208057 410 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706401 410 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       101210 409 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3489881 411 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11323801 413 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779487 416 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793379 417 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912305 432 +  31815103  
i micMur3.chr21             C 0 I 4
s proCoq1.NW_012140524v1      5009419 430 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 36
s mm10.chr6                   2354649 348 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19653523 475 +  45876710  
i canFam3.chr27             I 146 C 0
s dasNov3.JH562883             863165 427 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=28944.000000
s hg38.chr12_GL383549v1_alt      1158 2 +    120804 TT
s panTro5.chr12              62696025 2 + 137163284 TT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60822624 2 + 135337776 TT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037795 2 -  32808036 TT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222850 2 +  34552619 TT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537830 2 - 133663169 TT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937295 2 - 137757926 TT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315112 2 -   7948249 TT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208467 2 -  10730278 TT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706811 2 - 128539186 TT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       101619 2 +    435186 TT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490292 2 +   9309688 TT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324214 2 -  29834108 TT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779903 2 -   1015025 TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793796 2 -   2295209 TT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912741 2 +  31815103 TT
i micMur3.chr21             I 4 C 0
s mm10.chr6                   2354997 1 - 149736546 -T
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19653998 2 +  45876710 TT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             863592 2 -   1687904 TT
i dasNov3.JH562883          C 0 M 382
e proCoq1.NW_012140524v1      5009849 36 +  13104022 I

a score=385091.000000
s hg38.chr12_GL383549v1_alt      1160 41 +    120804 TGTAGGGGGAGGTCCAAGTTCACGACACA--TCACACTACATT
s panTro5.chr12              62696027 41 + 137163284 TGTAGGGGGAGGTCCGAGTTCACGACACA--TCACACTACATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60822626 41 + 135337776 TGTAGGGGGAGGTCCGAGTTCACGACACA--TCACACTACATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037797 41 -  32808036 TGTAGGGGGAGGTCCAAGTTCACGACACG--TCACACTACATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222852 41 +  34552619 TGTAGGGGGAGGTCCAGGTTCACGACACG--TCACACTACATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537832 43 - 133663169 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937297 43 - 137757926 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315114 43 -   7948249 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208469 43 -  10730278 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706813 43 - 128539186 TGTAGGGGAAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       101621 43 +    435186 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490294 43 +   9309688 TGTAGGGGGAGGTCCAGGTTCACGACACATGTCAGCTTACATT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324216 43 -  29834108 TGTAGAGTAAGGTTCAGGTTCACAACACATGTCAGACTACATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779905 43 -   1015025 TGTAGAGTGAGGTCCGGGTTCACGACACATATCAGACTACATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793798 43 -   2295209 TGTAGAGTGAGGTCCAGGTTCACAACACATATCAGACTACATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912743 30 +  31815103 TTCAGGGGGAGGCCCAGGTCCACTAAGCAT-------------
i micMur3.chr21             C 0 C 0
s mm10.chr6                   2354998 38 - 149736546 TGTATGGAGAAACTGAAAACCACACC-----TCAGAGCACATT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19654000 43 +  45876710 GGAAGGGGGAGGCCCAGGTCCATGACACATTTCAGGCTACATT
i canFam3.chr27             C 0 C 0
e proCoq1.NW_012140524v1      5009849 36 +  13104022 I
e dasNov3.JH562883             863594 382 -   1687904 M

a score=1945367.000000
s hg38.chr12_GL383549v1_alt      1201 128 +    120804 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGCATAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
s panTro5.chr12              62696068 128 + 137163284 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60822667 128 + 135337776 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037838 128 -  32808036 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGAGGGCCATGTGATTGCAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7222893 128 +  34552619 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGTTTGGATAGCTGTGGAGGGCCATGTGATTGCAACAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104537875 128 - 133663169 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937340 128 - 137757926 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315157 128 -   7948249 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208512 128 -  10730278 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706856 128 - 128539186 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       101664 128 +    435186 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490337 128 +   9309688 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGTTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324259 128 -  29834108 TTATAGAAGTATAGGA-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGAGGGCCGTGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       779948 128 -   1015025 TTATAGAAGTATAGAG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGAGGGCCATGTGATTATAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793841 128 -   2295209 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGAATAGCTGTGGAGGGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912773 128 +  31815103 TTATAGAAGTGTAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGATAGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5009885 128 +  13104022 TTATAGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGATAGCTGTGGATAGCCATGTGATTGTAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAGTGAAAGAT
i proCoq1.NW_012140524v1    I 36 C 0
s mm10.chr6                   2355036 128 - 149736546 TTATACAAGTGTAGGGTTTTTATTCAGCTTCCCATCTCTGCTGGCTGCCTGCTTGGG-AACTGGGGAGGGCTGTGTGATTGTAGCAAGGACTGGACGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19654043 128 +  45876710 TTATGGAAGTATAGGG-TTTTATTAAACTTCCTGTTTCTGCTGGCTGCTTGCTTGGGTAGCTGTGGAGGGCCATGTGATTATAGCAAATGCTGGATGTAAATTTATATCTTTGGCATAAAATGAAAGAT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             863594 382 -   1687904 M

a score=3982761.000000
s hg38.chr12_GL383549v1_alt      1329 282 +    120804 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAA--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTAGCAAATTTTTCATGGGAGGCCATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCATATTGGCCCAAGGTAACATTA------AA-----GCTAGAA
s panTro5.chr12              62696196 282 + 137163284 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAA--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTAGCAAATTTTTCATAGGAGGCCATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGG--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCATATTGGCCCAAGGTAACATTA------AA-----GCTAGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60822795 281 + 135337776 AAAATTATTGGAAATCTGAAAATG-TTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAA--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTAGCAAATTTTTCATGGGAGGCCATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGG--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCATATTGGCCCAAGGTAACATTA------AA-----GCTAGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3037966 282 -  32808036 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAA--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTAGCAAATTTTTCATGGGAGGCCATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCATATTGGCCCAAGGTAACATTA------AA-----GCTAGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223021 282 +  34552619 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTGTACCACCTTAGAG--AGGGAAAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTAGCAAATTTTTCATGGGAGGCCATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCACAGATGATTAAAGCAAGTTGGCCCAAGGTAACATTA------AA-----GCTAGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538003 282 - 133663169 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTATACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937468 282 - 137757926 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTATACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315285 282 -   7948249 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208640 282 -  10730278 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100706984 273 - 128539186 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGA-------------GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       101792 282 +    435186 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490465 282 +   9309688 AAAATTATTGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATAGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATCTGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGACCCAAGGTAACATTA------AA-----GCTAGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324387 279 -  29834108 AAAATTATCGGAAATCTGAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTATACTACACCACCTTAGAG--AGGGAGAGGAACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GATCACTTAGATATTCTCCAT----------CAAGT---------------AATATGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGGCCCAAGGTAAC---A------AA-----GCTAGAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780076 279 -   1015025 AAAATTATCGGAAATCTTAAAATGTTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTATACTACACCACCTTAGAG--AGGGAGAGGAACAGAATTAATGTCAATAATCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AATATGT--GCTGGAAAGGTTTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGGCCCAAGGTAAC---A------AA-----GCTAGAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1793969 279 -   2295209 AAAATTATCGGAAATCTGAAAATATTTTTGCTTGTATAAAAACTTGATCTTAAAAGTTACACTACACCACCTTAGAG--AGGGATAGGAACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTTCATGGGAGGCAATGGG----GGTGTGATTAATGCTTCCC---AA---GAACACTTAGATATTCTCCAT----------CAAGT---------------AACATGT--GCTGGAAAGGATTGAATGCTAGGTCCCCAGATGATTAAAGCAAGTTGGCCCAAGGTAAC---A------AA-----GCTAGAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2912901 292 +  31815103 AAAATTATCGGAAATACGAAAATGTGTTTGCTTGTCTAACAACTTGATCTTGAAATTTACAGTCCACCACCTTAGAC--AGGGAGAGGGACAGGATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTCCATGGGTGGCAATAGT----GGTGTGATTAATGCTTACC---AA---GAACACTTAGATATTCTCTATCATAGACCCACAAGT---------------AATCTGT--GCTGGAGAGGGTTGAATGCTAGGTCCCCAGATGATTAAAGCAACTTGGCCCAGGGTAACATTA------AA-----CCTAGAT
i micMur3.chr21             C 0 I 7
s proCoq1.NW_012140524v1      5010013 294 +  13104022 AAAATTATCGGAAATATGAAAATGTTTTTGCTTGTCTAACGGCTTGATCTTGAAATTTACAGTCTACCACCTTAGAAAGAGAGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGTTTGGGCTTCTGGCAAATTTTCCATGGGCGGCAATAGT----GGTGTGATTAATGCTTACC---AA---GAACACTTAGATATTCTCCATCGTAGGCCCACAAGT---------------AATCTGT--GCTGGGGAGAGTTGAATGCTAAGTCCCCAGATGATTAAAGCAACTTGGCCCAAGGTAACATTG------AA-----TCTAGAT
i proCoq1.NW_012140524v1    C 0 I 7
s mm10.chr6                   2355164 284 - 149736546 ACTATGATCAGAAATGTGCAAATGTTTCTGCTTGTCTAACAACTTGATCTTAGAAGTT-CAATGCACC-TCTCGGAA--GGGGGGAGGGACCGAATGAATGTCAATAGTCTAAACATTGGTTTGGGCTTCTGGCAGATTCCCCATGAGAGGCAGTGGGGTGCGGTGCGGTGAATGCTTACC---GA---GCATGCTGGGATATTCTCCAT----------CACG---------------------GG--CCCACACAAGATCTGCTTACTGCTCCCCAGACAGTGAAAACTACTTGGCTCAGAGTACTATCACTCTGGAT-----CCTACAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19654171 297 +  45876710 AAAATTATCGGAAATCTGAAAATGTTTTTGCTTGTCTAACAATTTGATCTTAGAAGTTACTGTATACCACCTTAGAG--AAGGAGAGGGACAGAATTAATGTCAATAGTCTAAATATTGGCTTGGGCTCCTGGCAAGTTTTCCATGAGAGGCAATGGA----AGTGCAATTAATGCTTACCAGGAA---GAACACTCAGATATTCTCCATCACAGGCCCACATGT---------------AATCTGTGGGCTGGAAAGGGTTGAATGCTGGGTCCCCAGATAATTAAAGCAACTTGGCCCAAGGTAGCCTTA------AA-----TCTAGAC
i canFam3.chr27             C 0 I 7
s dasNov3.JH562883             863981 299 -   1687904 AAACTGATCGGAAATCTGAACATGTGTTTGCTTCTTTAACAACTTGATCTTAGGAGCTACAGGATCCTGCCTTAGAG--AGGGAAAGGGAGAGAATTAATGTCAGGAGTCTACACATTTGCTTGGACTCCAGGCAAATTTTCCATGGGAAGCCACGGGG---GGTGAGAGGAATGCTAACC---AAGAGGAACATTTAGATAGTCTCCCT--------CCCAGGCCCCCCTGGGGGCTGGGGGCTGT--GTCGGACAGGGGTCAGAG-------CCCAGGCTGCGAAGGCAA--CGGTCTACGGTGGCGTCA------AACGGACTCCGGGG
i dasNov3.JH562883          M 382 C 0

a score=1726175.000000
s hg38.chr12_GL383549v1_alt      1611 128 +    120804 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATACCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCACACAC--------------------------------GGAAAGTTTCCAACT----ACACATTTCCTACTAAATGAA
s panTro5.chr12              62696478 128 + 137163284 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTACACCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCAAACAC--------------------------------GGAAAGTTTCCAACT----ACACATTTCCTACTAAATGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823076 128 + 135337776 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTACACCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCAAACAC--------------------------------GGAAAGTTTCCAACT----ACACATTTCCTACTAAATGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038248 128 -  32808036 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATACCCAGATT-TTGAAG----AA--AAAATAACTAATCAATAAATGCACACAC--------------------------------GGAAAGTTTCCAACT----ACACATTTCCTACTAAATGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223303 128 +  34552619 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AC--AAAATAACTAATCAACAAATGCACACAC--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538285 128 - 133663169 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAAATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937750 128 - 137757926 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAAATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315567 128 -   7948249 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAAATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8208922 128 -  10730278 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707257 128 - 128539186 CTCAATTATTCCA-GTTAAACTAGTAAAAA-TGGGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102074 128 +    435186 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGCTTCCAACT----AAACATTTCCTACTAAATGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490747 128 +   9309688 CTCAATAATTCCA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAACAACTAATCAACAAATACACACAT--------------------------------GGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324666 128 -  29834108 CTCGCTAATTCTA-GTTAAACTAGTAAAAG-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCACACAC--------------------------------AGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780355 128 -   1015025 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTATATCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCATACAC--------------------------------AGAAAGTTTCCAACT----AAACATTTCCTACTAAATGAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794248 128 -   2295209 CTCAATAATTCTA-GTTAAACTAGTAAAAA-TGAGAGATTTAAATTTCTATCCAGATT-TTGAAG----AA--AAAATAACTAATCAACAAATGCACACAC--------------------------------AGAAAGTTTCCAACT----AAACATTTCCTACTAAATAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913200 132 +  31815103 TTCAATAAATCTA-GTTAAACTAGTAAAAA-TGAAAGATTTGAAATTACATCTGGATT-TTAAAGAAAAAA--AAAATAACTAATCAACAAATACACACAA--------------------------------GAACAGCTTCCCACT----AAACATTTCCTACTAAATGAA
i micMur3.chr21             I 7 I 3
s proCoq1.NW_012140524v1      5010314 128 +  13104022 TTCAGTAAATCTA-GTTAAACTAGTAAAAA-TGAAGGATTTAAAATTACATCTGGATT-TTAAAG----AA--AAAATAACTAATCAACAAACACACACAA--------------------------------GAACAGTTTCCTGCT----AAACATTTCCTACTAAATGAA
i proCoq1.NW_012140524v1    I 7 I 32
s otoGar3.GL873576            4502221 157 -  12054995 CTTAATATTTATGTGCTGTAGTAGTGAAAA-TGAAAGATTTAGATTTACACCTGGATT-TTGAAG----AA--AAAA----TAATTGACAAATATGCACAATAACATATTAAACATTTCCTTACTAAACATTTAAACATTTCCTTACT----AAACATTTCCTACTAAATGAA
i otoGar3.GL873576          N 0 C 0
s mm10.chr6                   2355448 112 - 149736546 CTCAATAATTCTA-GTTAAACTAGATAGTG-TACGAGATGTAAATTTATATCTAGGTTCTTGGAG----AA--AAGA--ACCCATCCACAGATGTGCGTCA--------------------------------G-------------------AACAATGTTTACTAGATCAG
i mm10.chr6                 C 0 I 17
s canFam3.chr27              19654475 117 +  45876710 CTCAACAATTCTA-GTTAAATTAGTAAAAAGTAAGAGTTTTAAATTTACATCTCAATT-TTTGAG----GATGAAAATAACTAATCAACACATGCACACAA--------------------------------GAATGG------------------TTTCCCACTAAATGAA
i canFam3.chr27             I 7 C 0
s dasNov3.JH562883             864280 115 -   1687904 CTCAGCAAGTCTA-ACCT-------------CGAGAGAGTTAAATTTACGTCCAGATT-TTAGAA--GAAA--AAAACAACTGATGATCAAGTGCACAAAA--------------------------------GGACGGTTTTCGACTGAAAGAACACCCCTCACC-------
i dasNov3.JH562883          C 0 C 0

a score=316048.000000
s hg38.chr12_GL383549v1_alt      1739 32 +    120804 AAATCCCATACCCAG-ATATTCATAGC--TTCTAA
s panTro5.chr12              62696606 32 + 137163284 AAATCCCATACCCAG-GTATTCATAGC--TTCTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823204 32 + 135337776 AAATCCCATACCCAG-GTATTCATAGC--TTCTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038376 32 -  32808036 AAATCCCATACCCAG-ATATTCATAGC--TTCTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223431 32 +  34552619 AAATCCCATACCCAG-ATATTCATAGC--TTCTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538413 32 - 133663169 AAATCCCATACCCAG-ATATTCATAGC--TTCTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937878 32 - 137757926 AAATCCCGTACCCAG-ATATTCATAGC--TTCTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315695 32 -   7948249 AAATCCCGTACCCAG-ATATTCATAGC--TTCTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209050 32 -  10730278 AAATCCTGTACCCAG-ATATTCATAGC--TTCTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707385 32 - 128539186 AAATCCCGTACCCAG-ATATTCATAGT--TTCTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102202 32 +    435186 AAATCCCGTACCCAG-ATATTCATAGC--TTCTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490875 32 +   9309688 AAATCCCGTACCCAG-ATATTCATAGC--TTCTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324794 30 -  29834108 AAATCCCGTACCCTG-ATATTCGTAGC--TTCT--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780483 30 -   1015025 AAATCCTGTACCCTG-ATATTCATAGC--TTCT--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794376 30 -   2295209 AAATCCCGTACCCTG-ATATTCATAGC--TTCT--
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913335 30 +  31815103 AAGTCCCCTGCCCTG-ATGTGCACAGC--TTCT--
i micMur3.chr21             I 3 C 0
s otoGar3.GL873576            4502378 30 -  12054995 AAATTCTCTGCTCTG-ATGTGCACAGC--TTCT--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355577 31 - 149736546 CATTTCCTCACCCCG-CT-CTGAAAGCCACTCT--
i mm10.chr6                 I 17 C 0
s canFam3.chr27              19654592 28 +  45876710 AAACTC--TGCCCTG-ATATGCATAGT--TTCT--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864395 28 -   1687904 ---TCCCCTGCTTTGCATAGCAACAAC--TTCT--
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5010442 32 +  13104022 I

a score=3964453.000000
s hg38.chr12_GL383549v1_alt      1771 279 +    120804 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCTCTCTTACCCTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGCACTCAGACTGCACATGTACAGATAAATACACA--TCC---CAAAA-CTA--TTTTTTCACCCTCACCC
s panTro5.chr12              62696638 279 + 137163284 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCTCTCTTACCCTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGCACTCAGACTGCACATGTACAGATAAATACACA--TCC---CAAAA-CTA--TTTTTTCACCCTCACCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823236 279 + 135337776 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCTCTCTTACCCTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGCACTCAGACTGCACATGTACAGATAAATACACA--TCC---CAAAA-CTA--TTTTTTCACCCTCACCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038408 279 -  32808036 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCTCTCTTACCCTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACG-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGCACTCAGACTGCACATGTACAGATAAATACACA--TCC---CAAAA-CTA--TTTTTTCACCCTCACCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223463 281 +  34552619 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTCATTGCCACAGCTGCACCAATTCTCTCTCACCCTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GAA---ATACCACAGAAGGGTCTGATAACAACACATTTGGACTCAGACTTCACATGTACAGATAAATACACA--TCC---CAAAA-CTACTTTTTTTCACTCTCACCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538445 279 - 133663169 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGGACTCAGACTGTACATGTACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108937910 279 - 137757926 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCCCAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGGACTCAGACTGTACATGTACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1315727 279 -   7948249 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCCCAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGGACTCAGACTGTACATGTACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACGCTCACCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209082 279 -  10730278 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTGTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACGTTTGGACTCAGACTGTACATGTACAGATAAATACATA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707417 279 - 128539186 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATATCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTAGACTCAGACTGTACATGTACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102234 279 +    435186 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGGACTCAGACTGTACATGTACAGATAAATACATA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3490907 279 +   9309688 TTATTTTGTACTCAAATTTCCCAGGTATTTTTTCATTAGATACCCTTATTCTCTCACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAATTCCCTCTCACCTTTCTCTGA-TTT---TTGAGGGCAACTGGAAACCAGTGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----GGA---ATACCACAAAAGAGTCTGATAACAACACATTTGGACTCAGACTGTACATGTACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTGTCACCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11324824 279 -  29834108 TTGTTTTGTACTCAAACTTCCCAGGTATTTTTTATTTAGATACTCTTATTCTCTAACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCACTTCTCTCTCACCGTTCTCTGA-TTA---TTGAGGGCAACTGGAAGCCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----AGA---ATACTGCAAAAGAATCTGATAACAACACATTTGAACTCAGACTGCACATGCACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780513 279 -   1015025 TTATTTTGTACTCAAACTTCCCAGGTATTTTTTATTTAGATACTCTTATTCTCTAACAAAAAGGTTGTAATAAGGTTGTTGCCACAGCTGCACCAGTTCTCTCTCACCCTTCTCTGA-TTA---TTGAGGGCAACTGGAAGCCAGTGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----AGA---ATACCACAAAAGAATCTGATAACAACACATTTGAACTCAGACTGCACATGCACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794406 279 -   2295209 TTATTTTGTATTCAAACTTCCCAGGTATTTTTTATTTAGATACTCTTGTTCTCTAACAAAAAGGTGGTAATAAGGTTGTTGCCACAGCTGCACCAGTTCTCTCTCACCCTTCTCTGA-TTA---TTGAGGGCAACTGGAAGCCAATGTGGTTTGTTTTTGTACATAGTAACTT--------------GGCCCAGGTCACA-----AGA---ATACCGCAAAAGAATCTGATAACAACACATTTGAACTCAGACTGCACATGCACAGATAAATACACA--TCC---CAAAA-CTA--CTTTTTCACTCTCACCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913365 267 +  31815103 TCATTTCATACTCAAACTTCCTAGGTAATTTTTAATTAGATACCCTTGTCAGCTAAC-----------AGTCAGGTTGTTGTCACAGCTGCACCAATTCTATCTCGCCCTTCTGTGATTTG---GGGGAGGGGTCTGGAAGCCAATGTGGTTTGTTTTCGTACACAGCAACTT--------------GGCCCCGATCACA-----GGA---AGACCACAAAGGAGTCTTAT---AGCACATTTGAACTCAGACTGCACATGCACAGATAAATACACA--TCCCCAAAATA---A--TTTTTTCACTCATACCC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010474 248 +  13104022 TTATTTCATATTCAAACTTCCTAGGTACTTTTTAATTAGATACCCTCGTTATCTAA---------------CAGGTTGTTGTCACAGCTGCACCAA-------------TTCTGTGA-TTG---GGGGAGGGGACTGGAAGCCAATGTGGTTTGTTTTTGTGCATAGCAACTT--------------GGTCCCGATCACA-----GGA---AGACCACGAAAGAGTCTGAT---AGCACATTTGGACTCAGACTGTACATGCGCAGATAAATACACA--TCC---AAATA-CTA--TTTTTTCGCTCTCACCC
i proCoq1.NW_012140524v1    I 32 C 0
s otoGar3.GL873576            4502408 277 -  12054995 TTATTTCGTACTTAAACTTCCTAGGTACTTTTGAATTAGATTCCCTTGTTACCTAAC-----------GGTAAGGTTGTTGT--------TACCCATTCTGTCTCACC-CTCTGTGATTTA---GGGGTGGGGACT-GAAGCCAATGTGGTTTCTTTTTATACATAGCAACTTAGAAGACCACAAAAGAATCTGATAACATATTTGGACTTAGACCACAAAAGAATTTGAT---AACACATTTGGACTTAGACTGTACATGCACAAATAACTATACC--CCC---AAA-A-CTA--TTTTTTCACTCTCACTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355608 262 - 149736546 TCATTTCCTAGTC-----TCCTAGGTATTTCTAAATTGGATACCCTTGTTCTCTGAC-----------AATGAGGTTGTTGCCACAGCTGCACCAGTTCTGTCTGCCCCTTCTCTGA-TTTGGGGGGGGGGGGACTGGAAACCAATGTGGTTTGTTTTTGTACATAGCAACTT--------------GGCGCAGATCTTA-----GGA---AGACCACAAAAGAATCTGAT---AACACACTTGGACTCAGACTGCACACGCACAGATAGAAACACA--TCC---CACGT-CTG---GTCTCCGTGCTCACCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19654620 263 +  45876710 TTTTTTCATACTGAAACTT-CTAGGCACTTATAAATCAGATACCCTCATTCTCTAAC-----------AATAAGGTTGTTGCCACAGCTGCACTAGTTCCATCTCCCCCTTCTCTGA-TTT---TAGGGGG-GACTAGAAACCAGTGTGGTTTGTTTTTGTACATAGTGACTT--------------GGCCCAGATCACA-----GGA---AGACCAC--AAGAGTCTGAT---AACACATTTGGACTCAGACTCCACACGCAAAAATAAAAACATACGTCC---AAAAA-CCA--CTTTTTCACTCTCACTC
i canFam3.chr27             C 0 I 495
s dasNov3.JH562883             864423 261 -   1687904 CTGTTTTGTTCTCAAACTTCCCCGGCACTTTTAGACTAGAAACCCATGTTCTCAAAC-----------AGTAAGGCTGTTGCCACAGCTGCACTGATTATATCTCCCCCTTCTCCGA-GTT---TTTGGGGTG-CTGAAAACCAGGGCGGTTGGTTTTTGTCCATGGTGACTT--------------GGCTCAGATCATG-----GGA---ATACCACAAAAGAATCTGAT---AAGGTATTTGGACTCAATCTGGACA-GAACA---CGATATACA--TCC---AAAAAGACA--CTCTTTCATTCTTGTGC
i dasNov3.JH562883          C 0 C 0

a score=131504.000000
s hg38.chr12_GL383549v1_alt      2050 11 +    120804 ACAGAGACAAT
s panTro5.chr12              62696917 11 + 137163284 ACAGAGACAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823515 11 + 135337776 ACAGAGACAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038687 11 -  32808036 ACAGAGACAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223744 11 +  34552619 ACAGAGACAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538724 11 - 133663169 ACAGAGATGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108938189 11 - 137757926 ACAGAGATGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1316006 11 -   7948249 ACAGAGATGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209361 11 -  10730278 ACAGAGATGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707696 11 - 128539186 ACAGAGATGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102513 11 +    435186 ACAGAGATGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3491186 11 +   9309688 ACAGAGATGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11325103 11 -  29834108 ACAGAGATGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780792 11 -   1015025 ACAGAGATGAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794685 11 -   2295209 ACAGAGATGAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913632 11 +  31815103 ACAGAAATGAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010722 11 +  13104022 ACAGAAACGAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4502685 11 -  12054995 ACAGAAATGAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355870 11 - 149736546 ACCGCGGTGAG
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             864684 11 -   1687904 ATGGGGATGAA
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19654883 495 +  45876710 I

a score=1075243.000000
s hg38.chr12_GL383549v1_alt      2061 78 +    120804 ATATCACTGCCGTTAGAGTCATCAACTGCTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
s panTro5.chr12              62696928 78 + 137163284 ATATCGCTGCCGTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823526 78 + 135337776 ATATCGCTGCCGTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038698 78 -  32808036 ATATCACTGCTGTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223755 78 +  34552619 ATATCGCTGCTGTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCGTGGAGCCATTGCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538735 78 - 133663169 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCGTGGAGCCATTCCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108938200 78 - 137757926 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCGTGGAGCCATTCCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1316017 78 -   7948249 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCGTGGAGCCATTCCAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209372 78 -  10730278 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707707 78 - 128539186 ATATAGCTGCCATTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102524 78 +    435186 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3491197 78 +   9309688 ATATAGCTGCCGTTAGAGTCATCAAACGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCTGTGGAGCCATTCCAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11325114 78 -  29834108 ATATCATTGCCTTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780803 78 -   1015025 ATATCATTGCCTTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794696 78 -   2295209 ATATCATTGCCTTTAGAGTCATCAAATGTTTCAGAACATGAAATGCCACTTTAAGACAGTGCCATGGAGCCATTCCGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913643 78 +  31815103 ATATTTTTGCCTTTAAAATAATAAAATGTTTCAGAACATGAAATGCCATTTTAAAACAATGCCATGGAGGCACGCCAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010733 78 +  13104022 ATATTTTTGCCTTTAGAGTAATAAAATGTTTCAGAATGTGAAATGCCATCTTAAGACAATGCCATGGAGGCATGCCAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4502696 78 -  12054995 ATATTGCTGCCTTTAGGGTAATCAAATGTTTTAAAACATGAAATACCATTTTCAGACAATGCCATGAAAGCACACCAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355881 78 - 149736546 GTGTTCCTGCTTTCAAAGGCAGCAAGCGTTTCTGAGCGTGGAATGCTGTTTTAAGAGGATACTGTATGGGTTGGCCAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655378 62 +  45876710 ATATGGCTACTTTTAGAGGTATCCAGTGTTTCAGAACATGAAATGCCA----------------TGGAGGCATACCAG
i canFam3.chr27             I 495 I 9
s dasNov3.JH562883             864695 51 -   1687904 ACGCTGCTGCTTTTAGAGTCAGCAAATGT---------TGAAATCCC------------------GGAGCTATGCCAA
i dasNov3.JH562883          C 0 C 0

a score=119699.000000
s hg38.chr12_GL383549v1_alt      2139 8 +    120804 GCATTCAT
s panTro5.chr12              62697006 8 + 137163284 GCATTCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823604 8 + 135337776 GCATTCAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038776 8 -  32808036 GCATTCAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223833 8 +  34552619 GCATTCAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538813 8 - 133663169 GCATTCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108938278 8 - 137757926 GCATTCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1316095 8 -   7948249 GCATTCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209450 8 -  10730278 GCATTCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707785 8 - 128539186 GCATTCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102602 8 +    435186 GCATTCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3491275 8 +   9309688 GCATTCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11325192 8 -  29834108 GCATTCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780881 8 -   1015025 GCATTCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794774 8 -   2295209 GCATTCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913721 8 +  31815103 GCATTCAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010811 8 +  13104022 ACATTCAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4502774 8 -  12054995 GCATTCAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355959 8 - 149736546 ACATCCAG
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             864746 8 -   1687904 GTATTTTA
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19655440 9 +  45876710 I

a score=59439.000000
s hg38.chr12_GL383549v1_alt      2147 6 +    120804 TAAAGC
s panTro5.chr12              62697014 6 + 137163284 CAATGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823612 6 + 135337776 CAAAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038784 6 -  32808036 TAAAGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223841 6 +  34552619 TAAAGC
i nomLeu3.chr23             C 0 I 13
s rheMac8.chr11             104538821 6 - 133663169 TAAATC
i rheMac8.chr11             C 0 I 7
s macFas5.chr11             108938286 6 - 137757926 TAAATC
i macFas5.chr11             C 0 I 7
s macNem1.NW_012011422v1      1316103 6 -   7948249 TAAATC
i macNem1.NW_012011422v1    C 0 I 7
s cerAty1.NW_011999477v1      8209458 6 -  10730278 TAAATC
i cerAty1.NW_011999477v1    C 0 I 7
s chlSab2.chr11             100707793 6 - 128539186 TAAATC
i chlSab2.chr11             C 0 I 7
s manLeu1.NW_012101287v1       102610 6 +    435186 TAAATC
i manLeu1.NW_012101287v1    C 0 I 7
s colAng1.NW_012114364v1      3491283 6 +   9309688 TAAATC
i colAng1.NW_012114364v1    C 0 I 7
s saiBol1.JH378123           11325200 6 -  29834108 TAAAGC
i saiBol1.JH378123          C 0 I 6
s cebCap1.NW_016107911v1       780889 6 -   1015025 TAAAAC
i cebCap1.NW_016107911v1    C 0 I 7
s aotNan1.NW_018488218v1      1794782 6 -   2295209 TAAAGC
i aotNan1.NW_018488218v1    C 0 I 7
s micMur3.chr21               2913729 6 +  31815103 TAAAGC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010819 6 +  13104022 TACAGC
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                   2355967 6 - 149736546 TAAAGC
i mm10.chr6                 C 0 I 11
s dasNov3.JH562883             864754 6 -   1687904 AAAGGC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4502782 0 -  12054995 C
e canFam3.chr27              19655440 9 +  45876710 I

a score=20998.000000
s hg38.chr12_GL383549v1_alt      2153 2 +    120804 tt
s panTro5.chr12              62697020 2 + 137163284 tt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823618 2 + 135337776 tt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038790 2 -  32808036 tt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223860 2 +  34552619 tt
i nomLeu3.chr23             I 13 C 0
s rheMac8.chr11             104538834 2 - 133663169 tt
i rheMac8.chr11             I 7 C 0
s macFas5.chr11             108938299 2 - 137757926 tt
i macFas5.chr11             I 7 C 0
s macNem1.NW_012011422v1      1316116 2 -   7948249 tt
i macNem1.NW_012011422v1    I 7 C 0
s cerAty1.NW_011999477v1      8209471 2 -  10730278 tt
i cerAty1.NW_011999477v1    I 7 C 0
s chlSab2.chr11             100707806 2 - 128539186 tt
i chlSab2.chr11             I 7 C 0
s manLeu1.NW_012101287v1       102623 2 +    435186 tt
i manLeu1.NW_012101287v1    I 7 C 0
s colAng1.NW_012114364v1      3491296 2 +   9309688 TT
i colAng1.NW_012114364v1    I 7 C 0
s saiBol1.JH378123           11325212 2 -  29834108 tt
i saiBol1.JH378123          I 6 C 0
s cebCap1.NW_016107911v1       780902 2 -   1015025 tt
i cebCap1.NW_016107911v1    I 7 C 0
s aotNan1.NW_018488218v1      1794795 2 -   2295209 tt
i aotNan1.NW_018488218v1    I 7 C 0
s micMur3.chr21               2913735 2 +  31815103 AT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5010825 2 +  13104022 AT
i proCoq1.NW_012140524v1    C 0 C 0
s dasNov3.JH562883             864760 2 -   1687904 TT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4502782 0 -  12054995 C
e mm10.chr6                   2355973 11 - 149736546 I
e canFam3.chr27              19655440 9 +  45876710 I

a score=46080.000000
s hg38.chr12_GL383549v1_alt      2155 4 +    120804 ttta
s panTro5.chr12              62697022 4 + 137163284 ttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60823620 4 + 135337776 ttta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3038792 4 -  32808036 ttta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223862 4 +  34552619 ttta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538836 4 - 133663169 ttta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108938301 4 - 137757926 ttta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1316118 4 -   7948249 ttta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209473 4 -  10730278 ttta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707808 4 - 128539186 ttta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102625 4 +    435186 ttta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3491298 4 +   9309688 ATTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11325214 4 -  29834108 ttta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780904 4 -   1015025 ttta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794797 4 -   2295209 ttta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913737 4 +  31815103 TTTA
i micMur3.chr21             C 0 I 32
s proCoq1.NW_012140524v1      5010827 4 +  13104022 TTTA
i proCoq1.NW_012140524v1    C 0 I 42
e otoGar3.GL873576            4502782 0 -  12054995 C
e mm10.chr6                   2355973 11 - 149736546 I
e canFam3.chr27              19655440 9 +  45876710 I
e dasNov3.JH562883             864762 0 -   1687904 C

a score=8764726.000000
s hg38.chr12_GL383549v1_alt      2159 1006 +    120804  
s panTro5.chr12              62697026 1010 + 137163284  
i panTro5.chr12             C 0 I 3
s panPan2.chr12              60823624 1010 + 135337776  
i panPan2.chr12             C 0 I 1
s gorGor5.CYUI01000003v1      3038796 1013 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7223866 1005 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104538840 1012 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108938305 1012 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1316122 1012 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8209477 1020 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100707812 1019 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       102629 1020 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3491302 1019 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11325218 1013 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       780908 1011 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1794801 1012 -   2295209  
i aotNan1.NW_018488218v1    C 0 I 20
e otoGar3.GL873576            4502782    0 -  12054995 C
e mm10.chr6                   2355973   11 - 149736546 I
e micMur3.chr21               2913741   32 +  31815103 I
e canFam3.chr27              19655440    9 +  45876710 I
e proCoq1.NW_012140524v1      5010831   42 +  13104022 I
e dasNov3.JH562883             864762    0 -   1687904 C

a score=125391.000000
s hg38.chr12_GL383549v1_alt      3165 21 +    120804 ttttttttttgttgctattgc
s panTro5.chr12              62698039 21 + 137163284 ttttttttttgtcgctattgc
i panTro5.chr12             I 3 C 0
s panPan2.chr12              60824635 21 + 135337776 tgttttttttgtcgctattgc
i panPan2.chr12             I 1 C 0
s gorGor5.CYUI01000003v1      3039809 19 -  32808036 --ttttttttgtcgctattgc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7224871 19 +  34552619 --tgttttttgtcactattgc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104539852 19 - 133663169 --ttatttttgtcgctattgc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939317 19 - 137757926 --ttatttttgtcgctattgc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317134 19 -   7948249 --ttatttttgtcgctattgc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210497 19 -  10730278 --ttatttttgtcgctattgc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100708831 19 - 128539186 --ttatttttgtcgctattgc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103649 19 +    435186 --ttatttttgtcgctattgc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492321 19 +   9309688 --ttatttttgtcgctattgc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326231 19 -  29834108 --ttatttttgtttccttggc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       781919 19 -   1015025 --ttatttttgtctccttggc
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4502782  0 -  12054995 C
e mm10.chr6                   2355973 11 - 149736546 I
e micMur3.chr21               2913741 32 +  31815103 I
e canFam3.chr27              19655440  9 +  45876710 I
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I
e aotNan1.NW_018488218v1      1795813 20 -   2295209 I
e dasNov3.JH562883             864762  0 -   1687904 C

a score=2030478.000000
s hg38.chr12_GL383549v1_alt      3186 234 +    120804 tttggggtcttcatcatacatttttttgtctagtccagtgtccacaag--tttttactagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatgtggtgagagagataagactctagtttcattcttctacatatggctatccaattttcccagcactatttattgaatagggtgtcctttctccaGCGTTCAC
s panTro5.chr12              62698060 234 + 137163284 tttggggtcttcatcataaatttttttgtctagtccagtgtccacaag--tttttactagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcgtaagttaactt-tttgtatgtggtgagagagataagactctagtttcattcttctacatatggctatccaattttcccagcactatttattgaatagggtgtcctttctccaGCGTTCAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824656 234 + 135337776 tttggggtcttcatcataaatttttttgtctagtccagtgtccacaag--tttttactagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcgtaagttaattt-tttgtatgtggtgagagagataagactctagtttcattcttctacatatggctatccaattttcccagcactatttattgaatagggtgtcctttctccaGCGTTCAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3039828 234 -  32808036 tttggggtcttcatcataaatttttttgtctagtccagtgtccacaag--tttttactagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatgtggtgagagagataagactctagtttcattcttctacatatggctatccaattttcccagcactattcattgaatagggtgtcctttctccaGCGTTCAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7224890 236 +  34552619 tttggggtcttcatcataattttttttgtctagtccagtgtccacaagattttttactagattttcttctagaatttttacagtttccagtattacgtttaagtctttaatccttcttaagttaattt-tttgtatgtggtgagagagataagactctagtttcattcttctgcatatggctatccaattttcccagcactatttattgaatagggtgtcctttctccaGCGTTCAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104539871 236 - 133663169 tttggggtcttcatcatgaattactttctctagtccagtgtccacaagagtttttaccagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagtgtttagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgTCCAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939336 236 - 137757926 tttggggtcttcatcatgaattactttctctagtccagtgtccacaagagtttttaccagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagtgtttagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgTCCAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317153 236 -   7948249 tttggggtcttcatcatgaattactttctctagtccagtgtccacgagagtttttaccagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagtgtttagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgTCCAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210516 236 -  10730278 tttggggtcttcatcatgaattactttctctagtccagtgtccacaagagtttttaccagattttcttctagaattttgacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagagtttagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgTCCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100708850 236 - 128539186 tttggggtcttcatcatgaattactttctctagtccagtgtccacaagagtttctaccagattttcttctagaatttttacagtttccagtcttacacttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagagtctagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgttCAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103668 236 +    435186 tttggggtcttcatcatgaattactttctctagtccagtgtccacaagagtttttaccagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattt-tttgtatatggtgagagagataagagtttagtttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgTCCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492340 236 +   9309688 tttggggtcttcatcatgaattattttctctagtccagtgtccacaagagtttttactagattttcttctagaatttttacagtttccagtcttacatttaagtctttaatccttcttaagttaattg-tttgtatatggtgagagagataagagtctaatttcattcttctgcatatggctatccaattttcccagcaccatttattgaatagggtgtcctttctccagtgttCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326250 232 -  29834108 tttggggtctttctcataaatttttttgtctagtccaatttccacaaaagtttttcctaggttttattctagaatttttacagtttcaagtcttacttttaagtctttaatcattctt-----aatttctttgcatatggtaagaaagataagggtccagtttcattcttctgcatatggttatccaattttcccagcatcatttattgaatagggtgtctcttctccagtgttcac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       781938 237 -   1015025 tttggggtcttcctcataaatttttttgtctagtccaatttccacaagagtttttcctacgttttcttctagaacttttacagtttcaagtcttacatttaagtctttaatccttcttaagtcaatttttttatatatggtgagaaagataagggcccagtttcattcttctgcatatggttatccaattttcccagcatcatttattgaatacggtgtcctttctccaGCGTTCAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1795833 237 -   2295209 tttggggtcttcctcataaatttttttgtctagtccaatttccacaagagtttttcctgggttatcttctagaatttttacagtttcacgtcttacatttaagtctttaatccttcttaagttaatttttttgtatatagtgagaaagataagggtccagtttcattcttctgcatatggttatccaattttcccagcatcatttattgaatagggtgtcctttccccagtgttCAC
i aotNan1.NW_018488218v1    I 20 C 0
e otoGar3.GL873576            4502782   0 -  12054995 C
e mm10.chr6                   2355973  11 - 149736546 I
e micMur3.chr21               2913741  32 +  31815103 I
e canFam3.chr27              19655440   9 +  45876710 I
e proCoq1.NW_012140524v1      5010831  42 +  13104022 I
e dasNov3.JH562883             864762   0 -   1687904 C

a score=7845.000000
s hg38.chr12_GL383549v1_alt      3420 1 +    120804 T
s panTro5.chr12              62698294 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824890 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040062 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225126 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540107 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939572 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317389 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210752 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709086 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103904 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492576 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326482 1 -  29834108 t
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782175 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796070 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502782 1 -  12054995 G
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2355973 11 - 149736546 I
e micMur3.chr21               2913741 32 +  31815103 I
e canFam3.chr27              19655440 9 +  45876710 I
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I
e dasNov3.JH562883             864762 0 -   1687904 C

a score=151396.000000
s hg38.chr12_GL383549v1_alt      3421 13 +    120804 AAAGCATTTTAAA
s panTro5.chr12              62698295 13 + 137163284 AAAGCATTTTAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824891 13 + 135337776 AAAGCATTTTAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040063 13 -  32808036 AAAGCATTTTAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225127 13 +  34552619 AAAGCATTTTAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540108 13 - 133663169 AAAGCATTTTAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939573 13 - 137757926 AAAGCATTTTAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317390 13 -   7948249 AAAGCATTTTAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210753 13 -  10730278 AAAGCATTTTAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709087 13 - 128539186 AAAGCATTTTAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103905 13 +    435186 AAAGCATTTTAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492577 13 +   9309688 AAAGCATTTTAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326483 13 -  29834108 AAAGCATTTTAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782176 13 -   1015025 AAAGCATTTAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796071 13 -   2295209 AAAGCATTTTAAA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502783 13 -  12054995 AAAACATTTTAAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19655449 13 +  45876710 AAAGCTTTTAAAA
i canFam3.chr27             I 9 C 0
e mm10.chr6                   2355973 11 - 149736546 I
e micMur3.chr21               2913741 32 +  31815103 I
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I
e dasNov3.JH562883             864762  0 -   1687904 C

a score=22498.000000
s hg38.chr12_GL383549v1_alt      3434 3 +    120804 ATC
s panTro5.chr12              62698308 3 + 137163284 ATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824904 3 + 135337776 ATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040076 3 -  32808036 ATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225140 3 +  34552619 GTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540121 3 - 133663169 ATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939586 3 - 137757926 ATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317403 3 -   7948249 ATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210766 3 -  10730278 ATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709100 3 - 128539186 ATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103918 3 +    435186 ATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492590 3 +   9309688 ATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326496 3 -  29834108 ATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782189 3 -   1015025 ATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796084 3 -   2295209 ATG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502796 3 -  12054995 ATA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355984 3 - 149736546 ACC
i mm10.chr6                 I 11 C 0
e micMur3.chr21               2913741 32 +  31815103 I
e canFam3.chr27              19655462 0 +  45876710 C
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I
e dasNov3.JH562883             864762 0 -   1687904 C

a score=229576.000000
s hg38.chr12_GL383549v1_alt      3437 24 +    120804 ATTGTT---CCTTGAGAATTATCTATT
s panTro5.chr12              62698311 24 + 137163284 ATTGTT---CCTTGAGAATTATCTATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824907 24 + 135337776 ATTGTT---CCTTGAGAATTATCTATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040079 24 -  32808036 ATTGTT---CCTTGAGAATTATCTATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225143 24 +  34552619 ATTGTT---CTTTGAGAATTATCTATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540124 24 - 133663169 ATTGTT---CTTTGAGAATTATCTATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939589 24 - 137757926 ATTGTT---CTTTGAGAATTATCTATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317406 24 -   7948249 ATTGTT---CTTTGAGAATTATCTATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210769 24 -  10730278 ATTGTT---CTTTGAGAATTATCTATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709103 24 - 128539186 ATTGTT---CTTTGAGAATTATCTATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103921 24 +    435186 ATTGTT---CTTTGAGAATTATCTATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492593 24 +   9309688 ATTGTT---CTTTGAGAATTATCTGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326499 20 -  29834108 ATTGTT---CTTTGAGAA----TTGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782192 20 -   1015025 ATTGTT---CTTTGAGAA----CTGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796087 20 -   2295209 ATTGTT---CTTTGAGAA----CTGTT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502799 27 -  12054995 ATTGTTCTCCTTTGAAAATTATTCAGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2355987 24 - 149736546 ATTCTC---TCTCCAAAATGCTGCATT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655462 24 +  45876710 GGCATT---TTTTGGAAATTATTCACT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864762 24 -   1687904 GTTCTC---CTTTGAAAATGGTTAACT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913741 32 +  31815103 I
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I

a score=129094.000000
s hg38.chr12_GL383549v1_alt      3461 10 +    120804 TTACAATTGT
s panTro5.chr12              62698335 10 + 137163284 TTACAATTGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824931 10 + 135337776 TTACAATTGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040103 10 -  32808036 TTACAATTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225167 10 +  34552619 TTACAATTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540148 10 - 133663169 TTACAATTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939613 10 - 137757926 TTACAATTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317430 10 -   7948249 TTACAATTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210793 10 -  10730278 TTACAATTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709127 10 - 128539186 TTACAATTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103945 10 +    435186 TTACAATTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492617 10 +   9309688 TTACAATTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326519 10 -  29834108 TTACAATTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782212 10 -   1015025 TTACAATTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796107 10 -   2295209 TTACAATTAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913773 10 +  31815103 TTATAATTAT
i micMur3.chr21             I 32 C 0
s otoGar3.GL873576            4502826 10 -  12054995 TTATAATTAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356011  4 - 149736546 ------TCAT
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19655486  4 +  45876710 ------TTAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864786 10 -   1687904 TTATAATTAA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5010831 42 +  13104022 I

a score=591177.000000
s hg38.chr12_GL383549v1_alt      3471 45 +    120804 -GATTTCCTTATTCTTTTCAGGCCACTCTT----AATCAGTCTAAATCTA
s panTro5.chr12              62698345 45 + 137163284 -GATTTCCTTATTCTTTTCAGGCCACTCTT----AATCAATCTAAATCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824941 45 + 135337776 -GATTTCCTTATTCTTTTCAGGCCACTCTT----AATCAGTCTAAATCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040113 45 -  32808036 -GATTTCCTTATTCTTTTCAGGCCACTCTT----AGTCAGTCTAAATCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225177 45 +  34552619 -GATTTCCTTATTCTTTTAAGGCCACTCTT----AATCAGTCTAAATCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540158 41 - 133663169 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939623 41 - 137757926 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317440 41 -   7948249 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210803 41 -  10730278 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709137 38 - 128539186 -GATTTCC---TTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103955 41 +    435186 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492627 41 +   9309688 -GATTTCCTTATTCTTTTCAGGCCACTCTT--------AGTCTAAATCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326529 45 -  29834108 -GATTTCCTTATTCTTTTTAGGCCACTCTT----AATCAGTGTAAATCTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782222 45 -   1015025 -GATTTCCTTATTCTTTTTAGGCCACTCTT----AATCAGTCTAAATCTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796117 45 -   2295209 -GATTTCCTTATTCTTTTTAGGCCACTGTT----AATCAGTCTAAATCTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913783 45 +  31815103 -GATTGCCTCATTCTTTTCAGACCAGTCTT----AGTCAGTCTAAATCTA
i micMur3.chr21             C 0 I 63
s proCoq1.NW_012140524v1      5010873 45 +  13104022 -GATTGCCTTATTCTTTTCAGACCAGTCTT----AATCAGTCTAAATCTA
i proCoq1.NW_012140524v1    I 42 C 0
s otoGar3.GL873576            4502836 49 -  12054995 -GATTGCCTTATTTTTTTCAGGCTGGTCTTAATCAATCAGTCTAAATCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356017 32 - 149736546 ------CCTTATTCTTTTTTGGTCAG------------GGTCTAAACCTA
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19655490 45 +  45876710 -GATTGCCTTACTCTTCTCTGACCAATCTT----CATCAGTCTAAACCCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864796 46 -   1687904 GACTTACCCTAATCTTTTTAGGCCAGTCTT----AATTGGTTTGAATCCA
i dasNov3.JH562883          C 0 C 0

a score=146212.000000
s hg38.chr12_GL383549v1_alt      3516 11 +    120804 ACTAATATCCC
s panTro5.chr12              62698390 11 + 137163284 ACTAATATCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824986 11 + 135337776 ACTAATATCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040158 11 -  32808036 ACTAATATCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225222 11 +  34552619 ACTAATATCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540199 11 - 133663169 ACTAATATCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108939664 11 - 137757926 ACTAATATCCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317481 11 -   7948249 ACTAATATCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8210844 11 -  10730278 ACTAATATCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709175 11 - 128539186 ACTAATATCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       103996 11 +    435186 ACTAATATCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3492668 11 +   9309688 ACTAATATCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326574 11 -  29834108 ACTAATATCCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782267 11 -   1015025 ACTAATATCCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796162 11 -   2295209 ACTACTATCCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5010918 11 +  13104022 ACCAATATCCC
i proCoq1.NW_012140524v1    C 0 I 115
s otoGar3.GL873576            4502885 11 -  12054995 GCCAATATCTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356049 10 - 149736546 -ACAACATCTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655535 11 +  45876710 ACCGACAGCCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864842 11 -   1687904 ACCAATATACC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913828 63 +  31815103 I

a score=439719.000000
s hg38.chr12_GL383549v1_alt      3527 48 +    120804 TAGAAACCGTATTAAAAATG-----GTTGGCTTATTTTCAGTGTATATAAATA
s panTro5.chr12              62698401 48 + 137163284 TAGAAACTGTATTAAAAATG-----GTTGGCTTATTTTCAGTGTATATAAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60824997 48 + 135337776 TAGAAACTGTATTAAAAATG-----GTTGGCTTATTTTCAGTGTATATAAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040169 48 -  32808036 TAGAAACCGTATTAAAAATG-----GTTGGCTTATTTTCAGTGTATATAAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225233 48 +  34552619 TAGAAACTGTATTAAAAATG-----GTTGGCTTATTTTCAGTGTGTATAAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540210 53 - 133663169 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATAAATA
i rheMac8.chr11             C 0 I 308
s macFas5.chr11             108939675 53 - 137757926 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATAAATA
i macFas5.chr11             C 0 I 308
s macNem1.NW_012011422v1      1317492 53 -   7948249 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATAAATA
i macNem1.NW_012011422v1    C 0 I 308
s cerAty1.NW_011999477v1      8210855 53 -  10730278 TACAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATAAATA
i cerAty1.NW_011999477v1    C 0 I 309
s chlSab2.chr11             100709186 53 - 128539186 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATACATA
i chlSab2.chr11             C 0 I 313
s manLeu1.NW_012101287v1       104007 53 +    435186 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTATATAAATA
i manLeu1.NW_012101287v1    C 0 I 310
s colAng1.NW_012114364v1      3492679 53 +   9309688 TAGAAACTGTATTTAAAATGTGACAGTTGGTTTATTTTCAGTGTCTATAAATA
i colAng1.NW_012114364v1    C 0 I 312
s saiBol1.JH378123           11326585 43 -  29834108 TAGAAATTATATTTAAAATGTGACAGT----TTATTTTCAGTGtaaa------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782278 43 -   1015025 TAGAAACTATGTTAAAAATGTGACAGT----TTATTTCCAGTGTAAA------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796173 43 -   2295209 TAGAAATTATATTAAAAATGTGACAGT----TTATTTTCAGTGTAAA------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502896 52 -  12054995 TAGACATTATATTTAAAATGTGATAGTTGGTTTATTTTTAGTG-ATATGAATA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356059 38 - 149736546 TAGAAGCTAGATTTAAAATATGA--------------TCAGAATG-GTAAGTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655546 43 +  45876710 TAGAAATTATAT----GATG------CTAGTTTACTTTCATTGTATATCAGTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864853 53 -   1687904 TAAAAATCGTGTCAAAAATGTGATAGCTAGTTTATTTTCAATATATATGACTG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913828 63 +  31815103 I
e proCoq1.NW_012140524v1      5010929 115 +  13104022 I

a score=54966.000000
s hg38.chr12_GL383549v1_alt      3575 11 +    120804 CAATTATACAA
s panTro5.chr12              62698449 11 + 137163284 CAATTATACAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825045 11 + 135337776 CAATTATACAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040217 11 -  32808036 CAATTATACAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225281 11 +  34552619 CAATTATACAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540571 11 - 133663169 cAATTATAGAA
i rheMac8.chr11             I 308 C 0
s macFas5.chr11             108940036 11 - 137757926 cAATTATAGAA
i macFas5.chr11             I 308 C 0
s macNem1.NW_012011422v1      1317853 11 -   7948249 cAATTATAGAA
i macNem1.NW_012011422v1    I 308 C 0
s cerAty1.NW_011999477v1      8211217 11 -  10730278 cAATTATAGAA
i cerAty1.NW_011999477v1    I 309 C 0
s chlSab2.chr11             100709552 11 - 128539186 cAATTATAGAA
i chlSab2.chr11             I 313 C 0
s manLeu1.NW_012101287v1       104370 11 +    435186 cAATTATAGAA
i manLeu1.NW_012101287v1    I 310 C 0
s colAng1.NW_012114364v1      3493044 11 +   9309688 cAATTATAGAA
i colAng1.NW_012114364v1    I 312 C 0
s saiBol1.JH378123           11326628  6 -  29834108 -----ataaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782321  6 -   1015025 -----ATAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796216  6 -   2295209 -----ATAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502948  5 -  12054995 CAATT------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356097  7 - 149736546 CCATTGT----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655589  2 +  45876710 ---------AA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864906  7 -   1687904 AAATTAT----
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913828 63 +  31815103 I
e proCoq1.NW_012140524v1      5010929 115 +  13104022 I

a score=359911.000000
s hg38.chr12_GL383549v1_alt      3586 31 +    120804 TTATTTTAATAATTTTATTGTGTACTTGTTT----
s panTro5.chr12              62698460 31 + 137163284 TTATTTTAATAATTTTATTGTGCACTTGTTT----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825056 31 + 135337776 TTATTTTAATAATTTTATTGTGCACTTGTTT----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040228 31 -  32808036 TTATTTTAATAATTTTATTGTGCACTTGTTT----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225292 31 +  34552619 TTATTTTAATAATTTTATTGTGCACTTGTTT----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540582 31 - 133663169 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940047 31 - 137757926 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317864 31 -   7948249 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211228 31 -  10730278 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709563 31 - 128539186 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104381 31 +    435186 TTATTTTAACAATTTTATTGTGCACTTGTTT----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493055 31 +   9309688 TTATTTTAACACTTTTATTGTGCACTTGTTT----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326634 31 -  29834108 ttactttaataattttattGTGCATTTGTTT----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782327 31 -   1015025 TTACTTTAATAATTTTATTGTGCATTTGTTT----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796222 31 -   2295209 TTACTTTAATAATTTTATTGTGCATTTGTTT----
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2913891 31 +  31815103 TTATTTTAATAATTGCATTGTGTACTTGTTT----
i micMur3.chr21             I 63 I 96
s otoGar3.GL873576            4502953 22 -  12054995 -TATTTCAATAAT-------TTTATTTATT-----
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2356104 27 - 149736546 ----CTTGATGGCAATTTTATGTGCTTGTTT----
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19655591 31 +  45876710 TTATTTGAAGCATTTTATTATAGACTTGTTT----
i canFam3.chr27             C 0 I 4
s dasNov3.JH562883             864913 31 -   1687904 ----CTGAATGGTTTTATTAAGTAGCTGTTTATTT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5010929 115 +  13104022 I

a score=254340.000000
s hg38.chr12_GL383549v1_alt      3617 29 +    120804 CAGACTC-ATTGCTCCAGCTGGAGAGTTGA
s panTro5.chr12              62698491 29 + 137163284 CAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825087 29 + 135337776 CAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040259 29 -  32808036 CAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225323 29 +  34552619 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540613 29 - 133663169 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940078 29 - 137757926 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317895 29 -   7948249 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211259 29 -  10730278 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709594 29 - 128539186 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104412 29 +    435186 AAGACTC-ATTGCTCCAGCTGAAGAGTTGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493086 29 +   9309688 AAGACTC-ATTGCTCCACCTGAAGAGTTGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326665 30 -  29834108 AAGAATCAACTCTTCCAGCTGAAGAGTTGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782358 30 -   1015025 AAGAATCAACTCTTCCAGCTGAAGAGTTGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796253 30 -   2295209 AAGAATCAACTCTTCCAGCTGAAGAGTTGA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4502979 23 -  12054995 AAAAATG-------CCAGCCAAAGAGTTGA
i otoGar3.GL873576          I 4 C 0
s mm10.chr6                   2356135 20 - 149736546 AAGAAGC-ATT-----AGGCAGGGGG----
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19655626 30 +  45876710 AAGAAGCAATTATGCCAGCCAAAGAATTAA
i canFam3.chr27             I 4 C 0
s dasNov3.JH562883             864944 29 -   1687904 AAGGGGT-ATAAAGCTAACCCAAAAGTAGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913922 96 +  31815103 I
e proCoq1.NW_012140524v1      5010929 115 +  13104022 I

a score=783246.000000
s hg38.chr12_GL383549v1_alt      3646 57 +    120804 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGTTGGAGGCAAAGGTTAGA
s panTro5.chr12              62698520 57 + 137163284 -TTATGACACAACGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825116 57 + 135337776 -TTATGACACAACGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040288 57 -  32808036 -TTATGACACAATGTCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225352 57 +  34552619 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540642 57 - 133663169 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940107 57 - 137757926 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317924 57 -   7948249 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211288 57 -  10730278 -TTATGACACAATACCTG-CCGTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709623 57 - 128539186 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104441 57 +    435186 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493115 57 +   9309688 -TTATGACACAATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326695 57 -  29834108 -TTATGACAGGATGCCTG-CCTTGAAAAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782388 57 -   1015025 -TTATGACAGGATGCCTG-CCTTGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796283 57 -   2295209 -TTATGACACGATGCCTG-CCACGAAGAGGTAAGAATTTAGGTGGAGGCAAAGGTTAGA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5011044 57 +  13104022 -TTATGACCCAATGCCTG-CCTTGAGGAGGCGAGGGTTTAGATGGAGACAAAGGTTAGA
i proCoq1.NW_012140524v1    I 115 I 22
s otoGar3.GL873576            4503002 57 -  12054995 -TTATGATCCAGTGCTTT-TTTTGAGGAGGTAAGGGTCTAGATGGAGACAAAGGTTAGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356155 51 - 149736546 -------CCCAAGGTTGC-ACTTGAGAAAACAAGGAAATAGGGAGAAGCAAAAATTAGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655656 56 +  45876710 -TTATGACACAGGGCCTG-CCCTTGAGAAGTGAGGATTTAGGTGGAGGC-AAGGTTAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             864973 59 -   1687904 TGTAAGATACAATCCCTGTTCTTGAGAAGTTAAGAAATTAGATGGAGGCAAAGGTTAGC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913922 96 +  31815103 I

a score=104466.000000
s hg38.chr12_GL383549v1_alt      3703 15 +    120804 AT-AAGGAAGCTATAC
s panTro5.chr12              62698577 15 + 137163284 AT-AAGGAAGCTATAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825173 15 + 135337776 AT-AAGGAAGCTATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040345 15 -  32808036 AT-AAGGAAGCTATAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225409 15 +  34552619 AT-AAGGAAGCTATAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540699 15 - 133663169 AT-AAGGAAGCTATAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940164 15 - 137757926 AT-AAGGAAGCTATAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317981 15 -   7948249 AT-AAGGAAGCTATAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211345 15 -  10730278 AT-AAGGAAGCTATAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709680 15 - 128539186 AT-AAGGAAGCTATAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104498 15 +    435186 AT-AAGGAAGCTATAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493172 15 +   9309688 AT-AAGGAAGCTATAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326752 14 -  29834108 AT-AA-AAAGATATAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782445 15 -   1015025 AT-AAGGAAGATATAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796340 15 -   2295209 AT-AAGGAAGATATAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4503059 14 -  12054995 AT-ACAGTTAGAATA-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356206  3 - 149736546 -----AGA--------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655712 15 +  45876710 AT-GGAGAATATACAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865032 15 -   1687904 ATGGAGAAAGATAAA-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2913922 96 +  31815103 I
e proCoq1.NW_012140524v1      5011101 22 +  13104022 I

a score=84632.000000
s hg38.chr12_GL383549v1_alt      3718 8 +    120804 GGTAATTA
s panTro5.chr12              62698592 8 + 137163284 GGTAATTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825188 8 + 135337776 GGTAATTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040360 8 -  32808036 AGTAATTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225424 8 +  34552619 GGTAATTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540714 8 - 133663169 GGTAATAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940179 8 - 137757926 GGTAATAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1317996 8 -   7948249 GGTAATAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211360 8 -  10730278 GGTAATAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709695 8 - 128539186 GGTAATAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104513 8 +    435186 GGTAATAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493187 8 +   9309688 GGTAATAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326766 8 -  29834108 AGGAATTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782460 8 -   1015025 AGGAATTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796355 8 -   2295209 AGGAATTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2914018 8 +  31815103 GGTAATCA
i micMur3.chr21             I 96 C 0
s otoGar3.GL873576            4503073 8 -  12054995 AGTAATCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356209 7 - 149736546 -GTAATGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655727 8 +  45876710 AGCAATTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865047 4 -   1687904 ----ATTA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5011101 22 +  13104022 I

a score=634835.000000
s hg38.chr12_GL383549v1_alt      3726 43 +    120804 CTTAAGGATTA---TATGGCAAAGCATTTCCTAAGCAAATGGCTTT
s panTro5.chr12              62698600 43 + 137163284 CTTAAGGATTA---TATGGCAAAGCATTTCCTAAGCAAATGGCTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825196 43 + 135337776 CTTAAGGATTA---TATGGCAAAGCATTTCCTAAGCAAATGGCTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040368 43 -  32808036 CTTAAGGATTA---TATGGCAAAGCATTTCCTAAGCAAATGGCTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225432 43 +  34552619 CTTAAGGATTA---TATGCCAAAGCATTTCCTAAGCAAATGACTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540722 43 - 133663169 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940187 43 - 137757926 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318004 43 -   7948249 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211368 43 -  10730278 CTTAAGGATTC---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709703 43 - 128539186 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104521 43 +    435186 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493195 43 +   9309688 CTTAAGGATTA---TATACCAAAGCATTTCCTAAGCAAATGGCTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326774 43 -  29834108 CTTAAGGAGTA---TATGCCAAAGCATTTCCTAAGAAAATGCCTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782468 43 -   1015025 CTAAAGGATTA---TATGCCAAAGCATTTCCTAAGAAAATGCCTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796363 43 -   2295209 CTTAAGGATTA---TATGCCAAAACATTTCCTAAGAAAATGCCTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2914026 43 +  31815103 CTTAAGGATTA---TATGCCAAAGCATTTCCTAAGCAGATGGTTTT
i micMur3.chr21             C 0 I 2
s proCoq1.NW_012140524v1      5011123 43 +  13104022 CTTAAGGATTA---TAAGCCAAAGCATTTCCTAAGCAAATGGTTTT
i proCoq1.NW_012140524v1    I 22 I 1829
s otoGar3.GL873576            4503081 43 -  12054995 CTTAAGGATTA---TATGCCAAAACCTTTCCTAAACAAATGGTCTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356216 24 - 149736546 ----------------------CATACTTCCTAAGTAAATGGTTTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655735 46 +  45876710 CTTAAGGGTTGTATTATGCCAAAGCATTTCCAAAGCAaatgggttt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865051 40 -   1687904 TTTCAGGC------TATGCCAAAGCATTTCCCAAGCAAATAGCTTT
i dasNov3.JH562883          C 0 C 0

a score=2460194.000000
s hg38.chr12_GL383549v1_alt      3769 194 +    120804 CAAATTCATGGCAGTTGTTgaatcttttcttaatagaaatcttataagtaaatccaagttattagacgcataaaagaaaaattcttctgattgaaataagaacacaattccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttacagatgctctt--------agggttTTTGGAG
s panTro5.chr12              62698643 194 + 137163284 CAAATTCACGGCAGTTGTTgaatcttttcttaatagaaatcttataagtaaatccaagttattagacacataaaagaaaaattcttctgattgaaataagaacacaattccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttacagatgctctt--------agggttTTTGGAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825239 194 + 135337776 CAAATTCACGGCAGTTGTTgaatcttttcttaatagaaatcttataagtaaatccaagttattagacacataaaagaaaaattcttctgattgaaataagaacacaattccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttacagatgctctt--------agggttTTTGGAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040411 194 -  32808036 CAAATTCACGGCAGTTGTTgaatcttttcttaatagaaatcttataagtaaatccaagttattagacacataaaagaaaaattcttctgattgaaataagaacacaattccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttacagatgctctt--------agggttTTTGGAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225475 194 +  34552619 CAAATTCATGGCAGTTGTTGactcttttcttaatagaaatcttataagtaaatccaagttattagacacataaaagaaaaattcttctgattgaaataagaacacaattccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttacggatgctctt--------agggttTTTGGAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540765 194 - 133663169 TAAATTCATGGAAGTTGTTgaatcttttcttaatagaaatctcataagtaaatccaagttattagacacgtaaaagaaaaattcttctgattgaaatgagaacacaataccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttatggatgctctt--------agggttTTTGGAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940230 194 - 137757926 TAAATTCATGGAAGTTGTTGAATCTTTTCTTAATAGAAATCTCATAAGTAAATCCAAGTTATTAGACACGTAAAAGAAAAATTCTTCTGATTGAAATGAGAACACAATACCATGAGTCTCTCCTGCTGGGTTCCTTGTCTTAACCCCTTGCAGCCCTTAAGCTTCTTTTATGGATGCTCTT--------AGGGTTTTTGGAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318047 194 -   7948249 TAAATTCATGGAAGTTGTTgaatcttttcttaatagaaatctcataagtaaatccaagttattagacacgtaaaagaaaaattcttctgattgaaatgagaacacaataccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttatggatgctctt--------agggttTTTGGAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211411 194 -  10730278 TAAATTCATGGAAGTTGTTgaatcttttcttaatagaaatctcataagtaaatccaagttattagacacgtaaaagaaaaattcttctgattgaaatgagaacacaataccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttacgcttcttttatggatgctctt--------agggttTTTGGAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709746 194 - 128539186 TAAATTCATGGAAGTTGTTGAATCTTTTCTTAATAGAAATCTCGTAAGTAAATCCAAGTTATTAGACACATAAAAGAAAAATTCTTCTGATTGAAATGAGAACACAATAGCATGAGTCTCTCCTGCTGGGTTCCTTGTCTTAACCCCTTGCAGCCCTTAAGCTTCTTTTATGGATGCTCTT--------AGGGTTTTTGGAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104564 194 +    435186 TAAATTCATGGAAGTTGTTgaatcttttcttaatagaaatctcataagtaaatccaagttattagacacgtaaaagaaaacttcttatgattgaaatgagaacacaataccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttatggatgctctt--------agggttTTTGGAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493238 194 +   9309688 TAAATTCATGGAAGTTGTTgaattttttcttaatagaaatctcataagtaaatccaagttattagacacataaaagaaaaattcttctgattgaaatgagaacacaataccatgagtctctcctgctgggttccttgtcttaaccccttgcagcccttaagcttcttttatggatgctctt--------agggttTTTGGAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11326817 194 -  29834108 TAAATTCATGGCAGTTCTTGAAAGTTTTCTTAATAGGAATCTTATAAGTAAATCCAAGTTATTAGAGACATAAAAGAAAAATTCTTCTGATTGAAATGAGAACGCAATTCCATGAGTCTCTCCTGCTGGGTTCCCTGTCTTAACCCCTTGCAGCTCTTAAGTTTCCTTTAGGGAGGCTCTG--------AGGGTTTATGGAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782511 194 -   1015025 TAAATTCATGGCAGTTGTTgaaacttttcttaatagaaatcttataagtaaatccaagttattagagacataaaagaaaaattcttctaattgaaatgagagcacaattccatgagtctctcctgctgggttccctgtcttaaccccttgcagcccttaagcttcttttagggaggctctt--------agggttTTTGGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796406 194 -   2295209 TAAATTCATGGCAGTTGTTGAAACTTTTCTTAATAGAAATCTTATAAGTAAATCCAAGTTATTAGAGATATAAAAGAAAAATTCTTCTGATTAAAATGAGAGCACAATTCCATGAGTGTCTCCTGCTGGGTTCCCTGTCTTAACCCCTTGCATCCCTTAAGCTTCTTTTAGGGAGGCTCTT--------AGGGGTTTTGGAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2914071 194 +  31815103 AAGACTTATGGCAGTCTTTGAATCCTTCCCCAATTGAAACACTATATGGAAATCCAATTTATTACACATATAAAAACAAAGCCCTTCTGATTGAAATGAGAATGGAATGCCATGAATCTCCCCTGCTAAGTCCCTTATCTTAACCCCTTACAGCTGTTAAGTTTCTTCTGTGGAGGCTCTT--------GGGATTTTTGGAG
i micMur3.chr21             I 2 I 1590
s otoGar3.GL873576            4503124 187 -  12054995 AAAACTTGTGACAGTCACGGAATCCTTCCTCAATTGAAATACTGTATGAAAATCCAGTTTATTAGATACATAAAAACAAACCTC----AATTGAAATGAGAATTGGATGCCATGAATCTCTCCTGTGAAGTCCCGTGTCTTAACCCCTTATAGCCCTCAAGCTTACTCT---GAGGTTCTT--------GGGGTTTGGGGAG
i otoGar3.GL873576          C 0 I 24
s mm10.chr6                   2356240 189 - 149736546 TATATTCATAATGGTTATGGATGTCTTCCTGAATTGAAAT-TTATACATAAAGTCTAAAGCTCAAGAACATAAG-------CTCTTCTGACTGATGTGAATG---GATGTCTTGATTCTTTCTTAGTAGGTCTATCG-CTTAAGTCATGGCAATCCTTAAATTTCTTCTATAGGCTTTTTTTTAACAAGGAAGTTTTTAAA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19655781 194 +  45876710 taaatttattgcatttgttgaatccttcttcaaatgaaattttatgtgtaggtcaaagttatgagacacataaaagcagaactcctctgactgaaatacgaatgggacactataaatctctcctgctaggtcccttatcttacttccttacaacccttaagtttcctctatggaagttcct--------ggggGTTTTAGAG
i canFam3.chr27             C 0 I 22
s dasNov3.JH562883             865091 194 -   1687904 TAAATTTGTTGTAGTTTTTCAGTccttcttcagctgaaatcttatatgtaagcccaagttactagacagataaaagcagaactcttctgattgacaagagaatgggggtttaagagcctctccggcTAGGTCCCTTATCCTAATCCTTTGCATACCTAAAGTTTCTTCTAGGGAAGCTCTT--------GGGCTTTTTGGAG
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5011166 1829 +  13104022 I

a score=399870.000000
s hg38.chr12_GL383549v1_alt      3963 41 +    120804 -------------------------TGAATCTC-TTAATCCCTACTG---TACACATACATACATTTATT----
s panTro5.chr12              62698837 41 + 137163284 -------------------------TGAATCTC-TTAATCCCTACTG---TACACATACATACATTTATT----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825433 41 + 135337776 -------------------------TGAATCTC-TTAATCCCTACTG---TACACATACATACATTTATT----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040605 41 -  32808036 -------------------------TGAATCTC-TTAATCCCTACTG---TACACATACATACATTTATT----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225669 41 +  34552619 -------------------------TGAATCTC-TTAATCCCTACTG---TACACATACATACATTTATT----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104540959 41 - 133663169 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATACATACATTTATT----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940424 41 - 137757926 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATACGTACATTTATT----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318241 41 -   7948249 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATACGTACATTTATT----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211605 41 -  10730278 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATATGTACATTTATT----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709940 41 - 128539186 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATACATACATTTATT----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104758 41 +    435186 -------------------------TGCGTCTC-CTAATCCCTACTG---TACACATATGTACATTTATT----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493432 41 +   9309688 -------------------------TGCATCTC-CTAATCTCTACTG---TACACATTCGTACATTTATT----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327011 41 -  29834108 -------------------------CACATATC-CTAATCCTTACTT---TCCACATACATACATTTATT----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782705 41 -   1015025 -------------------------TGCATATC-CTAATCTCTACTT---TCCACATACATACACTTATT----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796600 41 -   2295209 -------------------------CACATATC-CTAATCCCTACTT---TCCACATACATACACTTATT----
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4503335 41 -  12054995 -------------------------AAGCTCTG-CTAGTCCCTACTA---TACACATATATACATGTGTT----
i otoGar3.GL873576          I 24 C 0
s mm10.chr6                   2356429 43 - 149736546 ---------------------------AACCTCACAAATCTCTACTGCAATATGCATATATCCATTTCTT----
i mm10.chr6                 C 0 I 330
s canFam3.chr27              19655997 41 +  45876710 -------------------------AGACTTTT-CTAATCCCTACTC---TGTATATACATATGTTTATT----
i canFam3.chr27             I 22 C 0
s dasNov3.JH562883             865285 70 -   1687904 CTCATCTTAGCAGGGTGGGGTGGGGCAACTCTT-CTAAACCATACTG---TGTACCTATATAGACACATTTGCA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2914265 1590 +  31815103 I
e proCoq1.NW_012140524v1      5011166 1829 +  13104022 I

a score=1955528.000000
s hg38.chr12_GL383549v1_alt      4004 183 +    120804 TTGTCCAAATAACTGAAGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCCACGATATGGGTTG--GAATAACCATATTACAGAC---------TAAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGATA-----GCAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
s panTro5.chr12              62698878 183 + 137163284 TTGTCCAAATAACTGAAGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCCACGATATGGGTTG--GAATAACCATATTACAGAC---------TAAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGATA-----GCAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825474 183 + 135337776 TTGTCCAAATAACTGAAGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCCACGATATGGGTTG--GAATAACCATATTACAGAC---------TAAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGATA-----GCAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040646 183 -  32808036 TTGTCCAAATAACTGAAGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCCACGATATGGGTTG--GAATAACCATATTACAGAC---------TAAAGTATGATTCT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGATA-----GCAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGTCAATTGG-------------TCTCATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225710 183 +  34552619 TTGTCCGAATAACTGAAGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCCACGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------CAAAGTAGAAATCAATG--------------------------------------------------------------------------------AGGACTA---GTGA--A------------AAGATA-----GTAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104541000 183 - 133663169 TTGTCCAAATAATTGAGGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCTACGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---ATGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940465 183 - 137757926 TTGTCCAAATAATTGAGGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCTACGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---ATGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318282 183 -   7948249 TTGTCCAAATAATTGAGGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCTACGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---ATGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211646 183 -  10730278 TTGTCCAAATAATTGAGGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCTATGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---ATGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100709981 183 - 128539186 TTGTCCAAATAATTGAGGACAGATATATTTAATGTGTAATAGCCTTTGATAAGTAGCAGTATCCTACGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104799 183 +    435186 TTGTCCAAATAATTGAGGACAGATATATTTAATGTATAATAGCCTTTGATAAGTAGCAGTATCCTATGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TAAAATAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---ATGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493473 183 +   9309688 TTGTCCAAATAATTGAGGATAGATATATTTAATGTATAGTAGCCTTTGATAAGTAGTAGTATCCTGTGATATGGGTTG--GAATAGCCATATTACAGAC---------TAAAGTATGATTTT------TGAAATAGAAATCAATG--------------------------------------------------------------------------------GGGTCTA---GTGA--A------------AAGATA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGACAATTGG-------------TCTCATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327052 183 -  29834108 TTGTCCAAATAATTGAGGACAGATATATTTAATCCACACTAGCATTTGGTAGGTAGCAGTATCTTACTATATGGGTTG--AAATAGCTATATTACAGAT---------GGAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGGTA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782746 183 -   1015025 TTGTCCAAATAATTGAGGACAGATATATTTAATGTACACTAGCATTTGATAGGTAGCAGTATCCTACTATATGGGTTG--GAATAGCCATATTACAGAC---------AGAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGGTA-----GGAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796641 192 -   2295209 TTGTCCAAATAATTGAAGACAGCTATATTTAATGTACACTAGCATTTGCTAGGTAGCAGTATCCTGCTATATGGGTTC--GAATAGCCATATTACAGATGTATGTACAGGAAGTATGATTTT------TAAAGTAGAAATCAATG--------------------------------------------------------------------------------GGGACTA---GTGA--A------------AAGGTA-----GAAAACAA-----------AGAAGTGAA--------------------------------------------------GGATGGCAATTGG-------------TCTCATG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4503376 206 -  12054995 TTGTGCAAATCATTGGGGACATATATATTTAATGCAGACTAGCCTTTGGTACGTAGCAATATCGTATG-TATGGGTTA--AAATAGCCATGCCACAGAC---------TAGAGTATGATTTTAAAGCAGAAGGTAGAAATGAATG--------------------------------------------------------------------------------GGGATTA---GGGAGTG------------AAGATATAGGGGAGAAAAA-----------AGAAGTGAA--------------------------------------------------AGATGGTGATTGGTCAAATT--TCTTTCTCATC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2356802 334 - 149736546 TTTTCTGAATGTTTGGAGGATGTTTTGTTTAATTCATACTGGCCTTTGATATGTAGCATTGTCTTATCCCATGAGTTA--GAATTGCCATG-TGCAGAC---------TACAATATG---TG------TAAAGTAGAAATAAATGATAATGGTCACATTGCCTTGTGCCcttaggaaactgagacaggatgatagcaagtttgaggccagcctaagcaacacagtgagactccatgtga--aaaaaaCCAAAGCAAGAAA-----GCAAACAAAACTCAATAATAGAAATGGATTCGGACTGGAATAGAGAGAAGACTAAAATACAGGGAGGGAGCACAGGGTGGATAGC--TTGG------------TTCTCATC
i mm10.chr6                 I 330 C 0
s canFam3.chr27              19656038 175 +  45876710 TTGTCCAAATAGTTGAGAACAGATATATTTAATGTGTACTAGCCGTT--------------TCCTGCTATATGTGTTG--GGAAGGTCGTGCCACAGAC---------TAGAATACAATTTT-------AAAGTAGAATTGAATG--------------------------------------------------------------------------------AGGGATA---A-AA--A------------GAGGTA-----GATAA-AA-----------ACGAGTGAA--------------------------------------------------AGATGACAGTAGC--AAGTT--TCTTTCTCATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865355 190 -   1687904 TTGAGCAAATAATTGGGGGCAGATTT-TTAAATACGTGCTACTCTTTGGTCAGTAGCGATTCCCCAGTATAGTGGTTGTAAAACAACCAAGTCATAGCC---------TGGAGAATGATTTT-------AAAGTACAAAGAAATG--------------------------------------------------------------------------------GGGGATA---GGAA--A------------GAGGCA-----GAAAA-GA-----------AGGTGTAAA--------------------------------------------------GGATGGCAGCTGG-----TTAATTCCTTTCATG
i dasNov3.JH562883          C 0 I 2
e micMur3.chr21               2914265 1590 +  31815103 I
e proCoq1.NW_012140524v1      5011166 1829 +  13104022 I

a score=2218467.000000
s hg38.chr12_GL383549v1_alt      4187 175 +    120804 ATATTACAGAACTAACCAATTaatggttaatagata--aacaagccagactttccaaatcctaacttctatggataaagttttacgagaaccattgctagttttgtccctcagttctccccaaatgactgtgctaactgataggtactatgg----aacactatgcaaatgtctccagata
s panTro5.chr12              62699061 175 + 137163284 ATATTACAGATCTAACCAATTaatggttaatagata--aacaaaccagactttccaaatccaaacttctatggataaagttttacgagaaccattgctagttttgtccctcagttctccccaaatgactgtgctaactgataggtactatgg----aacactatgtaaatgtctccagata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825657 175 + 135337776 ATATTACAGAACTAACCAATTaatggttaatagata--aacaaaccagactttccaaatccaaacttctatggataaagttttacgagaaccattgctagttttgtccctcagttctccccaaatgactgtgctaactcataggtactatgg----aacactatgtaaatgtctccagata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3040829 175 -  32808036 ATATTACAGAACTAACCAATTaatggttaatagata--aacaagccagactttccaaatccaaatttctatggataaagttttatgagaaccattgctagctttgtccctcagttctccccaaatgacgatgctaactgataggtactatgg----aacaCTATGCAAATGTCTCCAGATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7225893 174 +  34552619 ATATTACAGAACTAACCAACTaatggttaatagata--aacaagccagactttccaaatctaaacttctatggataaagttttacgagaaccattgctagttttgtccctcagttctccccaaatgactatgctaactgataggtactatgg----aacaCTATGC-AATGTCTCCAGATA
i nomLeu3.chr23             C 0 M 100
s rheMac8.chr11             104541183 175 - 133663169 ATATTACAGAACTAACCAGTTaatggttaatagata--aacaagccagactttccaaatccaaacttccatggataaaattttatgagaaccattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940648 175 - 137757926 ATATTACAGAGCTAACCAGTTaatggttaatagata--aacaagccagactttccaaatccaaacttccatggataaaattttatgagaaccattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagata
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318465 175 -   7948249 ATATTACAGAGCTAACCAGTTaatggttaatagata--aacaagccagactttccaaatccaaacttccatggataaaattttatgagaaccattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8211829 175 -  10730278 ATATTACAGAACTAACCAGTTaatggttaatagata--aacaagccagactttccaaatccaaacttccatggataaaattttatgagaactattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagata
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100710164 175 - 128539186 ATATTACAGAACTAACCCGTTaatggttaatagata--aacaagccagactttccaaatccaaacttctatggataaaattttatgagaaccattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactataCAAATGTCTCCATGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       104982 175 +    435186 ATATTACAGAACTAACCAGTTaatggttaatagata--aacaagccagactttccaaatccaaacttccatggataaaattttatgagaaccattgctagttttgttcctcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493656 175 +   9309688 ATATTACAGATCTAACCAGTTaatggttaatagaga--aacaagccagactttccaaatccaaacttctatggataaaattttatgagaaccattgctagttttgttcttcaattttccccaaatgactatgttaactgataggtactatgg----aatactatacaaatgtctccagaca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327235 167 -  29834108 ATATTACAG----AACTAATTAGTGGTT----GATA--AATAAACCAGACTttccaaatccaaacattcatggataaaattttataagaatcattgttagtattgtccctcaattctccccaaatggctgtgctaactgataggtactatgg----aacactatgcaaaagcttccaatta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       782929 171 -   1015025 ATATTACAGAACTAACTAATTAGTGGTT----GATA--AACAAACCAGACTttccaaatccaaactttcatggataaaattttataagaatcattgttagtgttgtccctcaattctccccaaatggctgtgctaactgataggtactACGG----AACACTATGCAAATGCCTTCAATTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796833 166 -   2295209 ATATTACAGAACTAACTAACTAGTGGTT----GATA--AA-----CAGACTttccaaatccaaactttcatggatataattttataagaatcattgttagtgttgtccctcaattctccccaaatggctatgctaactgataggtactatgg----aacactatgcaaatgcctccaatta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2915855 174 +  31815103 ATATTACAGAATTAACCAATTGatgattgatagaaa--aacaagccagactttccaaatccaaacttctat-gataaaattttatgaaaactattgtcaattttgtccctcaactgtcttcaaatgactatgtcaggtgatgggtaccacgg----gacaccatgcaaatgtctctagaca
i micMur3.chr21             I 1590 C 0
s proCoq1.NW_012140524v1      5012995 178 +  13104022 ATATTACAGAACTAAACAATTGatggttgatagaaa--aacaagccagactttccaaatccaaacttctat-gataaaattttatgagaactattgtcagttttgtccctcgagtatcctcaaatgactatgccagctgatgaataccatgggacagacaccatgcatatgtctccagacc
i proCoq1.NW_012140524v1    I 1829 C 0
s otoGar3.GL873576            4503582 170 -  12054995 ATATTACAGAACTAACTAATTGATAGTTGATAGGTA--AACAAGTCAGATTTTCTAAACCTCAACTTCT----ataaaattttatgagaactgtcatcaattttgtctctcaagtgtcctcaaataactatgccagctgacaggtaccatgg----gacaccatgcaaaggtc-ccagaca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2357136 128 - 149736546 AGACCATAGAGTCAGCCAA-----GGTTGGCAGATAGGAAAAAGCTAGACTTTCTAAATCC----------------------ATGAGAACTGGCATTAGTCTTACCCTTTGAGTGTCTCCAAATAGCTATACCACTTGAGAAGGACAATGG----GAT----------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19656213 150 +  45876710 -------------------CTATTGCT-----GATC--AACAAACCAGatgttccaaacccaaacttctacggatgactttttgtgataattactgccaattttgttcctcaattcttcccaactgaccacatcaactggtgtatactatgg-----acactatgcaaatgtctacaaaac
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             865547 164 -   1687904 ACATTAAAGAACTAATCAGTTGATGGTGAAGAGGTA--AAT---CTAGatcctctgaatccaaactactatgaataacattttaggagaacaatcgtccattttggttctgaagtc------agttcccgtgccaactgatgggtg--atgt----gagactttccaattgtctctggata
i dasNov3.JH562883          I 2 C 0

a score=1402732.000000
s hg38.chr12_GL383549v1_alt      4362 121 +    120804 gt---------tgaaggattcatgtatttagtaagtaccactgcatgcattagaatattctagataggtcttgggttggaataaacat-------ggtcttattataca------------aaacgtg-ttcttagaaattaac--cAAATT
s panTro5.chr12              62699236 121 + 137163284 gt---------tgaaggattcatgtatttagtaagtaccactgcatgcattagagtattctagataggtcttgggttggaataaacat-------ggtcttattataca------------aaacgtg-ttcttagaaattaac--cAAATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825832 121 + 135337776 gt---------tgaaggattcatgtatttagtaagtaccactgcatgcattagagtattctagataggtcttgggttggaataaacat-------ggtcttattataca------------aaacgtg-ttcttagaaattaac--cAAATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041004 121 -  32808036 GT---------TGAAGGATTCATGTATTTAGTAAGTACCACTGCATGCATTAGAGTATTCTAGATAGGTCTTGGGTTGGAATAAACAT-------GGTCTTATTATACA------------AAATGTG-TTCTTAGAAATTAAC--CAAATT
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104541358 121 - 133663169 gt---------tgaacgattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940823 121 - 137757926 gt---------tgaacgattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318640 121 -   7948249 gt---------tgaacgattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212004 121 -  10730278 gt---------tgaacaattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100710339 130 - 128539186 GGAATCCTCCATGAAGGATTCATGTGTTTAGTAAGTAACACTGCATACATTAGAGTATTCCAGATAGGTCTTGGGTTGGAATAAACAT-------GGTCTTATTATACA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       105157 121 +    435186 gt---------tgaacaattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493831 121 +   9309688 gt---------tgaaggattcatgtgtttagtaagtaacactgcatgcattagagtattccagataggtcttGGGTTGGAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327402 133 -  29834108 gc---------tgaaggattcatgtgtttagtaagaaccattgcatgcattagagtattccagataggtcttGGGTTGAAATAAACAT-------GGTCTTATTATATAAGCCCATTATATAAACGTG-TTCTTAGAAATAAAC--CAAATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       783100 121 -   1015025 GT---------TGAAGGATTCATGTGTTTAGTAAGAACCATTGCATGCATTAGAGTATTCCAGATAGATCTTTGGTTGAAATAAACAT-------GGTTTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1796999 121 -   2295209 gt---------tgaaggattcatgtgtttagcaagaaccattgcatgtattagagtattccagataggtcttGGGTTGAAATAAACAT-------GGTCTTATTATATA------------AAACGTG-TTCTTAGAAATTAAC--CAAATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916029 119 +  31815103 tt---------tgaaggact--tgtgttttgtaggagccactgcatgcattacagcatttcaggtaggtcttGGATTAGAATGAACAT-------GGTCTTATTATACA------------AACCATG-TTTTTAGAAATTAAC--CAAATT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5013173 110 +  13104022 tt---------tgaaggatt--catgtttagtaggagc---------cattagagcatttcagataggtcttggattagaaggAACAT-------GGTCTTATTATACA------------ACTCATG-TTTTTAGAAATTAAC--CAAATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4503752 119 -  12054995 tt---------taaaggact--tgtgttcagtaggagctgtggtatggattacagcattccagataggccctggattggaatgaacat-------ggccttattataTC------------AATTATG-TTATTAGAGATTAAC--CAACTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2357264  93 - 149736546 --------------GGGGCT---------------------TGTATGTATTAGGGCATTACAGTT-GGCCTTGAGTTGGAACAAATAT-------GATCTTATAATAAA------------GTAC----TTCTTAGGTAGTAACAGCAAATT
i mm10.chr6                 C 0 I 499
s canFam3.chr27              19656364 128 +  45876710 tt---------tgaagatttcacgtatttagtaggaggtcttgtatatattagggtattccacataggtcttaGATTGTGATAAGTATAAGATAAGCTCACATTTTTAG------------AAGCTGG-CTTTTCAAAATCAAC--CAAATT
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             865711 109 -   1687904 tt---------tgaaggatccaca---atagcaggaggcattggatacatt----------gggtaggatttggactgggataaatat-------ggtcttatttctta------------gaagtcgatcctttgaaattaac--caaatt
i dasNov3.JH562883          C 0 C 0
e nomLeu3.chr23               7226067 100 +  34552619 M

a score=1603377.000000
s hg38.chr12_GL383549v1_alt      4483 145 +    120804 CTAAGAAACGAACTCAGTTTTATCTTACCAAATTCCACGAGGTGGGTGCCTGAGTATAAAACCAACCTAAAGTTTTAGATATGGA-GTTTTCTTGCCACCAGATGTTGA-AGCTAGGAAAGAAGATGGGG--CCTCACTAACTTACTTT
s panTro5.chr12              62699357 145 + 137163284 CTAAGAAACGAACTCAGTTTTATCTTACCAAAATCCATAAGGTGGGTGCCTGAGCATAAAACCAACCTAAAGTTTTAGATATGGA-GTTTTCTTGTCACCAGATGTTGA-AGCTAGGAAAGAAGATGGGG--CCTCACTAATTTACTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60825953 145 + 135337776 CTAAGAAACGAACTCAGTTTTATCTTACCAAAATCCATAAGGTGGGTGCCTGAGCATGAAACCAACCTAAAGTTTTAGATATGGA-GTTTTCTTGTCACCAGATGTTGA-AGCTAGGAAAGAAGATGGGG--CCTCACTAATTTACTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041125 145 -  32808036 CTAAGAAACGAACTCAGTTTTATCTTACCAAAATCCATGAGGTGGGTGCCTGAGTATAAAACCAACCTAAAGTTTTAGATATGGA-GTTTTCTTATCACCAGATGTTGA-AGCTAGGAAAGAAGATGGGG--CCTCACTAATTTACTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104541479 145 - 133663169 CTAAGAAACAAACTCAGTTTTATCTCCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108940944 145 - 137757926 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318761 145 -   7948249 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212125 145 -  10730278 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100710469 145 - 128539186 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       105278 145 +    435186 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTCTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3493952 145 +   9309688 CTAAGAAACAAACTCAGTTTTATCTTCCCAAAATCCATGAGGTGGTTGCCTG-GTATAAAAGCAATCTAAAATTTTAGATATGGAGGTTTTCTTGTTACTAGATGTTGA-AGCTAGGAAAGGAGATGGGG--CCTCACTAATTTACTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327535 141 -  29834108 CTAAGAAACAAACTCAGTTTTATCTT-----AGTCCATGAGGTGGGTACCTAAGTATAAAAGCAATCTAAAGTTTTAGATATGGAGGTTTTCTTGTCACTGGATGTTGA-AGGTAGGAAAGAAGATGGAG--GCTCACTAATTTACTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       783221 141 -   1015025 CTAAGAAACAAACTCAGTTTTATCTT-----AGTCCATGAGGTGGGTGCCTAAGTATAAAAGCAATCTAAAGTTTTAGATACGGAGGTTTCCTTGTCACTGGATGTTGC-AGGTAGGAAAGAAGATGGAG--CCTCACTAATTTGCTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1797120 141 -   2295209 CTAAGAAACGAACTCAGTTTTATCTT-----AGTCCATGGGGTGGGTGCCTAAGTATAAAAGCAATCTAAAGTTTTAGATATGGAGGTTTTCTTGTCACTGGATGTTGA-AGGTAGGAAAGAAGATGGAG--CCTCACTAATTTACTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916148 142 +  31815103 CTGAGAGATCAGCTCAGTTTTGCCTTACCAAAATCCAC-AAGTAGGTACCTGAGTATAAA-GCAACCTGATGTTTTAGATATTGGGGTTTTCTGATCACTAGATGTTGA-AGCTAGAAAA---GATGGGG-CCCTCGCTGATTCATTTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5013283 146 +  13104022 CTGAGAGATCAGCTCTGTTTTGTCTTACCAAAATCCATGAGGTAGGTACCTGAGTATAAA-GCAACCTGACATTTTAGATATTGAGGTTTTCTGGTCACTAGATGTTGA-AGCTAGAAAAGAGGATGGGG-CCCTGACTAATTTATTTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4503871 145 -  12054995 CTGAGAGATCAGCTCAGTTTTGTCTTA-CAAAATCCACGAGGTAGGTGCCTGAGTATAAA--CAAGTCAATATGGTAGATATTGGTGTTTTCCAGTCACTAGAAGTTGACAGCTAGAAAAGCAGACGAGG-CCCTCACTAATTTAATTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19656492 147 +  45876710 CTAAGAGACCAATTCAGTTTTGTTTTAGCAAAATCTGTGAGGTAAGTGCCTGAGTATAAAAGCTATCTGAAGGTTTAGATATTGAGGTTTTCCAGGAACTAGATGTTGA-GGCTAGAAAAGAAAATGATA-ACCTCACTAATTTATTCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865820 145 -   1687904 ctgggcgaccagctctg-ttcatctttccaaaatcactgagatggcggctttagtacaaaagcaacctaaaattttagagatagg-gatttctggaagctagatACTGA-AG-TAGAAAACAAGGTAAGGTCCCTCAATAATTTTTTTT
i dasNov3.JH562883          C 0 I 8
e mm10.chr6                   2357357 499 - 149736546 I
e nomLeu3.chr23               7226067 100 +  34552619 M

a score=484914.000000
s hg38.chr12_GL383549v1_alt      4628 40 +    120804 GCATTTA--------CTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
s panTro5.chr12              62699502 40 + 137163284 GCATTTA--------CTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60826098 40 + 135337776 GCATTTA--------CTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041270 40 -  32808036 GCATTTA--------CTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7226169 40 +  34552619 GCAATTA--------CTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i nomLeu3.chr23             M 100 C 0
s rheMac8.chr11             104541624 44 - 133663169 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108941089 44 - 137757926 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318906 44 -   7948249 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212270 44 -  10730278 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100710614 44 - 128539186 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       105423 44 +    435186 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3494097 44 +   9309688 GCATTCACT----TTCTTTCTGCCTTGTAAACATGTGGCAAATGTAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327676 44 -  29834108 GCATTCACT----TTCTTTCTGTCTTGTAAACATGTGGCAAATGTAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       783362 44 -   1015025 GCATTTACT----TTCTTTCTGTCTTGTAAACATGTGGCAAATGTAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1797261 44 -   2295209 GCATTCACT----TTCTTTCTGTCTTGTAAACATGTGGCAAATGTAAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916290 48 +  31815103 GCATTTATTTTTAATCCTTCTGCTATGTAAGTATATGGCACATGTGAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5013429 47 +  13104022 GCATTTATTTTT-CTCCTTCTGCTATGTAAGTATATGGCACGTGTGAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4504016 47 -  12054995 GCATTTACTTCT-CTCCTTCTGCTATGTAAGTGTACAGCAAATGGGAT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19656639 47 +  45876710 GTATTCACTTTC-TTCTTTCTGCCATGTAAGTACTTAACAAAAATGAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             865973 40 -   1687904 GCTTTC-------CTCTTTCTTCTCTATCAGTACATGACAAATGTAA-
i dasNov3.JH562883          I 8 C 0
e mm10.chr6                   2357357 499 - 149736546 I

a score=8141760.000000
s hg38.chr12_GL383549v1_alt      4668 643 +    120804  
s panTro5.chr12              62699542 644 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60826138 644 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041310 644 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7226209 642 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104541668 644 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108941133 644 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1318950 644 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212314 644 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100710658 644 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       105467 644 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3494141 644 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11327720 635 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       783406 634 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1797305 634 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916338 642 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5013476 643 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4504063 636 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2357856 640 - 149736546  
i mm10.chr6                 I 499 C 0
s canFam3.chr27              19656686 720 +  45876710  
i canFam3.chr27             C 0 I 134
s dasNov3.JH562883             866013 658 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=113060.000000
s hg38.chr12_GL383549v1_alt      5311 11 +    120804 ttttttc------------------------------------------------ccat
s panTro5.chr12              62700186 11 + 137163284 ttttttc------------------------------------------------ccat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60826782 11 + 135337776 ttttttc------------------------------------------------ccat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041954 11 -  32808036 ttttttc------------------------------------------------ccat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7226851 11 +  34552619 ttttttc------------------------------------------------ccat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542312 11 - 133663169 tttttcc------------------------------------------------ccat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108941777 11 - 137757926 tttttcc------------------------------------------------ccat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1319594 11 -   7948249 tttttcc------------------------------------------------ccat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212958 11 -  10730278 tttttcc------------------------------------------------ccat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711302 11 - 128539186 tttttcc------------------------------------------------ccat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106111 11 +    435186 tttttcc------------------------------------------------ccat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3494785 11 +   9309688 tttttcc------------------------------------------------ccat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328355 11 -  29834108 ttttttc------------------------------------------------ccat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784040 11 -   1015025 tttttcc------------------------------------------------ccat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1797939 11 -   2295209 ttttttc------------------------------------------------ccat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916980 11 +  31815103 gttttgc------------------------------------------------tcat
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014119 11 +  13104022 ttttttc------------------------------------------------tcat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4504699 11 -  12054995 ctttttc------------------------------------------------tcgc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2358496 59 - 149736546 TTTTGTCATtgccacacacctgccacacacctgctacatacctgctacacacctgccat
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             866671 10 -   1687904 -gtgttc------------------------------------------------tcat
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19657406 134 +  45876710 I

a score=6201796.000000
s hg38.chr12_GL383549v1_alt      5322 450 +    120804  
s panTro5.chr12              62700197 451 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60826793 451 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3041965 451 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7226862 450 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542323 450 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108941788 451 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1319605 450 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8212969 450 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711313 450 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106122 450 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3494796 449 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328366 449 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784051 449 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1797950 450 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2916991 476 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014130 470 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4504710 478 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2358555 594 - 149736546  
i mm10.chr6                 C 0 I 27
s canFam3.chr27              19657540 484 +  45876710  
i canFam3.chr27             I 134 C 0
s dasNov3.JH562883             866681 457 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=1199797.000000
s hg38.chr12_GL383549v1_alt      5772 85 +    120804 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTACCA
s panTro5.chr12              62700648 85 + 137163284 ATTTATGACGTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTACCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827244 85 + 135337776 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTACCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042416 85 -  32808036 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTACCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227312 86 +  34552619 ATTTATGACTTCATGGAGGATA------AATATTTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACACAGATTCTACCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542773 85 - 133663169 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGTTTCTTCACATAGATTCTACCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942239 85 - 137757926 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGTTTCTTCACATAGATTCTACCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320055 85 -   7948249 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGGTTCTTCACATAGATTCTACCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213419 85 -  10730278 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---ACTGATGATGA--AACTGATTATACATTGTGGTTCTTCACATAGATTCTACCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711763 85 - 128539186 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGGTTCTTCACATAGATTCTACCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106572 85 +    435186 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGGTTCTTCACATAGATTCTACCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495245 85 +   9309688 ATTTATGACTTCATGGAGGATA------AATA-TTAGTAAC---AGTGATGATGA--AACTGATTATACATTGTGGTTCTTCACATAGATTCTACCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328815 85 -  29834108 ATTTACAACTTCATGGGGGATA------AATA-TTAATAGC---AGTGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTGCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784500 84 -   1015025 ATTTACAACTTCGTGGGGGATA------AATA-TTAATAGC---AGT-ATGATGA--AACTGATTATACATTGCAGTTCTTTACATAGATTCTACCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1798400 85 -   2295209 ATTTACAACTTCATGGAGAATA------AATA-TTAATAGC---AATGATGATGA--AACTGATTATACATTGTAGTTCTTTACATAGATTCTACCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2917467 85 +  31815103 ATTAATGACTTCATGGAGGGCA------AATA-TTAATGAC---AGTGATGATGA--AACTGATCATACATGGTAGTACTTTACATGGATTCTACCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014600 85 +  13104022 ATTGATGACTTCATGGAGGGTA------AATA-TTAATGAC---AGTGATGATGA--AACTGATCATACATGGTAGTACTTTACATGGATTCTACCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4505188 85 -  12054995 ATTGATGACTTCATGGAGGGTA------AATA-TTAATGAC---AGTGATGAATA--AATTGATCACACATCATAGACCTTTACATAGATTCTACCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19658024 93 +  45876710 ATTGGCAAC-TCATGTAGAATATGATATAATA-TCAATGACTATACTGGTGATGA--AACTGATCATACATTATAGTGCTTTATATAGACTCCACCG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             867138 87 -   1687904 ACTGATGACTTTGTGCAGGCTA------AGTA-TTAATGGC---AATTGTGATGATGAAGTAATAATACATGGTAGCACTTTACATAGATTCTACCG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2359149 27 - 149736546 I

a score=35162.000000
s hg38.chr12_GL383549v1_alt      5857 3 +    120804 ACT
s panTro5.chr12              62700733 3 + 137163284 ACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827329 3 + 135337776 ACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042501 3 -  32808036 ACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227398 3 +  34552619 ACT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542858 3 - 133663169 ACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942324 3 - 137757926 ACT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320140 3 -   7948249 ACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213504 3 -  10730278 ACT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711848 3 - 128539186 ACT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106657 3 +    435186 ACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495330 3 +   9309688 ACT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328900 3 -  29834108 ACT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784584 3 -   1015025 ACT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1798485 3 -   2295209 ACT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4505273 3 -  12054995 ATT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19658117 3 +  45876710 AGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             867225 3 -   1687904 GCT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2359149 27 - 149736546 I
e micMur3.chr21               2917552 0 +  31815103 C
e proCoq1.NW_012140524v1      5014685 0 +  13104022 C

a score=34928.000000
s hg38.chr12_GL383549v1_alt      5860 3 +    120804 GAT
s panTro5.chr12              62700736 3 + 137163284 GAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827332 3 + 135337776 GAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042504 3 -  32808036 GAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227401 3 +  34552619 GAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542861 3 - 133663169 GAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942327 3 - 137757926 GAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320143 3 -   7948249 GAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213507 3 -  10730278 GAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711851 3 - 128539186 GAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106660 3 +    435186 GAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495333 3 +   9309688 GAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328903 3 -  29834108 TAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784587 3 -   1015025 GAT
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1798488 3 -   2295209 GAT
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19658120 3 +  45876710 GAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             867228 3 -   1687904 GAT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4505276 0 -  12054995 C
e mm10.chr6                   2359149 27 - 149736546 I
e micMur3.chr21               2917552 0 +  31815103 C
e proCoq1.NW_012140524v1      5014685 0 +  13104022 C

a score=396901.000000
s hg38.chr12_GL383549v1_alt      5863  93 +    120804 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC--------------ATACTCCTTCCTTTATACTCCTTACTTTATACTCCTTCCTTTAtact
s panTro5.chr12              62700739 107 + 137163284 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAACATACTCCTTCCTTTATACTCCTTCCTTTATACTCCTTACTTTATACTCCTTCCTTTAtact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827335 107 + 135337776 ACTCTTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAACATACTCCTTCCTTTATACTCCTTACTTTATACTCCTTACTTTATACTCCTTCCTTTAtact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042507  93 -  32808036 ACTCCTATACTCCTTACTTTACTGTACTCCTGTGATTTTCTAAAAC--------------ATACTCCTTCCTTTATACTCCTTACTTTATACTCCTTCCTTTatact
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227404  65 +  34552619 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC------------------------------------------ATATTCCTTACTTTAtact
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542864  79 - 133663169 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942330  79 - 137757926 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320146  79 -   7948249 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTACACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213510  79 -  10730278 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711854  79 - 128539186 ACTCCTATACTTCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106663  79 +    435186 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495336  79 +   9309688 ACTCCTATACTCCTTACTTTACTATACTCCTGTGATTTTCTAAAAC----------------------------ATGCTCCTTACTTTATCCTCCTTACTTTATACT
i colAng1.NW_012114364v1    C 0 C 0
s dasNov3.JH562883             867231  16 -   1687904 ----------------------------------CTTTTCTAAAAC----------------------------ACGC-----------------------------
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4505276   0 -  12054995 C
e mm10.chr6                   2359149  27 - 149736546 I
e micMur3.chr21               2917552   0 +  31815103 C
e canFam3.chr27              19658123   0 +  45876710 C
e proCoq1.NW_012140524v1      5014685   0 +  13104022 C
e aotNan1.NW_018488218v1      1798491   0 -   2295209 C
e cebCap1.NW_016107911v1       784590   3 -   1015025 I
e saiBol1.JH378123           11328906   0 -  29834108 C

a score=126209.000000
s hg38.chr12_GL383549v1_alt      5956 40 +    120804 ccttact--------------------------------------------------tactcc-------------------------ttac---atactccttactttatactcctt
s panTro5.chr12              62700846 90 + 137163284 ccttacttactccttacatactccttactttatactccttacatactccttactttatactcc-------------------------ttac---atactccttactttatactcctt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827442 90 + 135337776 ccttact-------------------------tactccttacatactccttactttatactccttacatactccttactttatactccttac---atactccttactttatactcctt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042600 40 -  32808036 ccttact--------------------------------------------------tactcc-------------------------ttac---atactccttactttatactcctt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227469 40 +  34552619 ccttact--------------------------------------------------tactcc-------------------------ttac---atactccttactttatactcctt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542943 43 - 133663169 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATACTCCTTACTTTATATTCCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942409 43 - 137757926 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATACTCCTTACTTTATATTCCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320225 43 -   7948249 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATACTCCTTACTTTATATTCCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213589 43 -  10730278 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATACTCTTTACTTTATATTCCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711933 29 - 128539186 CCTTACT--------------------------------------------------TACCCC-------------------------TTACTTTATAC--------------TCCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106742 43 +    435186 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATACTCCTTACTTTATATTCCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495415 29 +   9309688 CCTTACT--------------------------------------------------TACTCC-------------------------TTACTTTATAT--------------TCCTT
i colAng1.NW_012114364v1    C 0 C 0
s mm10.chr6                   2359176 11 - 149736546 CCTTACT--------------------------------------------------GATT---------------------------------------------------------
i mm10.chr6                 I 27 C 0
e otoGar3.GL873576            4505276  0 -  12054995 C
e micMur3.chr21               2917552  0 +  31815103 C
e canFam3.chr27              19658123  0 +  45876710 C
e proCoq1.NW_012140524v1      5014685  0 +  13104022 C
e aotNan1.NW_018488218v1      1798491  0 -   2295209 C
e dasNov3.JH562883             867247  0 -   1687904 C
e cebCap1.NW_016107911v1       784590  3 -   1015025 I
e saiBol1.JH378123           11328906  0 -  29834108 C

a score=8281.000000
s hg38.chr12_GL383549v1_alt      5996 1 +    120804 a
s panTro5.chr12              62700936 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827532 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042640 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227509 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542986 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942452 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320268 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213632 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711962 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106785 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495444 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               2917552 1 +  31815103 A
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014685 1 +  13104022 A
i proCoq1.NW_012140524v1    C 0 C 0
e otoGar3.GL873576            4505276 0 -  12054995 C
e mm10.chr6                   2359187 0 - 149736546 C
e canFam3.chr27              19658123 0 +  45876710 C
e aotNan1.NW_018488218v1      1798491 0 -   2295209 C
e dasNov3.JH562883             867247 0 -   1687904 C
e cebCap1.NW_016107911v1       784590 3 -   1015025 I
e saiBol1.JH378123           11328906 0 -  29834108 C

a score=22920.000000
s hg38.chr12_GL383549v1_alt      5997 2 +    120804 ct
s panTro5.chr12              62700937 2 + 137163284 ct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827533 2 + 135337776 ct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042641 2 -  32808036 cT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227510 2 +  34552619 ct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542987 2 - 133663169 CT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942453 2 - 137757926 CT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320269 2 -   7948249 CT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213633 2 -  10730278 CT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711963 2 - 128539186 CT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106786 2 +    435186 CT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495445 2 +   9309688 CT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1798491 2 -   2295209 CT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2917553 2 +  31815103 CT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014686 2 +  13104022 CT
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19658123 2 +  45876710 CT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4505276 0 -  12054995 C
e mm10.chr6                   2359187 0 - 149736546 C
e dasNov3.JH562883             867247 0 -   1687904 C
e cebCap1.NW_016107911v1       784590 3 -   1015025 I
e saiBol1.JH378123           11328906 0 -  29834108 C

a score=30708.000000
s hg38.chr12_GL383549v1_alt      5999 3 +    120804 tTA
s panTro5.chr12              62700939 3 + 137163284 tTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827535 3 + 135337776 tTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042643 3 -  32808036 TTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227512 3 +  34552619 tTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542989 3 - 133663169 TTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942455 3 - 137757926 TTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320271 3 -   7948249 TTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213635 3 -  10730278 TTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711965 3 - 128539186 TTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106788 3 +    435186 TTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495447 3 +   9309688 TTA
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1798493 3 -   2295209 TTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2917555 3 +  31815103 TTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014688 3 +  13104022 TTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4505276 3 -  12054995 TTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19658125 3 +  45876710 TTA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2359187 0 - 149736546 C
e dasNov3.JH562883             867247 0 -   1687904 C
e cebCap1.NW_016107911v1       784590 3 -   1015025 I
e saiBol1.JH378123           11328906 0 -  29834108 C

a score=31041.000000
s hg38.chr12_GL383549v1_alt      6002 3 +    120804 CTG
s panTro5.chr12              62700942 3 + 137163284 CTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827538 3 + 135337776 CTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042646 3 -  32808036 CTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227515 3 +  34552619 CTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542992 3 - 133663169 CTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942458 3 - 137757926 CTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320274 3 -   7948249 CTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213638 3 -  10730278 CTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711968 3 - 128539186 CTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106791 3 +    435186 CTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495450 3 +   9309688 CTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328906 3 -  29834108 CTT
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1798496 3 -   2295209 CTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2917558 3 +  31815103 CTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014691 3 +  13104022 CTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4505279 3 -  12054995 CTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19658128 3 +  45876710 CTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             867247 3 -   1687904 CAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2359187 0 - 149736546 C
e cebCap1.NW_016107911v1       784590 3 -   1015025 I

a score=9981835.000000
s hg38.chr12_GL383549v1_alt      6005 579 +    120804  
s panTro5.chr12              62700945 578 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60827541 578 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3042649 578 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7227518 578 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104542995 578 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108942461 578 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320277 578 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8213641 578 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100711971 580 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       106794 578 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3495453 578 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11328909 577 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       784593 577 -   1015025  
i cebCap1.NW_016107911v1    I 3 C 0
s aotNan1.NW_018488218v1      1798499 577 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2917561 576 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5014694 576 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4505282 576 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2359187 529 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19658131 577 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             867250 550 -   1687904  
i dasNov3.JH562883          C 0 I 871

a score=4356444.000000
s hg38.chr12_GL383549v1_alt      6584 312 +    120804 agtttGTTGAAACCATTAT-------ACGCT-------TTTTCAGTAATCTTACACAC--TTCTACTTTAATCACAGCCAAAT----CTT-ACTTTTTTCATCTCAGGATCAACTTTT-----TC--AGGGGGCT----ATCTTACAGC-TTGAAAATCATTCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
s panTro5.chr12              62701523 312 + 137163284 agtttGTTGAAACCATTAT-------ACACT-------TTTTCAGTAATCTTACACAC--TTCTACTTTAATCACAGCCAAAT----CTT-ACTTTTTTCATCTCAGGATCAACTTTT-----TC--AGGGGGCT----ATCTTACAGC-TTGAAAATCATTCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828119 312 + 135337776 agtttGTTGAAACCATTAT-------ACACT-------TTTTCAGTAATCTTACACAC--TTCTACTTTAATCACAGCCAAAT----CTT-ACTTTTTTCATCTCAGGATCAACTTTT-----TC--AGGGGGCT----ATCTTACAGC-TTGAAAATCATTCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCAATAGATGCCAATCCCGTACAAATCACAGAGCGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043227 312 -  32808036 agtttGTTGAAACCATTAT-------ACACT-------TTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAAAT----CTT-ACTTTTTTCGTCTCAGGATCAACATTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCGTTCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228096 318 +  34552619 agtttGTTGAAACCATTAT-------ACGCTTTGGTG-TTTTTCATAACCTTACACAC--TTCTACTTTAATCACAGCCAAAT----CTT-ACTTTTTTCATCTCAGGATCAACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104543573 323 - 133663169 agtttGTTGAAACCATTAT-------ACACTTTGGTGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAAATCTTACTT-ACTTTTTTCCTCTCAGGATTGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcgtg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943039 323 - 137757926 agtttGTTGAAACCATTAT-------ACGCTTTGGTGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAAATCTTACTT-ACTTTTTTCCTCTCAGGATTGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcgtg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1320855 323 -   7948249 agtttGTTGAAACCATTAT-------ACACTTTGGTGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAAATCTTACTT-ACTTTTTTCCTCTCAGGATTGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTTcctgccccggcgtg-ct------ccctgcccctgcccTATCCTATATGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214219 323 -  10730278 agtttGTTGAAACCATTAT-------ACACTTCGGTGTTTTCCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAACTCTTACTT-ACTTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcgtg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAAGAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100712551 323 - 128539186 agTCTGTTGAAACCATTAT-------ACACTTCGGTGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAACTCTTACTT-ACTTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       107372 329 +    435186 agtttGTTGAAACCATTAT-------ACACTTCGGTGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAACTCTTACTT-ACTTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcgtg-ctccctgcccctgcccctgcccTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496031 323 +   9309688 agtttGTTGAAACCATTAT-------ACACTTCGGCGTTTTTCAGTAACCTTACACAC--TTCTACTTTAATCACAGCCAAATCTTACTT-ACTTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTCCCTGCCCCGGCATG-CT------CCCTGACCCTGCCCTATCCTATGTGACTGCATTCCAAATGAATGTCTGAGATGAAGTCCAGGGCAATAGATGCCAATCCTGTACAAATCACAGAGCGGACA-GACTGACCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGATCACTGGAAGGGAATGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11329486 307 -  29834108 agTCTGTTGAAACCTGTAT-------ATACTTCGGTGTTTTTCAGTAACCTTACAC-----------CTAATCACAGCCAAACCTTA------CTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTCCCCTGCCCCGGCATG-CT------CCCTGCCCCTGCCCTATCCTACGTGACTGAATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCGATAGATGCCAATCCTGTACAAAT--CAGAGTGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGCCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785170 323 -   1015025 agTCTGTTGAAACCTGTAT-------ATACTTCGGTGTTTTTCAGTAACCTTACACAC--TTTTACTTTAACCACAGCCAAACCTTACTT-GCCTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGGCT----ATCTTTCAGC-TTGAAAATCATCCTTCCCTGCCCTGGCGTG-CT------CCCTGCCCCTGCCGTCTCCTACGTGACTGCATTCCAAATGAATGTCTGAGATGAAGCCCAAGGCGATAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799076 323 -   2295209 agTCTGTTGAAACCTGTAT-------ATACTTCGGTGTTTTTCAGTAACCTTACACAC--TTTTACTTTAATCACAGCCAAACCTTACTT-ACGTTTTTCCTCTCAGGATCGACTTTT-----TC--AGGGGACT----ATCTTTCAGC-TTGAAAATCATCCTTccctgccccggcatg-ct------ccctgcccctgcccTATCCTACGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGGCGATAGATGCCAATCCTGTACAAATCACAGAGTGGACA-GACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCCTTTAGTTCACTGGAAGGGAATGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2918137 324 +  31815103 agTCTGTAGAAACCTGTGT-------GCACGTTGGTGTTTCTCAGTAACTTTACATAC--TTTAATTTTGATCACAGCCAAATCTTTCTT-ACTTTTTTCCTCTCAGGGTTGCCTTTT-----TTTAAGCAGGATAACCATCTTTCAGC-TTGAAAATCATCCCTCCCTACCCC-TCATGTCG------TCTTGCCCCTGCCCTATCCTATGTGACTGCATTTCAAATGAATGTCTGAGATGAAGGCCAGGCTGATGGATGCCAGTCCTGTGCAAATCACAGAGCAGACA-AACTGATCCAAACGCCATCATTTATTCAA-----AGTCTTTTAGTTCACTGGAGGGGAATGG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5015270 322 +  13104022 agTCTGTGGAAACCTGTAT-------GCACTTTGGTGTTTCTCAGTAACCTTACATAC--TTTAATTTAGATCACAGCCAAATCTTTCTTAACATTTTTCCTCTTAGGATTGACTTTT-----GC--AGGGGGCTGACCAT-TTTCAGC-TTGAAAATCATCCCTCTCTGCCCC-TCATGTCT------TCTTGTCCCTACCCTATCCTCTGTGACTGCATTCCAAATGAATGTCTGAGATGAAGGCCAGGCTGATGGATGCCAATCCTATGCAAATCACAGAGCAGACA-GACTGATCCAAATGCCATCATTTATTCAA-----AGTCTTTTAGTTCACTGGAGGGGAATGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4505858 331 -  12054995 agTCTGTTGAAACCTGTACATAGTAGACACTTTGGCATTTTTCGGTAACCTTACATAC--TTTTATTTTGATCACAGCCAAATCTT-----ACTTTTTTCCTCTCAGGGTTGGCTTCT-----TC--AGGGGGCCGACCATCTTTCAGCTTTAAAAACCATCCCTCTTTGCCCC-TCGTGTCC------TCCTGCCCCTGCCCTATCCTATGTGACTGCATTGCAAATGAATGTCTGAGATGAAGGCCAGGCTGACGGATGCCAATCCTGCACAAATCACAGTGCAGACA-AACTGATCCAAAGGCCATCATTTATTCAAAGTCCAGTCTTTCAGTTAACTAAAGGGGAATGG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2359716 325 - 149736546 agtctgtagaaacc--tgc-------acactttggagattttCAGTAACTTTACACAC--CTTAATTTTG-CCATAGCCGAAC----CTT-ACTCTTTTCCATGCAGGGTCAGATTTTCTCCCTC--AGGGGGCTGACAACCTTTCACT-CTGTAAATTTTCCCTCTCTGCCCCTCTATG-CC------TCCCTGCTCTGCCC-AGCCTATGTGACTACATCCCAAATGAATGTCTGAGATGGGGGCCAGGCTGATGGAGGAGGATTCTGTAGAGATCACAGTACAGACAGGAAGGATCCAAAGGCCATCATTTATTCAAAATCTGGCCCTTTGGTTCACAAAAGGGGAATGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19658708 322 +  45876710 ggTCTGTTGTAACTTGTAT-------ACATTTCAGTGTTTTTCAGAAACCATCCGCACTTTTTTATTTTGGTTACACACAAACTCCACTT-ACTTTTCTCCTCTAGGGATAGACTTCT-----CC--CCCTGACT----ATTCTTGAGC-TTGGAAATCATCC--CACTGCCCT--CATG-TC------CTCCTGCCCTACCCTATCTTATGTGACTACATTTCAAATGAATGCCTGGGATAAAGGCCAGGCTGATGGTTGCCAATCCTGTACAAATCACAGAGCAGACACAACTGATCCAAAGGGCATCATTTATTCAAAGCCCAATACCTTAGTTCACCGAAGGTAAATGG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             867800 871 -   1687904 I

a score=2155747.000000
s hg38.chr12_GL383549v1_alt      6896 137 +    120804 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAACTCTTTAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAATATAAtatatttatat
s panTro5.chr12              62701835 137 + 137163284 TTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAACTCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAATATAATATATTTATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828431 137 + 135337776 TTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAACTCTTCAGATGCTCATAAACTTTGGACTTTTAGAGCACTACAGGAATATAATATATTTATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043539 137 -  32808036 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAACTCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228414 137 +  34552619 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAACTCTTCAGATGCTCACAAACTTTGGATTTTTAGAGCACTACAGGAATATAAtatatttatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104543896 137 - 133663169 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943362 137 - 137757926 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321178 137 -   7948249 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214542 137 -  10730278 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100712874 137 - 128539186 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAatataatatatttatat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       107701 137 +    435186 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCGCTACAGGAAtataatatatttatat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496354 136 +   9309688 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACGTTTGAAAATCTTCAGATGCTCATAAACTCTGGATTTTTAGAGCACTGCAGGAATATAATATATTTATA-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11329793 137 -  29834108 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGGAAATCTTTAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAATATCatatatttatat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785493 134 -   1015025 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAAAGCTTCAGATGCTCATAAACTTTGGATTTTTAAAGCACTACATGAATATCCtatattta---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799399 137 -   2295209 CTTTTAAAATATGGCCAGCAAAAACAATGAAGTAAGACTCTTTG-GGGGGCATTAATTTCATCAAAACTTTTGAAAATCTTCAGATGCTCATAAACTTTGGATTTTTAGAGCACTACAGGAATATCCtatatttatat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2918461 137 +  31815103 CTTTTAAACTATAGCCAGCAAAAACAATGAGGTAAGAATCTTTG-GGGGGCATTAATTTCATCAAAACTTGTGACAATTTTCAGATTCTCATGATCTTTGGCTTTTTAGAACACTATAGGAATATTATATATTTATGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5015592 137 +  13104022 CTTTTAAAATAGAGCCAGCAAAAACAATGAGGTAAGAATCTTTG-GGGGGCATTAATTTCATCAAAATTTTTGAAAGTTTTCAGATGCTCATGAACTTTGGCTTTTTAGAACACTATAGGAatattatatatttatat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4506189 137 -  12054995 CTTTTAAAATATTGCCAGCAAAAACAATGAAGTAAGAATCTTTG-GGGGGCATTAATTTCATCAAAACTTATGAAGATTTTCAGATGTTCATGAACTTTGGCTTTTTAGAACACTGCAGGAATGttatatatttatat
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2360041 136 - 149736546 CTTTTAAAACGTGGCCAGAAAAAACAATGAAGTAAGAACCATTGAGGGGGAAGTCATTTCATCAAAAC--TTGAAAACTTTCAGATGTTTATAAATTTTGACTTTGTAGAATAGCACAAGAATATCATATACTTATAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19659030 125 +  45876710 CTTGTAAAATAGAGCCAGCAAAAACAATGAAGTAAGAATCTTTG-GGGGGCATTAATTTCATAAAAAATTTTGAAAATTTTCAGACATTTGTAAACTTTGGCTTTCTAGAACACTACAGGAAT------------TAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             868671 136 -   1687904 CTCTTAAAGCATGGTCAACAAAGACCAAAAAGTCAGCCTCTCTT-CTGGGAATTAATTTCATCCGAACTTTTGAAAAT-TTGGGAGCGGCATAAACTTTAGTTGTTTGAACGACTACGGGCattatatataattaaat
i dasNov3.JH562883          I 871 I 37

a score=184671.000000
s hg38.chr12_GL383549v1_alt      7033 17 +    120804 -ttgttatt-tattataat
s panTro5.chr12              62701972 17 + 137163284 -TTGTTATT-TATTATAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828568 17 + 135337776 -TTGTTATT-TATTATAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043676 17 -  32808036 -ttgttatt-tattataat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228551 17 +  34552619 -ttattatt-tattataat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544033 17 - 133663169 -ttgttatt-tattataat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943499 17 - 137757926 -ttgttatt-tattataat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321315 17 -   7948249 -ttgttatt-tattataat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214679 17 -  10730278 -ttgttatt-tattataat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713011 17 - 128539186 -ttgttatt-tattataat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       107838 17 +    435186 -ttgttatt-tattatcat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496490 16 +   9309688 --TGTTATT-TATTATAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11329930 17 -  29834108 -ttattatt-tattacaat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785627 13 -   1015025 -----tatt-tattacaat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799536 17 -   2295209 -ttattatt-tattacaat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2918598 18 +  31815103 CTTATTGCC-TATCATAAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5015729 18 +  13104022 cttattatt-tattataat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4506326 14 -  12054995 ctt----ct-tattataat
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2360177 10 - 149736546 --------T-TATTGTGAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19659155 18 +  45876710 -ATGTTATTATATTAAAAT
i canFam3.chr27             C 0 I 31
e dasNov3.JH562883             868807 37 -   1687904 I

a score=509012.000000
s hg38.chr12_GL383549v1_alt      7050 42 +    120804 ttataaatatttattttGTAACGTAAATATTTATAAGTTTTG
s panTro5.chr12              62701989 42 + 137163284 TTATAAATATTTATGTTGTAACGTAAATATTTATAAGTTTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828585 42 + 135337776 TTATAAATATTTATGTTGTAACGTAAATATTTATAAGTTTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043693 42 -  32808036 ttataaatatttatGTTGTAACGTAAATATTTATAAGTTTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228568 42 +  34552619 ttataaatatttatgttgtaatgtaaatatttataAGTTTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544050 42 - 133663169 ttataaatatttatgttgtaatgtaaatatTTGTAAGTTTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943516 42 - 137757926 ttataaatatttatgttgtaatgtaaatatTTGTAAGTTTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321332 42 -   7948249 ttataaatatttatgttgtaatgtaaatatTTGTAAGTTTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214696 42 -  10730278 ttataaatatttatgttgtaatgtaaatatTTGTAAGTTTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713028 42 - 128539186 ttataaatatttatgttgtaatgtaaataATTGTAAGTTTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       107855 42 +    435186 ttataaatatTTATGTTGTAATGTAAATATTTGTAAGTTTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496506 38 +   9309688 TTATAAATATTTATGTTATAGTGTAAATA----TAAGTTTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11329947 42 -  29834108 ttataaatatttatgttgtaatgtaaatatttataaGTTGTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785640 42 -   1015025 ttataaatatttatgttgtaatgtaaatatttataAGTTGTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799553 42 -   2295209 ttataaatatttatgttgtaatgtaaatatttataAGTTGTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2918616 42 +  31815103 TTATAAATATTTGTGTTATAGCATAAATATTTATAAGTTGTA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5015747 42 +  13104022 ttataaatatttacactataacataaatatttataAGTTGTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4506340 42 -  12054995 ctatacatatatatgttatgatataaatatttataaattGTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2360187 42 - 149736546 TCACACATATTTATATTGCAGGACAGAGACTTAAAAGTCATA
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19659173 31 +  45876710 I
e dasNov3.JH562883             868807 37 -   1687904 I

a score=2741349.000000
s hg38.chr12_GL383549v1_alt      7092 198 +    120804 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAATGG------------------------------------------------------------CTAGCAAGGCAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTACGACTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTCACCAAGCATTCACTGAACACCCACAAATTGGAATAGGTATCTGA
s panTro5.chr12              62702031 198 + 137163284 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGGCAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTACGACTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTCACCAAGCATTCATTGAACACCCACAAATTGGAATAGGTATCTGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828627 198 + 135337776 G-TCTTCCAAGCC---------TCCAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTATCAAGGCAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTACGACTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTCACCAAGCATTCATTGAACACCCACAAATTGGAATAGGTATCTGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043735 198 -  32808036 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGGCAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTACGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTCACCAAGCATTCATTGAACACCCACAAATTGGAATAGGTATCTGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228610 198 +  34552619 G-TCTTCCAAGCT---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAT--------------------------------TCTAATTGCTACGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTCACCAAGCATTCACTGAACACCCACAAATGGGAATAGGTATCTGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544092 194 - 133663169 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGC----AATAC--------------------------------TCTAATTGCTATAATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTGCCAAGCATTCACTGAACACCCACTAATTGGAATAGGTATCTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943558 194 - 137757926 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGC----AATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTGCCAAGCATTCACTGAACACCCACTAATTGGAATAGGTATCTGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321374 194 -   7948249 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGC----AATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTGCCAAGCATTCACTGAACACCCACTAATTGGAATAGGTATCTGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214738 198 -  10730278 G-TCTTCCAAGCC---------TCTAATGC-AAAAATGAACATGGAATGAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTGCCAAGCATTCACTGAACACCCACTAATTGGAATAGGTATCTGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713070 207 - 128539186 G-TCTTCCAAGCCTTTGCATTTTCTAATGC-AAAAATGAACATGGAATTAATTGAGTGA------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTACCAAGCATTCACTGAACACCCACTAATTGGAATAGATATCTGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       107897 199 +    435186 G-TCTTCCAAGCC---------TCTAATGCAAAAAATGAACATGGAATGAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------T--------------CAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTCACATCAATAGTCTGTTGCCAAGCATTCACTGAACACTCACTAATTGGAATAGGTATCTGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496544 198 +   9309688 G-TCTTCCAAGCC---------TGTAATGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ATACTTC----------------------C--------------TAGCAA----------------------------------------------TGGCAATTAATAC--------------------------------TCTAATTGCTATGATTTGCAA---AGGTTTGCAAAAAGAA--CAAAAACTTCACATCAATAGTCTGTTACCAAGCATTCACTGAACATCCACTAATTGGAATAGGTATCTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11329989 195 -  29834108 G-TCTTCCAAGCC---------TCT-ATGC-AAAAATGAACATAGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ACACTTC----------------------C--------------CAGCAC----------------------------------------------TAGCTATTAATAT--------------------------------TCTAATTGCTACGATTTGCAA---AGGTTTGCAGAGAA----TAAAAACTTCAAGTCAATAGTCTGTCACCAAGCATTCACTGAACACCCACAAATTGGAATAGGTATCTGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785682 198 -   1015025 A-TCTTCCAAGCC---------TCT-ATGT-AGAAATGAACATAGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ACACTTC----------------------C--------------CAGCAC----------------------------------------------TGGCTATTAATAC--------------------------------TCTAATTGCTACGATTTGCAA---AGGTTTTCAAAGAGAA-TTAAAAACTTCCAGTCAATAGTCTGTCACCAAGCATTCACTGAACACCCACAAATTGGAATAGGTATCTGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799595 197 -   2295209 G-TCTTCCAAGAC---------TTT-ATGC-AAAAATGAACATAGAATTAATTGAGTGG------------------------------------------------------------CTAGCAAGACAGATGA--------------ACACTTC----------------------C--------------CAGCAC----------------------------------------------TGGCTATTAATAC--------------------------------TCTAATTGCTACGATTTGCAA---AGGTTTGCAAAGAGAA--CAAAAACTTGAAGTCAATAGTCTGTCACCAAGCATTCACTGAACACCCACAAATTGGAATAGGTATCTGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2918658 200 +  31815103 G-TTGTCCAAGCC---------TCT-GTGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAACAAGACAGATGA--------------ACATTTC----------------------C--------------CAGAAT----------------------------------------------TGGCAATTAATCC--------------------------------TCTAATTGCTATGACTTGCAAAAGAAGTTTGCAAAGAGAA--CAGAAACTTCAAGTCAATAGTCTGTCACCAAGCGCTCATTGAACACCCACAGATTGGAATAGGTATCTGA
i micMur3.chr21             C 0 I 410
s proCoq1.NW_012140524v1      5015789 197 +  13104022 G-TTGTCCAAGCC---------TCT-GTGC-AAAAATGAACATGGAATTAATTGAGTGG------------------------------------------------------------CTAACAAGACAGATGA--------------ACATTTC----------------------C--------------TAGAAT----------------------------------------------TGGCAATTAATCC--------------------------------TCTAATTGCTGTGACTTACAA---AAGTTTGCAAAGAGGA--CAGAAACTTCAAGTCAATAGTCTGTCACCAAGCTTTCATTGAACGCCCACAGATTGGAATAGGTATCTGA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4506382 197 -  12054995 G-TTGTCTATGCC---------TGT-GTGC-AAAAATAAACATGGAATTAATTGAGTGC------------------------------------------------------------CTAACAAGACAGAGGA--------------ACATGTC----------------------C--------------CAGAAA----------------------------------------------TGGCAATTAATTG--------------------------------TCTAATTGCTGTGATTTGCAA---AAATTTGCAAAGAGAA--CAGACACTTTAAGTCAATTGTCTGTCACCAAATATTCATTGAACACCCACAGATTGGAATAGGTATCTGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2360229 343 - 149736546 GTTTTTCTGAACC---------TCT-ATGC-AAAAATAAACATAGAACCAA--GAAtggcacaagcctgtaatcccagcactcgggaggctgaggcagaagtacgaggtcatggccagcctagaaagacagttgacttgaggccagcccaggcttc----------------------c--------------taccaagtctcgatctcataaaacaaacaaaaGTGAACATGGATTAGTTGAGTGGCAAACAAGACATGGAAATATGGATCAGAATGAGCCATACCATTCTAACTGCTGTGATCTGCAA---AGCCTTGTAAA-------TATAAGGTGTCAAGCAACAGCCTGTCACCAGGTATTCACTGAGCACCCACAAACTGGAACAGATGTTTGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19659204 219 +  45876710 G-TTGTCCAAGCC---------TCT-GCAC-ACAAATGGACACAGAATTAATGGAGTGG------------------------------------------------------------CTAACAAGGTAGATGG--------------ACACTTCCCAATGGCTGACAATACAGCCTT--------------CAGAAT----------------------------------------------CCGCAATTAGCAC--------------------------------TTCCATTGCCATGATTTTCGA---AGGGTTACAAAGAGAA--CAAAAACTTCAAGTCAACAGTCTATCACAAAGGATTTACTGAGCACTCACAATTAAGAACAGGTATCTGA
i canFam3.chr27             I 31 C 0
s dasNov3.JH562883             868844 203 -   1687904 G-CCTTTCCAGCC---------TCC-ATGC-AAAAAGGAACATA-----AATTGAATGA------------------------------------------------------------CTAATAAGACAGATGG--------------CCTCATC----------------------CCAGAGCTCACCCAGCAGAAC----------------------------------------------TGGCAATTAGCAC--------------------------------TCA----GCCACAGTTTGCAA---AAATGTGCAAAGAGAAAAAAAAAAATTCAAGCCAATAGGCTGCCACCAAG-ATTTATTGAGCCCCCACAAATAGGAATGGGCATCTGA
i dasNov3.JH562883          I 37 C 0

a score=38045.000000
s hg38.chr12_GL383549v1_alt      7290 4 +    120804 CAGA
s panTro5.chr12              62702229 4 + 137163284 CAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828825 4 + 135337776 CAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043933 4 -  32808036 CAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228808 4 +  34552619 CAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544286 4 - 133663169 AAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943752 4 - 137757926 AAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321568 4 -   7948249 AAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214936 4 -  10730278 AAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713277 4 - 128539186 AAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108096 4 +    435186 AAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496742 4 +   9309688 AAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330184 4 -  29834108 GAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785880 4 -   1015025 GAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799792 4 -   2295209 GAGA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5015986 4 +  13104022 GAAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4506579 4 -  12054995 AAGG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2360572 4 - 149736546 AGGA
i mm10.chr6                 C 0 I 1112
s canFam3.chr27              19659423 4 +  45876710 GAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             869047 4 -   1687904 AGGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2918858 410 +  31815103 I

a score=136862.000000
s hg38.chr12_GL383549v1_alt      7294 11 +    120804 AGCTATCTGTG
s panTro5.chr12              62702233 11 + 137163284 AGCTATCTGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828829 11 + 135337776 AGCTATCTGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043937 11 -  32808036 AGCTATCTGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228812 11 +  34552619 AGCTATCTGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544290 11 - 133663169 AGCTATCTGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943756 11 - 137757926 AGCTATCTGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321572 11 -   7948249 AGCTATCTGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214940 11 -  10730278 AGCTATCTGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713281 10 - 128539186 AGCTATC-GTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108100 11 +    435186 AGCTATCTGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496746 11 +   9309688 AGCTATCTGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330188 11 -  29834108 AGCTATCTTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785884 11 -   1015025 AGCTATCTGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799796 11 -   2295209 AGCTATCTGTG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5015990 11 +  13104022 AGTTATCTGTG
i proCoq1.NW_012140524v1    C 0 I 152
s otoGar3.GL873576            4506583 11 -  12054995 AGCTGTCTGTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659427 11 +  45876710 AGTTATTTATA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             869051 11 -   1687904 AGGTGGCCGGG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I

a score=623629.000000
s hg38.chr12_GL383549v1_alt      7305 61 +    120804 GACAGTATCCTCAAATTACTCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
s panTro5.chr12              62702244 61 + 137163284 GACAGTATCCTCAAATTACTCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828840 61 + 135337776 GACAGTATCCTCAAATTACTCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3043948 61 -  32808036 GACAGTATCCTCAAATTACTCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228823 61 +  34552619 GACAGTGTCCTCAAATTACCCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544301 61 - 133663169 GACAGTGTCCTCAAATTACCCTTCCATCTTTCCAGATAATAAAGGCATTTAGAAATtgata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943767 61 - 137757926 GACAGTGTCCTCAAATTACCCTTCCGTCTTTCCAGATAATGAAGGCATTTAGAAATtgata
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321583 61 -   7948249 GACAGTGTCCTCAAATTACCCTTCAGTCTTTCCAGATAATGAAGGCATTTAGAAATtgata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8214951 61 -  10730278 GACAGTGTCCTCAAATTACCCTTCTGTCTTTCCAGATAATGAAGGCATTTAGAAATtgata
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713291 61 - 128539186 GACAGTGTCCTCAAATTACCCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108111 61 +    435186 GACAGTGTCCTCAAATTACCCTTCTGTCTTTCCAGATAATGAAGGCATTTAGAAATtgata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496757 61 +   9309688 GACAGTGTCCTCAAATTACCCTTCTGTCTTTCCAGATAATTAAGGCATTTAGAAATtgata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330199 61 -  29834108 GACACTGTCCTCAAACTACCTTTCTGTCTTTTAAGATAATTAAGGCATTTAGAAGTtgcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785895 61 -   1015025 GACACTGTCCTCAAATTACCTTTCTGCCTTTTAAGATAATGAAGGCATTTAGAAGTtgata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799807 61 -   2295209 GACACTGTCCTCAAATTACCTTTCTGTCTTTTAAGATAATTAAGGCATTTAGAAGTtgata
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4506594 61 -  12054995 GACAGTGGCCTCAAATTCCCTTTCTGTCCTTTTAGGCAATGGAGTAATTTAGGAATAAACA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659438 49 +  45876710 GATTGACTC----AGTTACCTTTTTGTCTCATAAGGTA--------ATTTAGAAATAGATG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             869062 59 -   1687904 -GCTCGGTGCTC-AATTATCTGTCTGCCTCTTGGGGTAATTAAGTCGTTGAAGAATGAATA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I

a score=92566.000000
s hg38.chr12_GL383549v1_alt      7366 10 +    120804 tggtttgaat
s panTro5.chr12              62702305 10 + 137163284 tggtttgaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828901 10 + 135337776 tggtttgaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044009 10 -  32808036 tgatttgaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228884 10 +  34552619 tggtttgaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544362 10 - 133663169 tggtttgaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943828 10 - 137757926 tggtttgaat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321644 10 -   7948249 tggtttgaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215012 10 -  10730278 tggtttgaat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713352 10 - 128539186 tggtttgaat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108172 10 +    435186 tggtttgaat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496818 10 +   9309688 cggtttgaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330260 10 -  29834108 tggtttgaat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785956 10 -   1015025 tggtttgaat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799868 10 -   2295209 cggtttaaat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4506655 10 -  12054995 GCTTTCAAAT
i otoGar3.GL873576          C 0 I 333
s dasNov3.JH562883             869121  9 -   1687904 -TGTCCAAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659487  0 +  45876710 C
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I

a score=368440.000000
s hg38.chr12_GL383549v1_alt      7376 39 +    120804 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
s panTro5.chr12              62702315 39 + 137163284 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828911 39 + 135337776 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044019 39 -  32808036 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228894 39 +  34552619 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544372 39 - 133663169 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943838 39 - 137757926 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321654 39 -   7948249 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215022 39 -  10730278 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713362 39 - 128539186 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108182 39 +    435186 ctgtgttcccatccaaatctcaggtcaaactgtaatccc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496828 39 +   9309688 ctgtgttcccatccaaacctcaggtcaaattgtaatccc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330270 39 -  29834108 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       785966 39 -   1015025 ctgtgtccccatccaaatctcacgtcaaattgtaatccc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799878 39 -   2295209 ctgtgtccccatccaaatctcatgtcaaattgtaatccc
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             869130 39 -   1687904 CTGTGCTATTATCATTGTTTATTATGGAATATTAATCTC
i dasNov3.JH562883          C 0 I 792
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659487  0 +  45876710 C
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I

a score=2641239.000000
s hg38.chr12_GL383549v1_alt      7415 300 +    120804 caatgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagttgagcaccattccctcggtgctgttctcctgac----agtgagtgagtgagatatggtgagatctggttgtttaaaagcgtgtgacacctccccgctttttcacttcatcctgttcctgccacgtaagatgtctactcccactttgccttccgccatgagtaaaatctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
s panTro5.chr12              62702354 300 + 137163284 caatgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcctgac----agtgagtgagtgagatatggtgagatctggttgtttaaaagcgtgtgacacctccccgctttttcacttcatcctgttcctgccacgtaagatgtctactcccactttgccttccgccatgagtaaaatctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60828950 300 + 135337776 caatgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcctgac----agtgagtgagtgagatatggtgagatctggttgtttaaaagcgtgtgacacctccccgctttttcacttcatcctgttcctgccacgtaagatgtctactcccactttgccttccgccatgagtaaaatctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044058 300 -  32808036 caatgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcctgac----agtgagtgagtgagatatggtgagatctggttgtttaaaagcgtgtgacacctccccgctttttcacttcatcgtgttcctgccacgtaagatgtctactcccactttgccttccaccatgagtaaaatctccctcaggcctcccagaagcag-ctgctgccatgtttcctctacaacctgtgaaaccatgagccaattaaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7228933 300 +  34552619 caatgttagaggtagggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatggtgagatctggttgtttaaaagcgtgtgacacctccccgcttcttcacttcatcctgttcctgccatgtaagatgtctactcccacattgccttccgccatgagcaaaagctccctgaggcctcccagaagcag-ctgttgccatgtttcctatgtaatctgtgaaaccatgagccaattaaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544411 300 - 133663169 caacgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatagtgagatcttgttgtttaaaagcctgtgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108943877 300 - 137757926 caacgttggaggtggggtgtggtaggaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatagtgagatcttgttgtttaaaagcctgtgacaccccccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321693 300 -   7948249 caacgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatagtgagatcttgttgtttaaaagcctgtgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccagaagcag-ctgctgccatgtttcctatacaacctgtgaaaccatgagccaattaaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215061 297 -  10730278 caacgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatagtgagatc---ttgtttaaaagcctgtgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccagaagcag-ctgctgccgtgtttcctatacaacctgtgaaaccatgagccaattaaat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713401 299 - 128539186 caatgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctc-gtgctgttctcatgac----agtgagtgagtgagatatagtgagatctggttgtttaaaagcctctgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccggaagcag-ctgctgccgtgtttcctatacaatctgtgaaaccatgagccaattaaat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108221 300 +    435186 caacgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcggtgctgttctcatgac----agtgagtgagtgagatatagtgagatcttgttgtttaaaagcctgtgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaagctccctgaggcctcccagaagcag-ctgctgccgtgtttcctatacaacctgtgaaaccatgagccaattaaat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3496867 302 +   9309688 caacgttggaggtggggtgtggtaagaggtgattggattacgagggtgggtccttcatgaatagtttagcaccattccctcgatgctgttctcatgacagtgagtgagtgagtgagatatagtgagatctggttgtttaaaagcctgtgacacctcccagctttttcacttcatcctgttcctgccatgtaagacgcctactcccactttgccttccaccatgagtaaaatctccctgaggcctcccagaagcag-ctgctgccc--tttcctacacaacctgtgaaactatgagccaattaaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330309 297 -  29834108 caatgttggaggtggggtgtggcaagagacgattggattatgggggtgggttcttcatgaatagtttagcaccatttccttggtgctgttctcatca--------gagtgactgagatatggtgagatctggttgtttaaaagcatgtgacacctttctcatctctcccttcatcctattcctgccatgtaagacgcctgctcccgctttgccttctgctgtgagtaaaagctcccagagggctcccagaagcagcctgctgccatgtttcctatacaatcggtgaaattatgagccaattaaac
i saiBol1.JH378123          C 0 I 277
s cebCap1.NW_016107911v1       786005 301 -   1015025 caatgttggaggtggggtgtggcaagagatgattggattatgggggtgggttcttcatgaatagtttagcaccatttccttggtgctgttctcatgac----agtgagtgagtgagatatggtgagacctggttgtttaaaagcatgtgacacctccctcatctctcacttcctcctattcctgccatgtaagacgcctgctcccgctttgccttctgctatgagtgaaagctcccagagggctcccagaagcagcctgctgccatgtttcctatataacctgtgaaactatgagccaattaaac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1799917 301 -   2295209 caatgttggaggtggggtgtggcaagagatgattggattatgagggtgggttcttcatgaatagtttagcaccatttccttggtgctgttctcctgat----agtgagtcagtgagatatggtgagatctggttgtttaaaagcatgtgacacctccctcatctcttacttcatcctattcctgccatgtaagacgcctgctcccactttgccttctgctatgagtaaaagctcccagagggctcccagaagcagcctgctgtgatgtttcccatacaacctgtgaaaatatgagccaattaaat
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659487   0 +  45876710 C
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=679029.000000
s hg38.chr12_GL383549v1_alt      7715 77 +    120804 ctcttttctttatgaattacccagtctcacatatttctttatagcagtgcgagaacagactgctacaGGAATATGTG
s panTro5.chr12              62702654 77 + 137163284 ctcttttcttcatgaattacccagtctcacatatttctttatagcagtgcaagaacagactgctacaGGAATATGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829250 77 + 135337776 ctcttttcttcatgaattacccagtctcacatatttctttatagcagtgcaagaacagactgctacaGGAATATGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044358 77 -  32808036 ctcttttctttatgaattacccagtctcacatatttctttatagcagtgtgagaacagactgctacaGGAATATGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229233 77 +  34552619 ctcttttctttatgaattacccagtctcacatatttctttatagcagtgggagaacagactactacaGGAATATGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544711 77 - 133663169 ctcttttctttataaattacccagtctcacatatttctttatagcagtgcgagaacaaactactacaGGAATACGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944177 77 - 137757926 ctcttttctttataaattacccagtctcacatatttctttacagcagtgcaagaacaaactactacaGGAATACGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1321993 77 -   7948249 ctcttttctttataaattacccagtctcacatatttctttatagcagtgcgagaacaaactactacaGGAATACGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215358 77 -  10730278 ctcttttctttataaattacccagtctcacatatttctttatagcagtgtgagaacaaactactacaGGAATACGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713700 77 - 128539186 ctcttttctttataaattacccagtctcacatatttctttatagcagtgcgagaacagactactacaGGAATACGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108521 77 +    435186 ctcttttctttataaattacccagtctcacatatttctttatagcagtgcgagaacaaactactacaGGAATACGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497169 77 +   9309688 ctcttttctttataaattacccagtctcacatatttctttatggcagtgcgagaacaaactactacaGGAATACATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330883 76 -  29834108 ctcttttctttatgagttactcagtctcacatatttctttataacatta-gagaacagactactacaAGAATATGGG
i saiBol1.JH378123          I 277 C 0
s cebCap1.NW_016107911v1       786306 77 -   1015025 ctcttttctttatgagttactcagtctcacatatttctttatagcagtgtgagaacagactactacaGGAATATGGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800218 77 -   2295209 ctcttttctttatgagttactcagcctcacatatttctttatagcagtatgagaacagactactacaGGAATATGGG
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659487  0 +  45876710 C
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=751037.000000
s hg38.chr12_GL383549v1_alt      7792 85 +    120804 TCTGTCAAATACTTGTTGTTATTGTTGTTTATAATGTTA--------TTC-ACTGTAAGTTCTTTTTAAATCATTTTTTTAAAGTAGGAATGAA
s panTro5.chr12              62702731 85 + 137163284 TCTGTCAAATACTTGTTGTTATTGTTGTTTATAATGTTA--------TTC-ACTGTAAGTTCTTTTTAAATCATTTTTTTAAAGTAGGAATGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829327 85 + 135337776 TCTGTCAAATACTTGTTGTTATTGTTGTTTATAATGTTA--------TTC-ACTGTAAGTTCTTTTTAAATCATTTTTTTAAAGTAGGAATGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044435 85 -  32808036 TCTGTCAAATGCTTGTTGTTATTGTTGTTTATAATGTTA--------TTC-ACTGTAAGTTCTTTTTAAATCATTTTTTTAAAGTAGGAATGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229310 85 +  34552619 TCTGTCAAATACTTGTTGTTATTGTTGTTTATAATGTTA--------TTC-ACTGTAAGTTCTTTTTAAATCATTTTTGCAAAGTAGGAATGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544788 92 - 133663169 TCTGTCAAATACTCGGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGTAGGAATGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944254 92 - 137757926 TCTGTCAAATACTCAGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGTAGGAATGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322070 92 -   7948249 TCTGTCAAATACTCGGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGTAGGAATGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215435 92 -  10730278 TCTGTCAAATACTCGGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGCAGGAATGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713777 92 - 128539186 TCTGTCAAATACTCGGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGTAGGAATGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108598 92 +    435186 TCTGTCAAATACTCGGTGTTATTGTTGTTTATAATGTTATACCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TAAAGCAGGAATGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497246 92 +   9309688 TCTGTCAAATACTCGGTGTTATTGCTGTTTATAATGTTATACCTTTCTCC-ACTGTAAGTTCTCTTTAAATCATTTTT-TAAAGTAGGAATGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11330959 92 -  29834108 TCTGTCAAATACTTGGTGTTATTTTTGTTTACAATATTATAGCTTTCTTC-ACTGTAAGTTCTTTTTAAATCATTTTT-TTAAGTAGAAATAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786383 91 -   1015025 TCTGTCAAATACTTGGTGTTATTTTTGTTTACAATGTTATAGCTTTCTCC-ACTGTAAGTTCTTTTTAAATCA-CTTT-TTAAGTAGAAATAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800295 91 -   2295209 GCTGTCAAATACTTGGTGTTATTTTTGTTTACAATGTTATAGCTTTATTC-ACTGTAAGTTCTTTTTAAATCA-TTTT-TTAAGTAGAAATAAA
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19659487 90 +  45876710 TCTGTCATACACTTGGTGTTA---ATGTTTATAATGGCATATCTTTCTTAGACAAAACATCCCTTTTTAATTTTTTTA-AATAGTAGGAACAGA
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e proCoq1.NW_012140524v1      5016001 152 +  13104022 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=1883588.000000
s hg38.chr12_GL383549v1_alt      7877 173 +    120804 TGTTCTTCCTTTTCCTGCTTGCAGTACGTCAGTGTTATA-TGTTACAAGTCAAgagcttcaagacagaaaagcaggatttgtgtttcaactctatcacttcataactgggcaaatgattgaaac--tctgagtctcagtcccttccaccataaaatgaggatgaaagtgatagcct
s panTro5.chr12              62702816 173 + 137163284 TGTTCTTCCTTTTCCTGCTTGCAGTACGTCAGTGTTATA-TGTTACAAGTCAAgagcttcaagacagaaaagcaggatttgtgtttcaactctatcacttcataactgggcaaatgattgaaac--tctgagtctcggtcccttccaccataaaatgaggatgaaagtgatagcct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829412 173 + 135337776 TGTTCTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTTACAAGTCAAgagcttcaagacagaaaagcaggatttgtgtttcaactctatcacttcataactgggcaaatgattgaaac--tctgagtctcggtcccttccaccataaaatgaggatgaaagtgatagcct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044520 173 -  32808036 TGTTCTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacagaaaagcaggatttgtgtttcaactctatcacttcataactgggcaaatgattgaaac--tctgagtctcggtcccttccaccataaaatgaggatgaaagtgatagcct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229395 173 +  34552619 TGTTCTTCCTTCTCCTGCTTGCTGTATGTCAGTGTTATA-TGTTACAAGTCAAgagcttcaagacagaaaagtaggatttgtgtttcaactctatcacttcataactgggcaaatgattgaaac--tctgagtctcggtcccttccaccataaaatgaggatgaaagtgagagcct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104544880 173 - 133663169 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaatgaggatgaaagtgatagcct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944346 173 - 137757926 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaatgaggatgaaagtgatagcct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322162 173 -   7948249 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaatgaggatgaaagtgatagcct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215527 173 -  10730278 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaatgaggatgaaagtgatagcct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100713869 173 - 128539186 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaatgaggatgaaagtgatagcct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108690 173 +    435186 TGTTGTTCCTTTTCCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcagctctatcgcttcataactgggcaaatgattgaaac--tctgagtcttggtccctgccaccataaaatgaggatgaaagtgatagcct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497338 173 +   9309688 TGTTGTTCCTTTTTCTGCTTGCAGTACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacaaaaaagcaggatttgtgtttcaactctatcgcttgataactgggcaaatgattgaaac--tctgagtcttggtcccttccaccataaaattaggatgaaagtgatagcct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331051 167 -  29834108 TAATCTTCCTTTTCCTACTTGCAGCACATCAGTGTTATA-TGTCACAAGTCAAgagcttcaagacagaaaagcaggatttgtatttcaattctatcacttcataactgggcaaatgattgaaac--tctgagtct------ctttcaccataaaatgaggatgaaagtgaaagcct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786474 173 -   1015025 TAATCTTCCTTTTCCTACTTGCAGCACTTCAGTGTTATA-TGTCACAAGTcaagagcttcaagacagaaaagcaggatttgtatttcaattctatcactttacaactgggcaaatgattgaaac--tctgagtctcagtccctttcaccataaaatgaggatgaaagtgatagcca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800386 173 -   2295209 TAATCTTCCTTTTCCTACTTGCAGCACATCAGTGTTATA-TGTCACAAGTcaagagcttcaagacagaaaagtaggatttgtatttcaattctatcacttcataactgggcaaatggttgaaac--tctgagtctcggtccctttcaccataaaatgaggatgaaagtgatagcct
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5016153 176 +  13104022 TGTTCCTCCTTTCCCTACTTGCAGTACATCAGTGTTATAGTGCCCAAAGTCCACAGCTTCAAGGAAAAAGAGCAGTATCTGAGCTTTAATTCTTTCACATGATAAGtgggcaaatgattgaaactgtccgagtctcagtcccttcaaccataaaatgaggataatagtaatagcct
i proCoq1.NW_012140524v1    I 152 I 76
s canFam3.chr27              19659577 176 +  45876710 TGTTCCTCCTTTCTCTGCTTGCAGTACGTTGgtgttttagtgggaaaagtctagagcttcgaggcaaaagagcaggatttgagtttcaactctaccacttaataactgggaaaattactaaaactctctaagtcttagtatcttcaaccattaagcaagaatgatagaaataacct
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=22920.000000
s hg38.chr12_GL383549v1_alt      8050 2 +    120804 ct
s panTro5.chr12              62702989 2 + 137163284 ct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829585 2 + 135337776 ct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044693 2 -  32808036 ct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229568 2 +  34552619 ct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545053 2 - 133663169 ct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944519 2 - 137757926 ct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322335 2 -   7948249 ct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215700 2 -  10730278 ct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714042 2 - 128539186 ct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108863 2 +    435186 ct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497511 2 +   9309688 ct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331218 2 -  29834108 ct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786647 2 -   1015025 ct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800559 2 -   2295209 ct
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19659753 2 +  45876710 ct
i canFam3.chr27             C 0 I 32
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e proCoq1.NW_012140524v1      5016329 76 +  13104022 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=651869.000000
s hg38.chr12_GL383549v1_alt      8052 79 +    120804 atgcacagtttttgagaaggattgcagagaataatgtatgagatgaagtaatcaaagcttatataaatataagTTGCCA
s panTro5.chr12              62702991 78 + 137163284 atgcacagtttttgagaaggattgcagagaataatgtatgagatgaagtaatcaaagcttatataaatataagTTGCC-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829587 78 + 135337776 atgcacagtttttgagaaggattgcagagaataatgtatgagatgaagtaatcaaagcttatataaatataagTTGCC-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044695 79 -  32808036 atgcacagtttttgagaaggattgcagagaataatgtataagatgaagtaatcaaagcttatataaatataagTTGCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229570 79 +  34552619 atgaacagtttttgagaaggattgcagagaataatgtatgagatgaagtaatcaaagcttatataaatataagTTGCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545055 79 - 133663169 acacacagtttttgagaaggattgcagagaatattgtatgagatgaagtaatcaaagcttatataagcataaattgcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944521 79 - 137757926 acacacagtttttgagaaggattgcagagaatattgtatgagatgaagtaatcaaagcttatataagcataaattgcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322337 79 -   7948249 acacacagtttttgagaaggattgcagagaatcttgtatgagatgaagtaatcaaagcttatataagcataaattgcca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215702 79 -  10730278 atacacagtttttgagaaggattgcagagaatattgtatgagatgaagtaatcaaagcttatataagcataaattgcca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714044 79 - 128539186 atgcacagtttttgagaaggattgcagagaataatgtatgagaTGAAGTAATCAAAGCTTATATAATCATAAATTGCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108865 79 +    435186 atacacagtttttgagaaggattgcagagaatattgtatgagatgaagtaatcaaagcttatataagcataaattgcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497513 79 +   9309688 gtacacagtatttgagaaggattgcagagaataatgtatgagatgaagtaatcaaaggttatataaacataagTTGCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331220 78 -  29834108 atgcacagtttttgagaaggattgtggagaataat-tatgagatgaagtaatcatagcttgtataaatataaattgcca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786649 78 -   1015025 atgcacagtttttgagaaggattgtggagaataat-tatgagataaagtaACCATAGCTTGTATAAATATACATTGCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800561 78 -   2295209 atgcacagtttttgagaagaattgtggagaataat-tatgagatgaagtaatcatagcttgtataaatataaattgcaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659755 32 +  45876710 I
e proCoq1.NW_012140524v1      5016329 76 +  13104022 I
e dasNov3.JH562883             869169 792 -   1687904 I

a score=3640.000000
s hg38.chr12_GL383549v1_alt      8131 4 +    120804 TTTT
s panTro5.chr12              62703069 4 + 137163284 TTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829665 4 + 135337776 TTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044774 4 -  32808036 TTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s macNem1.NW_012011422v1      1322416 4 -   7948249 tTTT
i macNem1.NW_012011422v1    C 0 I 6
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659755 32 +  45876710 I
e proCoq1.NW_012140524v1      5016329 76 +  13104022 I
e aotNan1.NW_018488218v1      1800639 0 -   2295209 C
e nomLeu3.chr23               7229649 0 +  34552619 C
e dasNov3.JH562883             869169 792 -   1687904 I
e cebCap1.NW_016107911v1       786727 0 -   1015025 C
e saiBol1.JH378123           11331298 0 -  29834108 C
e colAng1.NW_012114364v1      3497592 0 +   9309688 C
e manLeu1.NW_012101287v1       108944 0 +    435186 C
e chlSab2.chr11             100714123 0 - 128539186 C
e cerAty1.NW_011999477v1      8215781 0 -  10730278 C
e macFas5.chr11             108944600 0 - 137757926 C
e rheMac8.chr11             104545134 0 - 133663169 C

a score=445823.000000
s hg38.chr12_GL383549v1_alt      8135 832 +    120804  
s panTro5.chr12              62703073 827 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60829669 826 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3044778 828 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
e otoGar3.GL873576            4506665 333 -  12054995 I
e mm10.chr6                   2360576 1112 - 149736546 I
e micMur3.chr21               2918858 410 +  31815103 I
e canFam3.chr27              19659755  32 +  45876710 I
e proCoq1.NW_012140524v1      5016329  76 +  13104022 I
e aotNan1.NW_018488218v1      1800639   0 -   2295209 C
e nomLeu3.chr23               7229649   0 +  34552619 C
e dasNov3.JH562883             869169 792 -   1687904 I
e cebCap1.NW_016107911v1       786727   0 -   1015025 C
e saiBol1.JH378123           11331298   0 -  29834108 C
e colAng1.NW_012114364v1      3497592   0 +   9309688 C
e manLeu1.NW_012101287v1       108944   0 +    435186 C
e chlSab2.chr11             100714123   0 - 128539186 C
e cerAty1.NW_011999477v1      8215781   0 -  10730278 C
e macNem1.NW_012011422v1      1322420   6 -   7948249 I
e macFas5.chr11             108944600   0 - 137757926 C
e rheMac8.chr11             104545134   0 - 133663169 C

a score=49504.000000
s hg38.chr12_GL383549v1_alt      8967 4 +    120804 tttt
s panTro5.chr12              62703900 4 + 137163284 tttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830495 4 + 135337776 tttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3045606 4 -  32808036 tttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229649 4 +  34552619 TTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545134 4 - 133663169 tTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944600 4 - 137757926 tTTT
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8215781 4 -  10730278 tTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714123 4 - 128539186 TTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108944 4 +    435186 tTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497592 4 +   9309688 TTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331298 4 -  29834108 tTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786727 4 -   1015025 TTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800639 4 -   2295209 tTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919268 4 +  31815103 TTTT
i micMur3.chr21             I 410 C 0
s otoGar3.GL873576            4506998 4 -  12054995 tTTT
i otoGar3.GL873576          I 333 C 0
s dasNov3.JH562883             869961 4 -   1687904 TTTT
i dasNov3.JH562883          I 792 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e canFam3.chr27              19659755 32 +  45876710 I
e proCoq1.NW_012140524v1      5016329 76 +  13104022 I
e macNem1.NW_012011422v1      1322420 6 -   7948249 I

a score=15473.000000
s hg38.chr12_GL383549v1_alt      8971 2 +    120804 ga
s panTro5.chr12              62703904 2 + 137163284 ga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830499 2 + 135337776 ga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3045610 2 -  32808036 ga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229653 2 +  34552619 GA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545138 2 - 133663169 GG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944604 2 - 137757926 GG
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8215785 2 -  10730278 GG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714127 2 - 128539186 GA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108948 2 +    435186 GG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497596 2 +   9309688 GA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331302 2 -  29834108 GA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786731 2 -   1015025 AA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800643 2 -   2295209 GA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919272 2 +  31815103 GA
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4507002 2 -  12054995 GA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659787 2 +  45876710 GG
i canFam3.chr27             I 32 C 0
s dasNov3.JH562883             869965 2 -   1687904 CA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e proCoq1.NW_012140524v1      5016329 76 +  13104022 I
e macNem1.NW_012011422v1      1322420 6 -   7948249 I

a score=53137.000000
s hg38.chr12_GL383549v1_alt      8973 4 +    120804 attg
s panTro5.chr12              62703906 4 + 137163284 attg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830501 4 + 135337776 attg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3045612 4 -  32808036 attg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229655 4 +  34552619 ATTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545140 4 - 133663169 ATCG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944606 4 - 137757926 ATCG
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8215787 4 -  10730278 ATCG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714129 4 - 128539186 ATCG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108950 4 +    435186 ATCG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497598 4 +   9309688 ATTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331304 4 -  29834108 GTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786733 4 -   1015025 ATTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800645 4 -   2295209 ATTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919274 4 +  31815103 ATTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016405 4 +  13104022 ATTG
i proCoq1.NW_012140524v1    I 76 C 0
s otoGar3.GL873576            4507004 4 -  12054995 ATTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659789 4 +  45876710 ATTG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             869967 4 -   1687904 ATTG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2360576 1112 - 149736546 I
e macNem1.NW_012011422v1      1322420 6 -   7948249 I

a score=1093723.000000
s hg38.chr12_GL383549v1_alt      8977 82 +    120804 tcttttacAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAActttgctgcacat
s panTro5.chr12              62703910 82 + 137163284 tcttttacAA-CCTGGTGGAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAActttgctgcacat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830505 82 + 135337776 tcttttacAA-CCTGGTGGAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAActttgctgcacat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3045616 82 -  32808036 tcttttacAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAActttgctgcacat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229659 82 +  34552619 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGCAAGTGACCATTTAAATCAGTGATACCTGATGAGAATtttgctgcacat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545144 82 - 133663169 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944610 82 - 137757926 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322426 82 -   7948249 TCTTTTACAA-CCTGGTGAAAAGTTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i macNem1.NW_012011422v1    I 6 C 0
s cerAty1.NW_011999477v1      8215791 82 -  10730278 TCTTTTCCAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714133 82 - 128539186 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       108954 82 +    435186 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATACCTGATGAGAAAtttgctgcacat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497602 82 +   9309688 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGACCATTTAAATCAGTGATGCCTGATGAGAAAtttgctgcatat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331308 82 -  29834108 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATGTAAGTGCCCATTTAAATCAGTGATACCTGATCAGAActttgctgcacat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786737 82 -   1015025 TCTTTTACAA-CCTGGTGATAAGCTTATGACATGTAAGTGCCCATTTAAATCAGTGATACCTGATGAGaactttgctgcacat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800649 82 -   2295209 TCTTTTACAA-CCTGGTGAAAAGCTTATGACATCTAAGTGCCCTTTTAAATCAGTGATACCTGATGAGaactttgctgtacat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919278 82 +  31815103 CCTTTCACAA-CCTGGTGAAAAGCTCCTGGCATCTAAGTGATCGTTTATATCAGTGGTACATGATGAGaactttggtgcacat
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016409 82 +  13104022 CCTTTCACAA-CCTGGTGAAAAGCTCATGGCATCTAAGTGATCGTTTAAATCAGAGGTACATGATGAGaactttggtgcacat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4507008 82 -  12054995 CCTTTCACAA-CCTGGTGAAAAACTATTAACATCTAAATGATTGTTTAAATCAGTGGTACACGAGGAGaactttgatgcatat
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659793 53 +  45876710 CTCTTTGCAA--------------TCATGACACCTAAGTGAACACTT--GTCAGTGGGGCATGATGAGA--------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             869971 78 -   1687904 CTATTTACAAATCTGGTGAAAACTTCATGACACACAAGTGACCACTTAAATCAATGGTGTAT-----GAGCCTCAGTGCACAT
i dasNov3.JH562883          C 0 I 360
e mm10.chr6                   2360576 1112 - 149736546 I

a score=3981424.000000
s hg38.chr12_GL383549v1_alt      9059 311 +    120804 aaaaatcaccaat-ggagcttaataaaaatatagcccaataggctatagccctcactgat----tctgacttagtagactgggtgcggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGACAACTACTGT------------------------CTTAATAAACAAGAA---AGCCCCTCTTCTTCAGGATGCTTCTGGGAAAATAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGAAAATCCATATGCTAAAAACTCTTGTAAACTCTAATAATAGATTCTAAACCTCCAAATA
s panTro5.chr12              62703992 311 + 137163284 aaaaatcaccaat-ggagcttaataaaaatatagcccaataggctatagccctcactgat----tcagacttagtagactgggtgtggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGACAACTACTGT------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGAAAATCCATATGCTAAAAACTCTTGTAAACCCTAATAATAGATTCTAAACCTCCAAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830587 311 + 135337776 aaaaatcaccaat-ggagcttaataaaaatatagcccaataggctatagccctcactgat----tcagacttagtagactgggtgtggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGACAACTACTGT------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGAAAATCCATATGCTAAAAACTCTTGTAAACTCTAATAATAGATTCTAAACCTCCAAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3045698 311 -  32808036 aaaaatcaccaat-ggagcttaataaaaatatagcccagtaggctatagccctcactgat----tcagacttagtagactgggtgtggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGACAACTACTGT------------------------CTTAATAAATAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGAAAATCCATATGCTAAAAATGCTTGTAAACTCTAATAATAGATTCTAAACCTCCAAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7229741 310 +  34552619 caaaatcaccaat-ggagcttaataaaaatatagcccaataggctcca-ccctcactgat----tcagacttagtagactgggtgtggg-ccagtgtgcctc-tttttaaaagtgccatgggtagaccaagatttgagaactactgT------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAGTCTGTGAAAATCCATATGTTAAAAATTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545226 310 - 133663169 caaaatcaccaat-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactgggggtggg-ccggtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108944692 310 - 137757926 caaaatcaccaat-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactgggggtggg-ccggtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322508 310 -   7948249 caaaatcaccaat-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactgggggtggg-ccggcatgtctc-tttttaaaagtgccatagatAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8215873 310 -  10730278 caaaatcaccaat-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactgggggtggg-ccggtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714215 310 - 128539186 caaaatcaccagt-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactaggggtggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCTGC------------------------CTTAATAAACAAGAA---AGTCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATATCTCCTAGATG-ATTTGGCTTACAAATAGAAACTTGGAGTCCAGGACAATCTCTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       109036 310 +    435186 caaaatcaccaat-ggagcttaataaaaatatagcccaataggcttca-ccctcactgat----tcagacttagtagactgggggtggg-ccggtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCCCCTCTCCTTCAGGATGCTTCTGGGAAAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497684 310 +   9309688 caaaatcaccaat-ggagcttaataagaatatagcccaacaggcttca-ccctcactgat----tcagacttagtagactgggagtggg-ccagtatgtctc-tttttaaaagtgccataggtAGACCAAGATTTGAGAACTGCCGC------------------------CTTAATAAACAAGAA---AGCTCCTCTCCTTCAGGATGCTTCTGGGAGAATAACTAATATACCTTCTAGATG-ATTTGGCTTACAAATAGGAACTTGGATTCCAGGACAATCTGTGACAATCCATATGCTAAAAACTCTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331390 312 -  29834108 caaaatcaccaaa-gaagcttgataaaaatatagcccaataggctctg-tcctcactgattcagtcagacttagtagactaggggtggg-gc---atgttactttttttaaagtgctataggtagactaacatttgagaactactgC------------------------CTTAGTAAACAAGAA---TGCCCCTCTCCTTCAGGGTGCATCTCGGAGAACAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGATAATTCGTATGCTAAAATCACTTGTAAACTCTAATGATAGATTCTAAACCTCCAAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       786819 311 -   1015025 caaaatcaccaat-gaagcttgataaaaatatagctcaataggctctg-ccctcactgat----tcagacttagtagactaggggtggg-gcAGTATGTTTCTTTTTTTAAAGTGCTATAGGTAGACCAACATTTGAGAACTACTGC------------------------CTTAATAAACAAGAA---TGCCCCTCTCCTTCAGGATGCATTTGGGAGAACAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAATTTGGATTCCAGGACAATCTGTGATAATCCGTATGCTAAAAACACTTGTAAACTCTAATGATAGATTCTAAACCTCGAAATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1800731 311 -   2295209 caaaatcaccaat-gaagcttgataaaaatatagcccaataggctctg-ccctcactgat----tcagacttagtagactaggggtggg-gcAGTATGTTTCTTTTTTTAAAGTGCTAGAGGTAGACCAACATTTGAGAACTACTAC------------------------CTTAATAAACAAGAA---TGCCCCTCTCCTTCAGGATGCATCTGGGAGAACAACTAATGTACCTTCTAGATG-ATTTGGCTTACAAATAGAAACTTGGATTCCAGGACAATCTGTGATAATCCGTATGCTAAAAACACTTGTAAACTCTAATGATAAATTCTAAACCTCCAAATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919360 309 +  31815103 cagaattaccaat-ggagcttgataaaaatatagcaccacaggctcca-cctccagtgat----tcaaacttagtagactggggttggg-ccaggacatctc-tatttaaaagtgagacagatggactaagatttgagaactactgC------------------------CTTAATAAAAAAGAA---TCCCCTTCTCCTTCAGGATGCTTCTGTGAATATAATTAATGCATCTTCTAGATGAATTTGGCTTATAAGTAGAAACTCGGATTCCAGGACAATCTGTGATAATCCACATGCTAAAAACTCTAGTAAACTCTAATGATAGATTCTAAACCTCCAA--A
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016491 308 +  13104022 cagaattacgaac-ggagcttgataaaaatatagcaccacaggctcca-ccatcagtgat----tcaaacttagtagacggggcttggg-ccaggacatctg-ta-ttaaaagtgccacaggtgGACCAAGATTTGAGAACTACTGC------------------------CTTAATAAAGAAGAA---TCCCCTTCTCCTTCAGGATGCTTCTGGGAATATAATTAATGCACCTTCTAGATGAATTTGGCTTGCAAGTAGAAACTTGGATTCCAGGACAATCTGTGATAATCCATATGTTAAAAACTCTAGTAAACTCTAATGATAGATTCCAAACCTCCAA--A
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4507090 295 -  12054995 caaaactactggt-agaacttgataaaa--acagcaccacagaatcca-ctatcagtggt----ttgaatttagtagactggggttgggcccAGGGCATC----------------CACAGGTGGACCAAGATTTGAGAACGACTGC------------------------CTTAAAAGACATGAC---ATCCTTCTTTCTTCAGGATGCTTTTATGAACATAATTAATGTACCTTCTAGAAGAATTTTGCTTACCAGCAAAAACTTGGATTCTGGGAAAATCTGTGACAATACATATGCTAAAAACTCTGGAAAACTCTAATGATGGATTCTAAACCTCCAAATA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19659846 326 +  45876710 -------ACCAGT-GGAGCAAGATaaaaatacagcggcatgggctcca-caatcagtgat----ttggatgtagtggatgggggttagg-ccagggcatccc-catttaaaaataccacag-tagaccgaggtttgagaactagtgTTTTTTTTTTTTTTGAGATCTAGTGTTTAATATATAAGAACCTCCTCCCTCTCCTTCAGCATGCTTCTACGAATATAATTCACGCATCTTCTAGAGATATTTGGCATACAAATAGAAACTTGATTTCCATGAAAATCTGTGATAATCTATCTACTAAAATCTACGGTAAACTGTA---ACAGGTTCT-CATCTCTAAATA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             870409 253 -   1687904 AAAAATTACCAGTGGGAGTGAAACAAAAATACATCCGCTTGGGCTCCT-CCGTGGATGAG----GTGG-CTCAGCAGCCTGAGGTGGGG-CCAGGGCATCTC-TGTTTATGAGTAGCACAGGCAGACCAAGGTTTGAGAACCACTGC------------------------C-TAACCAACCAGAA---GGGCCCTCTCTTCCAGGATGCCTCTGTGAATGTAA----------TTCTTGAGGGATCTGACTTACACACAGAAGCTTGGATTC-----------------------------------------AACTCTAA------ATTCTAAACTGCCAAATA
i dasNov3.JH562883          I 360 C 0
e mm10.chr6                   2360576 1112 - 149736546 I

a score=983026.000000
s hg38.chr12_GL383549v1_alt      9370 67 +    120804 TGAGAATCTATAGAAATGTACTCTGCCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
s panTro5.chr12              62704303 67 + 137163284 TGAGAATCTATAGAAATGTACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATATTAAGGAAAGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830898 67 + 135337776 TGAGAATCTATAGAAATGTACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3046009 67 -  32808036 TGAGAATCTATAGAAATGTACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATATTAAGGAAAGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7230051 67 +  34552619 TGAGAATCTGTAGAAATGTACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545536 67 - 133663169 TGAGAATCTATAGAAATGCACTCTAGCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108945002 67 - 137757926 TGAGAATCTATAGAAATGCACTCTAGCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322818 67 -   7948249 TGAGAATCTATAGAAATGCACTCTAGCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8216183 67 -  10730278 TGAGAATCTATAGAAATGCACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714525 67 - 128539186 TGAGAATCTATAGAAATGCACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       109346 67 +    435186 TGAGAATCTATAGAAATGCACTCTACCTGGTGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3497994 67 +   9309688 TGAGAATCTATAGAAATTCACTCTACCTGGTGGTAGAAATTTGAATTAACGGATACTAAGGAAAGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331702 67 -  29834108 TGAGAATCTATAGAAATGCACTCTACCTCATGGTAGAAATTTGAATTAAGGGATACTAAGGAAAGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       787130 67 -   1015025 TGAGAATCTATAGAACTGCACGCTACCTCATGGTAGAAATTTGAATTAAGGGATACTAAGGGAAGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1801042 67 -   2295209 TGAGAATCTATAGAAATGCACTCTACCTGATGGTAGAAATTTGAATTAAGGGATACTAAGGGAAGTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919669 67 +  31815103 TGAGAATCCATGTACACGCGCTCTATCTGGTGGTAGAAATTTGAATTGAGGGACGGTAAGGAAAGTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016799 67 +  13104022 TGAGAAGCCATGTACATGTACTCTACCTGGTGGTGGAAATTTGAATTGAGGGACGGTAAGGAAAGTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4507385 67 -  12054995 TGAGAATCCATGTAAATTCATTCTATCTGGTATTATAAATTTAAATTGAGAGATGGTAAGAAAAGTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2361688 66 - 149736546 TAAGCATGTGAAGAGACACA-TCTACCTGATGGCATCAATTTGAATTAAATCATAGAAAAGCAGGTT
i mm10.chr6                 I 1112 I 172
s canFam3.chr27              19660172 67 +  45876710 TGAAAATCCATGGAAATGCAATCTACCTAGTGGTAAGAATTTGAATTAAGGTATGGTAAGGAAAGTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             870662 67 -   1687904 CGAGGTTACACAGTAACATGCCCTGTCTGATGACGACTATTTGAACTGAGGGACGGTAAGGAAAATC
i dasNov3.JH562883          C 0 C 0

a score=171996.000000
s hg38.chr12_GL383549v1_alt      9437 11 +    120804 GATATTAGTTC
s panTro5.chr12              62704370 11 + 137163284 GATATTAGTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830965 11 + 135337776 GATATTAGTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3046076 11 -  32808036 GATATTAGTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7230118 11 +  34552619 GATATTAGTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545603 11 - 133663169 GATATTAGTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108945069 11 - 137757926 GATATTAGTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1322885 11 -   7948249 GATATTAGTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8216250 11 -  10730278 GATGTTAGTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100714592 11 - 128539186 GATATTAGTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       109413 11 +    435186 GATGTTAGTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3498061 11 +   9309688 GATATTAGTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11331769 11 -  29834108 GATATTAGTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       787197 11 -   1015025 GATATTAGTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1801109 11 -   2295209 GATATTAGTTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919736 11 +  31815103 AATATTAATTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016866 11 +  13104022 AATATTAATTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4507452 11 -  12054995 GATATTAACTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19660239 11 +  45876710 GATATTAATTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             870729 11 -   1687904 AATATTAATTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2361754 172 - 149736546 I

a score=14002297.000000
s hg38.chr12_GL383549v1_alt      9448 967 +    120804  
s panTro5.chr12              62704381 972 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60830976 970 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3046087 964 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7230129 954 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104545614 987 - 133663169  
i rheMac8.chr11             C 0 I 328
s macFas5.chr11             108945080 986 - 137757926  
i macFas5.chr11             C 0 I 328
s macNem1.NW_012011422v1      1322896 988 -   7948249  
i macNem1.NW_012011422v1    C 0 I 328
s cerAty1.NW_011999477v1      8216261 986 -  10730278  
i cerAty1.NW_011999477v1    C 0 I 330
s chlSab2.chr11             100714603 989 - 128539186  
i chlSab2.chr11             C 0 I 328
s manLeu1.NW_012101287v1       109424 988 +    435186  
i manLeu1.NW_012101287v1    C 0 I 327
s colAng1.NW_012114364v1      3498072 983 +   9309688  
i colAng1.NW_012114364v1    C 0 I 319
s saiBol1.JH378123           11331780 968 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       787208 964 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1801120 976 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2919747 989 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5016877 984 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4507463 983 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2361926 944 - 149736546  
i mm10.chr6                 I 172 I 3
s canFam3.chr27              19660250 981 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             870740 969 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=1712692.000000
s hg38.chr12_GL383549v1_alt     10415 124 +    120804 AAAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGAGCAGGAAAGAAGAAAG-TTAAT-TGAA-CTTGCAAATAATCCTCT-A-----AAAAAATTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
s panTro5.chr12              62705353 124 + 137163284 TAAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGAGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTGCAAATAATCCTCT-A-----AAAAAATTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60831946 124 + 135337776 TAAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGAGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTGCAAATAATCCTCT-A-----AAAAAATTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047051 124 -  32808036 AAAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGAGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231083 124 +  34552619 AAAGTTCTCT--------A--------TTCCTTGCATTGGCATGAG----ATGGAGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTACTTTTGGGGCCATAAATTACC-CTCTGAGGCAAGAAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104546929 124 - 133663169 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAA-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTATCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i rheMac8.chr11             I 328 C 0
s macFas5.chr11             108946394 124 - 137757926 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAA-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTATCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i macFas5.chr11             I 328 C 0
s macNem1.NW_012011422v1      1324212 124 -   7948249 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAA-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTATCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i macNem1.NW_012011422v1    I 328 C 0
s cerAty1.NW_011999477v1      8217577 124 -  10730278 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAA-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTATCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i cerAty1.NW_011999477v1    I 330 C 0
s chlSab2.chr11             100715920 124 - 128539186 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAATAAAG-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTATCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i chlSab2.chr11             I 328 C 0
s manLeu1.NW_012101287v1       110739 123 +    435186 aaaGTTCTCT--------A--------TTTCTTGCATTGGCATGGA----ATGGGGCAGGAAAGAAGAAAG-GTAAT-TTAA-TTTTCAAATAATCCTCT-------AAAAAATTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i manLeu1.NW_012101287v1    I 327 C 0
s colAng1.NW_012114364v1      3499374 124 +   9309688 aaaGTTCTCT--------A--------TTTCTTGCATGGGCATGGG----ATGGGGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTTCAAATAATCCTCT-A-----AAAAAATTACCTTTGGGGCCAGAAATTACC-CTGTGAGGCAAGAAAT
i colAng1.NW_012114364v1    I 319 C 0
s saiBol1.JH378123           11332748 125 -  29834108 ACAGTTCTCT--------G--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTTCAAATAATCCTGTAA-----AAAAAACTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       788172 124 -   1015025 ACAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATGGGGCAGGAAAGAAGAAAG-TTAAT-TTAA-CTTTCAAATAATCCTGT-A-----AAAAAACTACCTTCTGGGCCAGAAATTGCC-CTCTGAGGCAAGAAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802096 124 -   2295209 TCAGTTCTCT--------A--------TTTCTTGCATTGGCATGGG----ATAGGGCAGGAAAGAAGAAAG-TTAAT-TTGA-CTTTCAAATAATCCTGT-A-----AAAAAACTACCTTTGGGGCCAGAAATTACC-CTCTGAGGCAAGAAAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2920736 124 +  31815103 AAAA-TCTCT------GTA--------TTTCTCCCATTGGCATGGG----GTGGGGCAGGGGGGAAGAAGG-CTAAT-CTAA-CTTTCAAATGATCTTGT-------AAAAAATCATTTTGGAGGCAAGTCAGGATC-CTCTGAGGCAAGAAAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5017861 125 +  13104022 AAAATTCTCT------GAA--------TTTCTCCCATTGGCATGGG----GTGGGGCAGCGGGAAAGAAGG-TTAAT-TTAA-CTTTCAAATAATCTTGT-------AAAAAATCATTTTGGGGGCCAGTAATGATC-CTCTGGGGCAAGAAAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4508446 126 -  12054995 AATATTCTCT------GTC--------TTTCTTCCATTGGCATGGG----GTGGGGCAGAAAGGAAGAAGA-TTAAT-TTCA-CTTTCAAAGGATCATTT-------GAAAAATCACTTTTGAGGCCAGTAATTGTCTCTCAGAGACAAGAAAT
i otoGar3.GL873576          C 0 I 318
s mm10.chr6                   2362873 138 - 149736546 GCAGCTCTCA--------AGGAATCAGCTTCTCCTCCTGCCATGGA----GTGGAACCATGAGGAACAAAG-GCTATGTTAA-CTTTCAAATAATCGCGT-AGGGGGAGAAAATCACCTCTAGGGCCAGAAACGATC-CTTAGAGGCAAGAAAC
i mm10.chr6                 I 3 I 2
s canFam3.chr27              19661231 131 +  45876710 AAAATTCTCCCAGTATCAA--------TTTCTCCTCTTAGCATGGG----ATGGGACAGGGAGGAAAAAAGATTATT-TCAA-CTTTCAAATAATCATGT-------AAAAACTTAGCTTT-GGGTTAGAAATTATC-CTCTGAGGCAAGAAAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             871709 138 -   1687904 CAAGTTCTCC--------AAAAATTATTTTCTCTTGTTGGCATCGGGTGAGTGAGGCAGGGAGGAAGAAGA-GTCTT-TTAACCTCTCAAATAATCTTGGGG-----AAAAACTCAGATTTGGGGCCGGAAATTATT-CTCTAAGGCAAGAAAT
i dasNov3.JH562883          C 0 C 0

a score=924468.000000
s hg38.chr12_GL383549v1_alt     10539 68 +    120804 AAATTCTGAATTTTTTAAAGGGTGAGTGGTTTG---GTAA--ATTTACTCACCAGGAGATCAAGATCTTCTCA
s panTro5.chr12              62705477 68 + 137163284 AAATTCTGAATTTTTTAAAGGGTGAGTGGTTTG---GTAA--ATTTACTCACCAGGAGATCAAGATTTTCTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832070 68 + 135337776 AAATTCTGAATTTTTTAAAGGGTGAGTGGTTTG---GTAA--ATTTACTCACCAGGAGATCAAGATTTTCTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047175 68 -  32808036 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACCAGGAGATCAAGATCTTCTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231207 68 +  34552619 AAATTCTGAATTTTTTAAAGGGTGACTGATTTG---GTAA--ATTTACTCACCAGGAAATCAAGATCTTCTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547053 68 - 133663169 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTTACTAGGAGATCAAGATCTTCTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108946518 68 - 137757926 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTTACTAGGAGATCAAGATCTTCTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1324336 68 -   7948249 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTTACTAGGAGATCAAGATCTTCTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8217701 68 -  10730278 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACTAGGAAATCAAAATCTTCTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716044 68 - 128539186 AAATTCTGAATTTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACTAGGAGATCAAGATCTTCTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       110862 67 +    435186 AAATTCTGAG-TTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACTAGGAAATCAAAATCTTCTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3499498 68 +   9309688 AAATTCTGAATTTTTTAAAGGGTAAGTGATTTG---GTAA--ATTTACTCACTAGGAGATCAAGATCTTCTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11332873 68 -  29834108 AAATTCTGAAATTTTTAAAGGGTGAGTGATATG---GTAA--ATTTACTCACTAGCAGATCAAGATCTTCTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       788296 68 -   1015025 AAATTCTGAAATTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACTAGCAGATCAAGATATTCTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802220 68 -   2295209 AAATTTTGAAATTTTTAAAGGGTGAGTGATTTG---GTAA--ATTTACTCACTAGCAGATCAAGATCTTCTAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2920860 71 +  31815103 AAATTCTGAAATATTTAAAGGGCAAATGATTTGAACATAC--ATTTACTGACCAGGAGATCAAGATCCTTTCA
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5017986 65 +  13104022 AAATTCTGAAATATTTGAAG------TGATTTGAACATAC--ATTTACTGACCAGGAGATCAAGATCCTCTCA
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4508890 73 -  12054995 aCATCCTGAATTTTTTAAAGGGTGAGTGATTTGAACATGCAAATTTACTCACCAGGAGATCAAGATCCTCTCA
i otoGar3.GL873576          I 318 I 2
s mm10.chr6                   2363013 64 - 149736546 AAA---TGACTTTTTTGAATGG----TGACTTGAACATGA--ATTCACTCTGCAGGAAGTCAAGATCCTCCTG
i mm10.chr6                 I 2 I 1
s canFam3.chr27              19661362 68 +  45876710 AAATTCTGAA-TTCTCACAGGGTGAGTGATTTGACAACAA--ATTTGCTCACCAG-AAATCAAGATCCTCTC-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             871847 59 -   1687904 AAATTCTTGATTTTTCAAAGGGTG------------AGAG--ATTTACTAACTAGGAGGTCAAGAGCCTCTCG
i dasNov3.JH562883          C 0 C 0

a score=-11575.000000
s hg38.chr12_GL383549v1_alt     10607 2 +    120804 -AA
s panTro5.chr12              62705545 2 + 137163284 -AA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832138 2 + 135337776 -AA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047243 2 -  32808036 -AA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231275 2 +  34552619 -AA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547121 2 - 133663169 -AA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108946586 2 - 137757926 -AA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1324404 2 -   7948249 -AA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8217769 2 -  10730278 -AA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716112 2 - 128539186 -AA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       110929 2 +    435186 -AA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3499566 2 +   9309688 -AA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11332941 2 -  29834108 -AA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       788364 2 -   1015025 -AA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802288 2 -   2295209 -AA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2920932 1 +  31815103 -A-
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5018052 1 +  13104022 -A-
i proCoq1.NW_012140524v1    I 1 C 0
s mm10.chr6                   2363078 1 - 149736546 -A-
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19661430 1 +  45876710 --A
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             871906 2 -   1687904 TG-
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4508963 2 -  12054995 I

a score=8546163.000000
s hg38.chr12_GL383549v1_alt     10609 636 +    120804  
s panTro5.chr12              62705547 636 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832140 636 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047245 636 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231277 635 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547123 635 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108946588 635 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1324406 635 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8217771 632 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716114 634 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       110931 632 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3499568 633 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11332943 631 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       788366 632 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802290 633 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2920933 619 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5018053 624 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4508965 661 -  12054995  
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2363079 585 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19661432 634 +  45876710  
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             871908 658 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=33417.000000
s hg38.chr12_GL383549v1_alt     11245 3 +    120804 ACC
s panTro5.chr12              62706183 3 + 137163284 ACC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832776 3 + 135337776 ACC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047881 3 -  32808036 ACC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231912 3 +  34552619 ACC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547758 3 - 133663169 ACC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947223 3 - 137757926 ACC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325041 3 -   7948249 ACC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218403 3 -  10730278 ACC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716748 3 - 128539186 ACC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111563 3 +    435186 ACC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500201 3 +   9309688 ACC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333574 2 -  29834108 A-C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       788998 3 -   1015025 ACC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802923 3 -   2295209 ACC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2921552 3 +  31815103 ACC
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5018677 3 +  13104022 ACC
i proCoq1.NW_012140524v1    C 0 I 1
s canFam3.chr27              19662066 3 +  45876710 ATC
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4509626 0 -  12054995 C
e mm10.chr6                   2363664 0 - 149736546 C
e dasNov3.JH562883             872566 0 -   1687904 C

a score=1183335.000000
s hg38.chr12_GL383549v1_alt     11248 139 +    120804 CCCAtgatatggtttggctgtgcccccacccaaatctcatcttgaattttagctcccataattcccacatgttgtgggagggacccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
s panTro5.chr12              62706186 139 + 137163284 CACAtgatatggtttggctgtgcccccacccaaatctcatcttgaattgtagctcccataattcccacatgttgtgggagggacccctggtgggggatacttgaatcgtggaaggagtttcttccagactgttctcctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832779 139 + 135337776 CACAtgatatggtttggctgtgcccccacccaaatctcatcttgaattgtagctcccataattcccacatgttgtgggagggacccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3047884 139 -  32808036 CCCAtgatatggtttggctgtgcccccacccaaatctcatcttgaattgtagctcccataattcccacatgttgtgggagggacccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7231915 139 +  34552619 CCCAGgatatggtttggctgtgcccccacccaaatcttgtcttgaattgtagctcccataattcccacgtgttgtgggagggacccctggtgggggatacttgaatcatggaaggggtttcttccagactgttctcctg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547761 139 - 133663169 CCCATTatatggtttggctgtgtccccacccaaacctcatcttgaattatagctcccataattcccacatgttgtgggaggggcccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947226 139 - 137757926 CCCATTatatggtttggctgtgtccccacccaaacctcatcttgaattatagctcccataattcccacatgttgtgggaggggcccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325044 139 -   7948249 CCCATTatatggtttggctgtgtccccacccaaacctcatcttgaattatagctcccataattcccacatgttgtgggaggggcccctggtgggggatacttgaatcatggaaggagtttcttccagactcttctcctc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218406 139 -  10730278 TCCAtgatatggtttggctgtgttcccacccaaacctcatcttgaattgtagctcccataattcccacatgctgtgggaggggctcctggtgggggatacttgaatcatggaagaagtttcttccagactgttctccta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716751 139 - 128539186 CCCATTatatggtttggctgtgtccccacccaaacctcatcttgaattgtagctcccataatttccacatgttgtgggaggggcccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111566 138 +    435186 CCCAtgatatggtttggctgtgtccccacccaaacctcatcttgaattgtagctcccataattcccacatgttgtgggagggg-ccctggtgggggatacttgaatcatggaagaagtttcttccagactgttctccta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500204 139 +   9309688 CCCAtgatatggtttggctgtgtcctcacccaaacctcatctttaattgtagctcccataattcccacatgttgtgggaggggcccctggtgggggatacttgaatcatggaaggagtttcttccagactgttctcctg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333576 137 -  29834108 CCCAtgatatggtttggctgtgtccccacacaaatctcatcttgaattattgctcccataattctcacatgttgtgggaggga--tctagtgggggatactcgaatcatgggagggatttcttccagactgttctcctg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789001 136 -   1015025 CCCATGA-atggtttggctgtgtccccacacaaatctcatcttgaattattgctcccacaattcccacatgttgtgggaggga--tctagtgggggatacttgaatcatgggagggattactttcagactgttctcctt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1802926 136 -   2295209 CCCATTatatggtttggctgtgtccccacacaaatctcatcttgaattattgctcccataa-tcccacatgttgtgagaggga--tctagtgggagatacttgaatcatgggaggggtttcttccagactgttctcctg
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19662069  46 +  45876710 ----------------------------------------------------------------------------------ACCCATAGTAAATAATTCTTGATTCAT-----------CTTACAGAGGATCGACCTG
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4509626   0 -  12054995 C
e mm10.chr6                   2363664   0 - 149736546 C
e micMur3.chr21               2921555   1 +  31815103 I
e proCoq1.NW_012140524v1      5018680   1 +  13104022 I
e dasNov3.JH562883             872566   0 -   1687904 C

a score=110371.000000
s hg38.chr12_GL383549v1_alt     11387 14 +    120804 gtagtg-----aataagtc
s panTro5.chr12              62706325 14 + 137163284 gtagtg-----aataagtc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832918 14 + 135337776 gtagtg-----aataagtc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048023 14 -  32808036 gtagtg-----aataagtc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232054 14 +  34552619 gtagtg-----aataagcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547900 14 - 133663169 gtagtg-----aataagtc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947365 14 - 137757926 gtagtg-----aataagtc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325183 14 -   7948249 gtagtg-----aataagtc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218545 14 -  10730278 gtagtg-----aataattc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716890 14 - 128539186 gtagtg-----aataagtc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111704 19 +    435186 gtagttctcacaataattc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500343 14 +   9309688 gtagtg-----aataagtc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333713 14 -  29834108 gtaatg-----aataagtc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789137 14 -   1015025 gtaatg-----aataagtc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803062 14 -   2295209 gtaagg-----aataactc
i aotNan1.NW_018488218v1    C 0 I 13
e otoGar3.GL873576            4509626  0 -  12054995 C
e mm10.chr6                   2363664  0 - 149736546 C
e micMur3.chr21               2921555  1 +  31815103 I
e canFam3.chr27              19662115  0 +  45876710 C
e proCoq1.NW_012140524v1      5018680  1 +  13104022 I
e dasNov3.JH562883             872566  0 -   1687904 C

a score=68163.000000
s hg38.chr12_GL383549v1_alt     11401 11 +    120804 tcacgagatct
s panTro5.chr12              62706339 11 + 137163284 tcacgagatct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832932 11 + 135337776 tcacgagatct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048037 11 -  32808036 tcacgagatct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232068 11 +  34552619 tcacaagatct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547914 11 - 133663169 tcagaatatct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947379 11 - 137757926 tcagaatatct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325197 11 -   7948249 tcagaatatct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218559 11 -  10730278 tcacaatatct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716904 11 - 128539186 tcagaatatct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111723 11 +    435186 tcacaatatct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500357 11 +   9309688 tcacaatattt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333727 11 -  29834108 tcacaagatct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789151 11 -   1015025 tcacaagatct
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4509626  0 -  12054995 C
e mm10.chr6                   2363664  0 - 149736546 C
e micMur3.chr21               2921555  1 +  31815103 I
e canFam3.chr27              19662115  0 +  45876710 C
e proCoq1.NW_012140524v1      5018680  1 +  13104022 I
e aotNan1.NW_018488218v1      1803076 13 -   2295209 I
e dasNov3.JH562883             872566  0 -   1687904 C

a score=660931.000000
s hg38.chr12_GL383549v1_alt     11412 80 +    120804 gatgtttttataaggggtttccccttttgcttggctctcgttctctctcttgcctgctgccatataaaacatgtctttca
s panTro5.chr12              62706350 80 + 137163284 gatgtttttataaggggttgccccttttgcttggctctcgttctctctcttgcctgctgccatataaaacatgtctttca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60832943 80 + 135337776 gatgtttttataaggggttgccccttttgcttggctctcgttctgtctcttgcctgctgccatataaaacatgtctttca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048048 80 -  32808036 gatgtttttataaggggtttccccttttgcttggctctcattctctctcttgcctgctgccatataaaacatgtctttca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232079 80 +  34552619 gatgtttttataaggggtttccccttttgcttggctctcattctctgtcttgcctgctgccatataaaacgtgtctttca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104547925 80 - 133663169 gttgtttttataaggggtttccccttttgcttggctcacattctgtctcttgtctgccaccatgtaagacgtgtcttttg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947390 80 - 137757926 gttgtttttataaggggtttccccttttgcttggctcacattctgtctcttgtctgccaccatgtaagacgtgtcttttg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325208 80 -   7948249 gttgtttttataaggggtttccccttttgcttggctcacattctgtctcttgtctgccaccatgtaagacgtgtcttttg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218570 78 -  10730278 gatgtttttataaggggtttccccttttgcttggctcatat--tgtctcttgtctgccaccatgtaagacatgtctttcg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716915 80 - 128539186 gttgtttttataagaggtttccccttttgcttggctcacattctgtctcttgtctgccaccatgtaagacatgtctttcg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111734 80 +    435186 gatgtttttataaggggtttccccttttgcttggctcacattctgtctcttgtctgccaccatgtaagacatgtctttcg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500368 80 +   9309688 gacgtttttataaggggtttccccttttgcttggctcacattctgtctcttgcctgccaccatgtaagacgtgtctttca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333738 80 -  29834108 gatgtttttataaggggtttccctttttgcttggctctcattctctctcttgcctgctgccatgtaagacatgtccttca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789162 80 -   1015025 gacgtttttataaggggtttccctttatgcttggctctcactctctctcttgcctgctgccatgtaagacatgcccttca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803089 80 -   2295209 gaggtttttataaggggtttccctttttgcttggctctcattctctctcttgcctgctgccatgtaagatgtgcccttca
i aotNan1.NW_018488218v1    I 13 C 0
e otoGar3.GL873576            4509626  0 -  12054995 C
e mm10.chr6                   2363664  0 - 149736546 C
e micMur3.chr21               2921555  1 +  31815103 I
e canFam3.chr27              19662115  0 +  45876710 C
e proCoq1.NW_012140524v1      5018680  1 +  13104022 I
e dasNov3.JH562883             872566  0 -   1687904 C

a score=1106608.000000
s hg38.chr12_GL383549v1_alt     11492 125 +    120804 ccttccaccatgattgtgagaccttcccagccacatggaactgtgagtccattaaacctctttttctttataatttactcaatctcgggtatgtctttatcagcagtgtgaaaatggactaatac
s panTro5.chr12              62706430 125 + 137163284 ccttccaccatgattatgagaccttcccagccacatggaactgtgagtccattaaacctctttttctttataatttactcaatctcgggtatgtctttatcagcagtgtgaaaatggactaatac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833023 125 + 135337776 ccttccaccatgattatgagaccttcccagccacatggaactgtgagtccattaaacctctttttctttataatttactcaatctcgggtatgtctttatcagcagtgtgaaaatggactaatac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048128 125 -  32808036 ccttccaccatgattgtgagaccttcccagccacatggaactgtgagtccattaaacctctttttctttataatttactcaatcttgggtatgtctttatcagcagtgtgaaaatggactaatac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232159 125 +  34552619 ccttccaccatgattgtgagaccttcccagccacatggaactgtgagtccattaaacatcttttcctttataatttacacagtctcgggtatgtctttatcagcagtgtgaaaatggactaatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548005 125 - 133663169 ccttccaccatgattgtgagaccttcctagccacatgcaactgtgagtccattaaacctctttttctttataatttactcagtctcgggtatgtctttatcagcagtgtgaaaatggactaatac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947470 125 - 137757926 ccttccaccatgattgtgagaccttcctagccacatgcaactgtgagtccattaaacctctttttctttataatttactcagtcttgggtatgtctttatcagcagtgtgaaaatggactaatac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325288 125 -   7948249 ccttccaccatgattgtgagaccttcctagccacatgcaactgtgagtccattaaacctctttttctttataatttactcagtctcgggtatgtctttatcagcagtgtgaaaatggactaatac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218648 125 -  10730278 ccttccaccatgattgtgagaccttcccagccacatgcaactgtgagtccattaaacctctttttctttaaaatttactcagtctcaggtatgtctttatcagcagtgtgaaaatggactaatac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100716995 125 - 128539186 ccttccaccatgactgtgagaccttcctagccacatgcaactgtgagtccattaaacctctttttctttataatttactcagtctcgggtatgtctttatcagcagtgtgaaaatggactaatac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111814 125 +    435186 ccttccaccatgattgtgagaccttcccagccacatgcaactgtgagtccattaaacctctttttctttataatttactcagtctcaggtatgtctttatcagcagtgtgaaaatggactaatat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500448 125 +   9309688 ccttccaccatgattgtgagaccttcccagccacatgcacctgtgagtccattaaacctctttttctttataatttactcagtctcgggtatgtgtttatcagcagtgtgaaaatggactaatac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333818 125 -  29834108 ccttccaccattattgtgagacctccccagcctcatggaactgtgaatccattaaacctctttttctttataatttactcagtctcaggtatgtctttatcagcagtgggaaaatggactaatat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789242 125 -   1015025 ccttccaccattattgtgagacctccccagcctcatggaactgtgaatccattaaacctctttttctttataatttactcagtctcaggtatgtttttatcagcagtgtgaaaatggactaatac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803169 125 -   2295209 ccttccaccattattgtgagacctccccagcttcatggaactgtgagtccattaaaccttattttctttataatttactcagtcttaggtatgtctttatcagcagtgtgaaaatggactaatat
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19662115  22 +  45876710 CCTTCCA-------------------------------------------------------------------------------------------------AGTATAAAAATATAT------
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4509626   0 -  12054995 C
e mm10.chr6                   2363664   0 - 149736546 C
e micMur3.chr21               2921555   1 +  31815103 I
e proCoq1.NW_012140524v1      5018680   1 +  13104022 I
e dasNov3.JH562883             872566   0 -   1687904 C

a score=50016.000000
s hg38.chr12_GL383549v1_alt     11617 4 +    120804 aCCC
s panTro5.chr12              62706555 4 + 137163284 aCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833148 4 + 135337776 aCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048253 4 -  32808036 aCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232284 4 +  34552619 aCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548130 4 - 133663169 aCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947595 4 - 137757926 aCCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325413 4 -   7948249 aCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218773 4 -  10730278 aCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717120 4 - 128539186 aCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111939 4 +    435186 aCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500573 4 +   9309688 aCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333943 4 -  29834108 aCCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789367 4 -   1015025 aCCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803294 4 -   2295209 aCCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4509626 4 -  12054995 ACTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2363664 4 - 149736546 ACCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662137 4 +  45876710 GCCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             872566 4 -   1687904 ACCA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921555 1 +  31815103 I
e proCoq1.NW_012140524v1      5018680 1 +  13104022 I

a score=507872.000000
s hg38.chr12_GL383549v1_alt     11621 40 +    120804 CACTTACTAAATAATTATTGATTTGTACTTTAGAAGGAGA
s panTro5.chr12              62706559 40 + 137163284 CACTTACTAAATAATTATTGATTTGTACTTTAGAAGGAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833152 40 + 135337776 CACTTACTAAATAATTATTGATTTGTACTTTAGAAGGAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048257 40 -  32808036 CACTTACTAAATAATTATTGATTTGTACTTTAGAAGGAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232288 39 +  34552619 CACTTACTAAATAATTATTGATTTATACTTTAGAAGGAG-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548134 40 - 133663169 CACTTAGTAAATAATCATTGATTTGAACTTTAGAAGGAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947599 40 - 137757926 CACTTAGTAAATAATCATTGATTTGAACTTTAGAAGGAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325417 40 -   7948249 CACTTAGTAAATAATCATTGATTTGAACTTTAGAAGGAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218777 40 -  10730278 CACTTAGTAAATAATTATTGATTTGAACTTTAGAAGGAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717124 40 - 128539186 CACTTAGTAAATAATTATTGATTTGAACTTTAGAAGGAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111943 40 +    435186 CACTTAGTAAATAATTATTGATTTGAACTTTAGAAGGAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500577 40 +   9309688 CACTTAGTAAATAATTATTGATTTGAACTTTAGAAGGAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333947 40 -  29834108 CAATTACTAAATAATTATTGATTTGTACTTTAGAAGTAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789371 40 -   1015025 CAATTACTAAATAATTGTTGATTCAGACTTTAGAAGTAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803298 40 -   2295209 CAATTACTAAATAATTATTGATAAGTACTTTAGAAGTAGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2921556 40 +  31815103 CACTTAGTAAATAATTATTGATTCATACTTCAGAAGGAGA
i micMur3.chr21             I 1 I 141
s proCoq1.NW_012140524v1      5018681 40 +  13104022 CACTTAGTAAATAATTATTGATTCATACTTCAGAAGGAGA
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4509630 40 -  12054995 TACTTATTAATTAATTATTGGTTCATACTTCAGAAGGTTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2363668 36 - 149736546 TGTCTACTAAA-GATTGTGGCTTTATACTGCGGGAAA---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662141 33 +  45876710 ------CTAAAT-ATTGTCCGTTTTCAATTTTCAGGAAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             872570 40 -   1687904 CACTTACTAAATAATTATTGACTTACACTTCAGAAGGGTA
i dasNov3.JH562883          C 0 C 0

a score=198737.000000
s hg38.chr12_GL383549v1_alt     11661 23 +    120804 TATCAGGCTTCTAAGTAGGGGTC
s panTro5.chr12              62706599 23 + 137163284 TATCAGGCTTCTAAGTAGGGGTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833192 23 + 135337776 TATCAGGCTTCTAAGTAGGGGTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048297 23 -  32808036 TATCAGGCTTCTAAGTAGGGGTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232327 22 +  34552619 -ATCAAGCTTCTAAGTAGGGGTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548174 23 - 133663169 TATCAGGCTTTTAACTAGGGGTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947639 23 - 137757926 TATCAGGCTTTTAACTAGGGGTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325457 23 -   7948249 TATCAGGCTTTTAATTAGGGGTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218817 23 -  10730278 TATCAGGCTTTTAACTAGGGGTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717164 23 - 128539186 TATCAGGCTTTTAACTAGGGGTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       111983 23 +    435186 TATCAGGCTTTTAACTAGGGGTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500617 23 +   9309688 TATCAGGCTTTTAACTAGGGGTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11333987 23 -  29834108 TACCTGGCTTCTAAGTAGGCATC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789411 23 -   1015025 TACCTGGCTTCTAAGTAGGCATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803338 23 -   2295209 TAACTGGATTCTAAGTAGTGGTC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5018721 23 +  13104022 TACCTGGCTTCTAAGCATGAGAC
i proCoq1.NW_012140524v1    C 0 I 15
s otoGar3.GL873576            4509670 23 -  12054995 GGTCTGGCTTCTAAGCATGAGAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2363704 23 - 149736546 GGTCTATTCTCCAGGGAAGAGCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662174  2 +  45876710 ------------AA---------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             872610 23 -   1687904 GACCTGACTTCCAAGTATGGGAA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921596 141 +  31815103 I

a score=151606.000000
s hg38.chr12_GL383549v1_alt     11684 23 +    120804 -AAGTTTCCTCT--TAATTTTGTCAA-
s panTro5.chr12              62706622 23 + 137163284 -AAGTTTCCTCT--TAATTTTGTCAA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833215 23 + 135337776 -AAGTTTCCTCT--TAATTTTGTCAA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048320 23 -  32808036 -AAGTTTCCTCT--TAATTTTGTCAA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232349 19 +  34552619 -AAGTTTCCTTT--TAATTTTG-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548197 19 - 133663169 -AAATTTCCTCT--TAATTTTG-----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947662 19 - 137757926 -AAATTTCCTCT--TAATTTTG-----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325480 19 -   7948249 -AAATTTCCTCT--TAATTTTG-----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218840 19 -  10730278 -AAGTTTCCTCT--TAATTTTG-----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717187 19 - 128539186 -AAGTTTCCTCT--TAATTTTG-----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112006 19 +    435186 -AAGTTTCCTCT--TAATTTTG-----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500640 19 +   9309688 -AAGTATCCTCT--TAATTTTG-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334010 19 -  29834108 -AAGTTTCCTCT--TAATTTTG-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789434 19 -   1015025 -AAGTTTCCTCT--TAATTTTG-----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803361 19 -   2295209 -AAGTTTCCTCT--TAATTTTG-----
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4509693 17 -  12054995 -TAACTACCTCT--TAGTTG-------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2363727 18 - 149736546 --AACTGGCTCT--TTTTATGG-----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662176 19 +  45876710 -AAGATGCCCCT--TAATATTG-----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             872633 23 -   1687904 TAAATGTCTTCTGGCACTGTCA----A
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921596 141 +  31815103 I
e proCoq1.NW_012140524v1      5018744 15 +  13104022 I

a score=1128267.000000
s hg38.chr12_GL383549v1_alt     11707  95 +    120804 TCAATTCTTCAATTTTCAGGAAAATGAAGAAATTTTCTCTGGTCATATATTATCCCTAATAACTATTAAACAAAAG------CATAAATTATTAGTAATTT---
s panTro5.chr12              62706645  95 + 137163284 TCAATTCTTCAATTTTCAGGAAAATGAAGAAATTTTCTCTGGTCATATATTATCCCTAATAACTATTAAACAAAAG------CATAAATTATTAGTAATTT---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833238  95 + 135337776 TCAATTCTTCAATTTTCAGGAAAATGAAGAAATTTTCTCTGGTCATATATTATCCCTAATAACTATTAAACAAAAG------CATAAATTATTAGTAATTT---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048343  95 -  32808036 TCAATTCTTCAATTTTCAGGAAAATGAAGAAATTTTCTCTGGTCATATATTATCCCTAATAACTATTAAACAAAAG------CATAAATTATTAGTAATTT---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232368  92 +  34552619 TCAATTCTTCAATTTTCAGGAAGAT---GAAATTTTCTCTGGTCATGTATTATCCCTAATAACCATTAAACAAAAG------CATACATTATTAGTAATTT---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548216  95 - 133663169 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTCATAACTACTAAACAAAAG------CATAAATTATTAGTAATTT---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947681  95 - 137757926 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTCATAACTACTAAACAAAAG------CATAAATTATTAGTAATTT---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325499  95 -   7948249 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTCATAACTACTAAACAAAAG------CATAAATTATTAGTAATTT---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218859  95 -  10730278 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTCATAACTACTAAACAAAAG------CATAAATTATTAGTAATTT---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717206  95 - 128539186 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTCATAACTACTAAGCAAAAG------CATAAATTATTAGTAATTT---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112025  95 +    435186 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTTGATCATGTATTATCCCTAATAACTACTAAACAAAAG------CATAAATTATTAGTAATTT---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500659  95 +   9309688 TCAATTCTTCAATTTTCAGGAAGATGAAGAAATTTTCTTCGATCATGTATTATCCCTAATAACTACTAAACAAAAG------CATAAATTACTAGTAATTT---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334029  94 -  29834108 TCAATTCTTCCATTTTCAGGAAGATGAAAAAAATTTTTCTGGTCATGTATTATCCCTAATAACTATTTTA-AGAAT------CATAAATTATTAGTAATTT---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789453  94 -   1015025 TCGATTCTTCAATTTTCAGGAAAATGAAAAAATTTTCTCTGGTCATGTATTATCCCTAATAACTATTTTA-AGAAG------TATAAATTATTAGTAATTG---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803380  94 -   2295209 TCAATTCTTTAATTTTCAGGAAGATCACAAAATTTTCTCTCATCATGTATTATCCCTAATAACTATTTTA-AGAAG------CATAAATTATTAGTAATTT---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5018759 101 +  13104022 TCACTTCTTCAATTTTCAGGAGGATGAAGAAATTTATTCTGGTCATGTATTATGGCtaataactattaaatagaagtactaatataaagtatcagtaatta---
i proCoq1.NW_012140524v1    I 15 I 4
s otoGar3.GL873576            4509710  93 -  12054995 TCAATTCTTCAATTTTCAGAATGATGAAGAAATTTACTTTGGTTATGTATTAT--CTCATAACTATTAAACAAAAG------CATAGATTATCAGTAATTC---
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2363745  83 - 149736546 TCAAGTTTTCAAAATTTGAGAAAATCAAGACATTT-----AGTCATATGTCATCTCTAATAACTATTCAACAAAAG------TACAAA-TACAAG---------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662195  68 +  45876710 TTAATTCTTAAATGTTTAGG----------------------TCATGTATTTTCCATAGTGAATATTAAA-----G------CTCAAATTATTAGTAATTT---
i canFam3.chr27             C 0 I 4
s dasNov3.JH562883             872656  93 -   1687904 ----TTCTTCAATTTTCAGGAAGATAAAGCAATTTACTCTGACCATATATTTTCCCTAGTAACCATTAAGCAAAAG------TGTA-ATGATCAATACTTGTGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921596 141 +  31815103 I

a score=2004116.000000
s hg38.chr12_GL383549v1_alt     11802 146 +    120804 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GCAAATTCCTCCAA-----AA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
s panTro5.chr12              62706740 146 + 137163284 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTATAAAGGA--------GCAAATTCCTCCAA-----AA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833333 146 + 135337776 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTATAAAGGA--------GCAAATTCCTCCAA-----AA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048438 146 -  32808036 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GCAAATTCCTCCAA-----AA----GAAAATATACC-TAATTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232460 146 +  34552619 TATTAATCAAAATTTGTATCTAAACTCTAACTCAACACCTA--TATTTAGAAAGGA--------GAAAATTCCTCCAA-----AA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTTTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548311 146 - 133663169 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-TAGTTAATACGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947776 146 - 137757926 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325594 146 -   7948249 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8218954 146 -  10730278 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTGAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717301 146 - 128539186 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-CAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112120 146 +    435186 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTGGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAATATAGC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCATTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500754 145 +   9309688 TATTAATCAAAATTTGTATCTAAACTCTAACTCAATACCCA--TATTTAGAAAGGA--------GTAAATTCCTCCAA-----GA----GAAAACATACC-TAGTTAATATGCTATAAAAA-ATCA---AGTCTGAATCTTAGCATTCAGTAGTCTGAAAATTACT------------------------------------------------------CAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334123 146 -  29834108 TATTAATCAAAATTTGTATCTAAATTCTAACTCAATACCCA--TATTTAGAAGACA--------GTAAATTCTTCCAA-----GA----GAATATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTTGACTGAAAATTACT------------------------------------------------------CAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789547 146 -   1015025 TAATAATCGAAATTTGCATCTAAATTCTAACTCAATACCCA--TATTTAGAAGATA--------GTATATTCCTCCAA-----GA----GAATATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCAGTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803474 146 -   2295209 TATTAATCAAAATTTGTATCTAAATGCTAACTCAATACCCA--TGTTTACAAGGGA--------GTAAATTCCTCCAA-----GA----GAAAATATACC-TAGTTAATATGCTATAAAAATATCA---AGTCTGAATCTTAGCACTCAGTAGACTGAAAATTACT------------------------------------------------------CAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2921737 152 +  31815103 TATTAATCAAAACTTGTATTTAAACTCTAACTTAGTACCCATTTATTTAGAAGAGA--------ATAAATTCCTCCAA-----GG----GAAACTATACCATAATCAACATACTATAAAAATATCAATGAGTGTGAATCTTAGCAATTAGTCAACCGAAAATCACT------------------------------------------------------CAA
i micMur3.chr21             I 141 C 0
s proCoq1.NW_012140524v1      5018864 152 +  13104022 tattaatcaaaatTTTTATTTAAACTCTAACTTAATATCCATTTATTTAGAAGGAA--------GTAAATTCCTCCAA-----GG----GAAACTATACCATAATCAATATACTATAAAAATATCAACGAGTGTGAATCTTAACAATTAGTCAACTGAAAATCACT------------------------------------------------------CAA
i proCoq1.NW_012140524v1    I 4 C 0
s otoGar3.GL873576            4509807 154 -  12054995 TATTCATCAAAATTTGTATTTAAATGCTAACTTAATACCCATATATTTAGAAGAGA------GTGTAAATTCCTCCAA-----GG----AAAAGTACCCTGTAATCAACATACTATAAAAATATCAGTGAGTGTGAATCTTAGCAATTAGTAGACTGAAAATCACC------------------------------------------------------CAA
i otoGar3.GL873576          I 4 I 118
s mm10.chr6                   2363828 190 - 149736546 -ATTAATCAAAGTTTGAATTTTAACT-------AATACTCA--TTTC---ATCTGA--------AGGAATTTCT-CAA-----GG----AAAAATATGCCATACATAATATAC--TAAAAATGTTAGTGAGTATGGGTTTTCATATTCTGTGGACTGAAAATCACTAACACCAACCCAGCAACTCTTGTCTGACCAGCAGGAGCTTGAGGAACAACCCTGCAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662267 152 +  45876710 CATTAAT-GAAATTTATATTTAAACTCTAACTTAATACTCA--TATTTTGAAAGAA--------ATAAATTACTCCAATATATGG----GAAAGTATGCCATAATTGAAATATTATAAAAATATCAATTAGTATAA--CTTAATATTCAGTAGAATGAAAATAACT------------------------------------------------------TAA
i canFam3.chr27             I 4 I 97
s dasNov3.JH562883             872749 164 -   1687904 TATTAATTAAAATTTGTGTTTAAATTCTAACATAATGCTCATATATTTAGAAGGGACTGCTTGGGTAAACTACTTAGA-----AATCAGGAAAATATATCACAATTGATAAACTGCAAAGATATAAATGCAAATGAGTCTTACTATTTGGTAGACTGAAAATCAAT------------------------------------------------------CGA
i dasNov3.JH562883          C 0 I 44

a score=19110.000000
s hg38.chr12_GL383549v1_alt     11948 1 +    120804 A
s panTro5.chr12              62706886 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833479 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048584 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232606 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548457 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947922 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325740 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219100 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717447 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112266 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500899 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334269 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789693 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803620 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2921889 1 +  31815103 A
i micMur3.chr21             C 0 I 227
s proCoq1.NW_012140524v1      5019016 1 +  13104022 A
i proCoq1.NW_012140524v1    C 0 I 176
s otoGar3.GL873576            4510079 1 -  12054995 A
i otoGar3.GL873576          I 118 C 0
s mm10.chr6                   2364018 1 - 149736546 A
i mm10.chr6                 C 0 I 58
s canFam3.chr27              19662516 1 +  45876710 A
i canFam3.chr27             I 97 C 0
s dasNov3.JH562883             872957 1 -   1687904 A
i dasNov3.JH562883          I 44 C 0

a score=617505.000000
s hg38.chr12_GL383549v1_alt     11949 59 +    120804 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--GTAGAGGTGTCCCACCC
s panTro5.chr12              62706887 59 + 137163284 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--GTAGAGGTGTCCCACCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833480 59 + 135337776 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--GTAGAGGTGTCCCACCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048585 59 -  32808036 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATGTACAC--ATAGAGGTGTCCCACCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232607 59 +  34552619 AGTAAGG------GATTAGAGAAACAAAAAGTCTTAGCAAATATACAC--ATAGAGGTGTCCCACCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548458 57 - 133663169 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947923 57 - 137757926 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325741 57 -   7948249 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219101 57 -  10730278 AGTAAGG------GATTAGAGAAACAATAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717448 57 - 128539186 AGTAAGG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112267 57 +    435186 AGTAAGA------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500900 57 +   9309688 AGTAAGG------GATTAAAGAAACAAAAAGTCTTGGCAAATATACAC----AGAGGTGTCCCACCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334270 59 -  29834108 AGTAAAG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--AAAGAGGTGTGCCACAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789694 59 -   1015025 AGTAAAG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--AAAGAGGTGTGCCACAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803621 59 -   2295209 AATAAAG------GATTAGAGAAACAAAAAGTCTTGGCAAATATACAC--ACAGAGGTGTGCCACAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4510080 58 -  12054995 AGTAAGG------GACTGTAGGAACAAAAAGTCTTGG-AAGTATACTT--GTAGATATGTACCACAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364077 66 - 149736546 AGTAATGAACTAAGATTGTAGAAACGG-AAGTCTTATAAAATATACACACATGCATACATACTACAA
i mm10.chr6                 I 58 C 0
s canFam3.chr27              19662517 59 +  45876710 AGTAAGA------GGTTATAGAAATCAAATATCTTGGGAAAAAAACAT--ATAGATCTAGGCCATAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             872958 59 -   1687904 CGCAAGA------AATTATAGAAAAAAAAAGTCTTGGAACATATATGT--ATGGACACAGACTAGAA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921890 227 +  31815103 I
e proCoq1.NW_012140524v1      5019017 176 +  13104022 I

a score=474183.000000
s hg38.chr12_GL383549v1_alt     12008 35 +    120804 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
s panTro5.chr12              62706946 35 + 137163284 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833539 35 + 135337776 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048644 35 -  32808036 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232666 35 +  34552619 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548515 35 - 133663169 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108947980 35 - 137757926 ATATTTGAATCATTAGTTATCTTTTAATATGGTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325798 35 -   7948249 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219158 35 -  10730278 ATATCTAAATCATTAGTTATCTTTTAATATGGTAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717505 35 - 128539186 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112324 35 +    435186 ATATTTAAATCATTATTTATCTTTTAATATGGTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500957 35 +   9309688 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334329 35 -  29834108 ATATTTAAATCATTAGTTATCTTTTAATTTGGTAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789753 35 -   1015025 ATATTTAAATCATTAGTTATCTTTTAATATGGTAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803680 35 -   2295209 ATATTTAAATCATTACTTATCTTTTAATATGGTAC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019193 35 +  13104022 ATACTTAAAACATTACTTATCCTTTAATGTAGTAT
i proCoq1.NW_012140524v1    I 176 C 0
s otoGar3.GL873576            4510138 35 -  12054995 ATATCTAAATCATCAGTTATCCCTTAATATAGAAC
i otoGar3.GL873576          C 0 I 5
s mm10.chr6                   2364143 34 - 149736546 ATATTTAAACCATGTGTTTTCTGGTAAT-TGGTAC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662576 34 +  45876710 AATTTTAAATCATTAGTTATCT-Ttaatagagcat
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             873017 32 -   1687904 ATTTTTAATC---TAGCTATCTTTTTATatggtac
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2921890 227 +  31815103 I

a score=2800860.000000
s hg38.chr12_GL383549v1_alt     12043 228 +    120804 cta-ctatttgtttaatgtcactaagtatgaggtactatcctaggcattgtacatgtgttttatcacttaatgtactttaatctaaacggtgcaagagcaacttcaata-------------------cag------gtattagtattacccctatttacagat-aagaaat-ggagactgagaagaatgaagttaac------ctat----------------------------------------atgtgtgcatacatctcgc-aaaaaatagaactgactttt--aatctaggtctgttt
s panTro5.chr12              62706981 228 + 137163284 cta-ctatttgtttaatgtcactaagtatgaggtgctatcctaggcattgtacatgtgttttatcatttaatgtactttaatctaaacggtgcaagagcaacttcaata-------------------cag------gtattagtattacccctatttacagat-aagaaat-ggtgactgagaagaatgaagttaac------ctat----------------------------------------atgtgtgcatacatctcgc-aaaaaatagaactaactttt--aatctaggtctgttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833574 228 + 135337776 cta-ctatttgtttaatgtcactaagtatgaggtgctatcctaggcattgtacatgtgttttatcatttaatgtactttaatctaaacggtgcaagagcaacttcaata-------------------cag------gtattagtattacccctatttacagat-aagaaat-ggtgactgagaagaatgaagttaac------ctat----------------------------------------atgtgtgcatacatctcgc-aaaaaatagaactaactttt--aatctaggtctgttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048679 228 -  32808036 cta-ctatttatttaatgtcactaagtatgaggtactatcctaggcattgtacatgtgttttatcatttaatgtactttaatctaaacagtgcaagagcaacttcaata-------------------cag------gtattagtattacccctatttacagat-aagaaat-ggagactgagaagaatgaagttaac------ctat----------------------------------------atgtgtgcatacatctcac-aaaaaatagaactgactttt--aatctaggtctgttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232701 228 +  34552619 cta-ctatttatttaacgtcactaagtaggaggtactatcctaagcattgtacacgtgttgtatcatttaatttactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gtattagtattacccctatttacagat-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgtgttcacacatctcgc-aaaaaatagaactgactttt--aatctaggtctgttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548550 217 - 133663169 cta-ctatttatttaatgtcactaagtatgaggtactatcctggacattgtacacgtgttgtatcatttaattgactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactaactttt-aaatctaggtgtgttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948015 217 - 137757926 cta-ctatttatttaatgtcactaagtatgaggtactatcctgggcattgtacacgtgttgtatcatttaattgactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactaactttt-aaatctaggtgtgttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1325833 217 -   7948249 cta-ctatttatttaatgtcactaagtatgaggtactatcctgggcattgtacacgtgttgtatcatttaattgactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactaactttt-aaatctaggtgtgttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219193 217 -  10730278 cta-ctatttatttaatgtcactaagtatgaggtactatcctgggcattgtacacgtgttgtatcatttaattgactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactaactttt-aaatctaggtgtgttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717540 217 - 128539186 cta-ctatttatttaatgtcactaagtatgaggtactatcctgggcattgtacacgtgttgtatcatttaatttactttaatctaaatggtgcaagagcaacttcaata-------------------cag------gcattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactgactttt-aaatctaggtgtgttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112359 213 +    435186 cta-ctatttatttattgtcactaagtatgaggtactatactgggcattgtacacatgttgtatcatttaattgactttaatctaaatggtgcaagagcaacttca-----------------------ag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaggttaac------ttat----------------------------------------atgcattcacacatctagc-aaaaaatagaactgactttt-aaatctaggtgtgttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3500992 217 +   9309688 cta-ctatttatttaatgtcactaagtatgaggtactatcctgggcattgtacacgtgttgtatcatttaatttactttaatctaaattatgcaagagcaacttcaata-------------------cag------gtattagtattac------------at-aagaaat-ggagactgagaagaatgaagttaac------ttat----------------------------------------atgcgttcacacatctagc-aaaaaatagaactgactttt-aaatctaggtgtgttt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334364 223 -  29834108 cta-ctatttatttaatgtcactaagtattaggtactatcctaggcattgtacacatgttatatcatttaatttactt-----taaacagtgcaagagtaacttcaata-------------------tag------ttattagtattacccctatttacagat-aaaaaat-ggagactgagaagagcaaagttaac------ttgt----------------------------------------acctgttcacacatctagc--aaaaatagaactgattttt-aaatctaggtctgttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       789788 218 -   1015025 CAa-ctatttatttaatatcactaaatattaggtactatcctaggcattgtacacgtg-----tcttttaatttaatt-----taaatagtgcaagagtaacttcaata-------------------tag------gaattagtattacccctacttacagat-aagaaat-ggagactgagaagaacgaagttaac------ttat----------------------------------------atgtgttcacacatctagc--aaaaatagaactgattttt-aaatctaggtccgttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803715 223 -   2295209 cta-ctatttatttaatgtcactaagtattaggtactatcctaggcattgtacacatgttgtatcatttaatttactt-----taaacagtgcaagagcaacttcaata-------------------tag------gtattagtattaccactatttacaggt-aagaaat-ggagactgagaagaacgaagttaac------ttgt----------------------------------------atatgttcacacatctagc--aaaaatagaactgattttt-aagtctaggtctgttt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2922117 227 +  31815103 cta-ctatttatttaatgctactaagtattaggcactatgctaggcactgtacacagg---tatcatttattttactttaatgttaacattacaagagcaacttcaata-------------------tat------gtattattattaccaccatttacagatgggaaaac-tgagactgacaagaatgaagttaac------ttgt----------------------------------------ctgtgttcaaacacctagc-aaaaaatagaactgattttt-aaatctcgctgtgttt
i micMur3.chr21             I 227 C 0
s proCoq1.NW_012140524v1      5019228 229 +  13104022 cta-ctatttatttaatgctactaagcattaggtactatcctaggcactgtacacatg---tatcatttaatttactttaatcttaacattacgagagcaacttcaatg-------------------tata-----atattattattacctccatttacagatggaaaaac-tgagactgacaaggatgaagttaac------ttgt----------------------------------------ctgtgttcaaacatctagc-aaaaaatggaactgatttttaaaatctaggtctgttt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510178 235 -  12054995 TTATTTatttatttaatgctaataagtattagccactatcctagacactgtacacaca---tatcacttagttgcctttaatcttaacagtaccagactaacttcaata-------------------tatgtacttatgctattattacccctatttacagatggaaaaac-tgaggctgacaagaatgaagttaac------ttgt----------------------------------------ctgggttcgcacatctagtaaaaaaatagaactgactttt-acagctaggtctgttt
i otoGar3.GL873576          I 5 C 0
s mm10.chr6                   2364177 224 - 149736546 -----CAT---TTTAGTGGTATTAGTTATTGGATACTTT---------TATACATGTGTTTTATCATTTAATTTACACT-----------TAGAAGAGCAACCTCAACAAATACACTATTGCTCTCTCTAT------ATACTGTTGCTACCAATATTTACATATGGGGAAGC-TGAGACTAAAAAGAATGAAACTAGCCAATCTTTAC----------------------------------------TTTTCTTCAA-----TAGC-AGAAAATAGAACTAATTTTTAAAAACTAGATCTGCTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662610 225 +  45876710 cta-gtatttgttaaacactaccaaatgtcaggcactcttctaggcattgtacatatgttgtatcatttaattttctt-----taaacattacaagagcaacttcaaaa-------------------tag------gtattattattatacttatttacagat-gggaaatctaaggttaaaaagaatgaagctaac------ttga----------------------------------------ctgtgttcatgcatctggc-agaagatagaattgattttt-aaatctaggcctgttt
i canFam3.chr27             C 0 I 41
s dasNov3.JH562883             873049 265 -   1687904 cta-ctctttattaaatattactaaacattagacactagcctacacactgaatacatgttgcctcaattaaattacta-----tgaacttttccagagcaatttcaatg-------------------tag------gtattattattgcccctatttacagatggagaaac-tgaggctgagaagagtgaagctaac------ttgtcTTTTACTAAATGTCTTCAGACATGGAGTGGTCAGGGAAGATATATTCACATGTAAAGT-AAAAGACAGAACTGATTTTT-AAACTTAGGTCTTTTT
i dasNov3.JH562883          C 0 C 0

a score=3942151.000000
s hg38.chr12_GL383549v1_alt     12271 320 +    120804 gacttaaaag----tctatttacttttcactATGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAACAGTAAACATTGAAGTGGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---AAATTATTGTATAATTTAACAC----TAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTCATTACTTCCTCTACATAAATGCATCCAGATTTACATT--CAGATCCAGCCACTTACTCTGTTATCAGATTAGA---TCAGTCTCTTGCAAAGTACCACCAAAAATGTGAAATA
s panTro5.chr12              62707209 320 + 137163284 gacttaaaag----tctatttacttttcactATGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAACAGTAAACATTGAAGTGGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---AAATTATTGTATAATTTAACAC----TAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTCATTACTTCCTCTACATAAATGCATCCAGATTTACATT--CAGATCCAGCCACTTACTCTGTTATCAGATTAGA---TCAGTCTCTTGCAAAGTACCACCAAAAATGTGAAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60833802 320 + 135337776 gacttaaaag----tctatttacttttcactATGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAACAGTAAACATTGAAGTGGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---AAATTATTGTATAATTTAACAC----TAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTCATTACTTCCTCTACATAAATGCATCCAGATTTACATT--CAGATCCAGCCACTTACTCTGTTATCAGATTAGA---TCAGTCTCTTGCAAAGTACCACCAAAAATGTGAAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3048907 320 -  32808036 gacttaaaag----tctatttacttttcactATGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAACAGTAAACATTGAAGTGGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---AAATTATTGTATAATTTAACAC----TAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTCATTACTTCCTCTACATAAATGCGTCCAGATTTACATT--CAGATCCAGCCACTTACTCTGTTATCAGATTAGA---TCAGTCTCTTGCAAAGTACCACCAGAAATGTGAAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7232929 324 +  34552619 gacttaaaag----tctatttacttttcactATGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---GAATTATTATATAGTTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTCATTACTTCCTCTATATAAATGCATCTGGATTTACATT--CAGATCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTGCAAAGTACCACCAAAAATGTGAAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104548767 324 - 133663169 gacttaaaag----tctatttacttttcactATGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAATTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948232 324 - 137757926 gacttaaaag----tctatttacttttcactATGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAATTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326050 324 -   7948249 gacttaaaag----tctatttacttttcactATGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAATTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219410 323 -  10730278 gacttaaaag----tctatttacttttcactacGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAAGTTATCTAAG-CAG---GAATTGCTATATAATTTAACACTAATTAACTCACTTTTTAAAATCTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTTTAATTACTTCCTCTATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100717757 367 - 128539186 gacttaaaag----tctatttacccttcactATGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTATTAatagtatagtataacagtatactatactatacagtatagtataatagtataACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAATTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGGGAAATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112572 324 +    435186 gacttaaaag----tctatttacttttcactacGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTGGTATAAACT-ACAATGGAATTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATTAACTCACTTTTTAAAATTTTATATTTGCACTAATGAACTCCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501209 324 +   9309688 gacttaaaag----tctatttacttttcactATGAAGTTTGCTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------TAATAGTATAACAGTAAACATTAAAGTAGTATAAACT-ACAATGGAAGTTATCTAAGCCAG---GAATTATTGTATAATTTAACACTAATTAACTCACTTTTAAAAATTTTATATTTGCACTAATGAACTTCTTGCTCATATA-----------GTTCTAATTACTTCCTCCATATAAATGCATCCAGATTTACATT--CAGTTCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTACAAAGTACCACCAATAATGTGAAATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334587 242 -  29834108 gacttaaaag----T---------------------------------------------------------------------------------------------------------------------------AAACATTAAAGTGGTATAAACT-ATAATGGAAGTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATCAACTCACTTTTAAAAATTTTATATTTGCACTAATAAACTAATTGCTCATATG-----------GTTCTAATGACTCCCTT------AATGCATCCAGATTTACATT--CAGATCCAACCACTTACTCTGTTATCGGATTAGA---TCAGTTGCTTGCAAAGTACCA-CAAAAATGTGAAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790006 324 -   1015025 gacttaaaag----tctatttacttttcactgTGAAGTTTGTTCTAAATGAGAATA----ATATACTTTATCA-CCCTAT-------------------------------------------AAATATTATAAAAGCAAACATTAAAGTGGTATAAACT-ACAATGGAAGTTACCTAAGCCAG---GGATTATTATATAATTTAACACTAATCAACTCACTTTTTAAAATTTTATGTTTGCACTAATAAACTCATTGCTCATATA-----------GTTCTAATGACTCCCTCTATATAAATGCATCCAGATTTACATT--CAGATCCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTGCAAAGTACCACCAAAAATGTGAAATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1803938 324 -   2295209 gacttaaaag----tctgtttacttttcactgTGAAGTTTGTTCTAAATGAGAATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATATTATAAAAGTAAACATTAAAGTGGTATAAACC-ACAATGGAAGTTATCTAAGCCAG---GAATTATTATATAATTTAACACTAATCAACTCACTTTTTAAAATTTTATATTTGCACTAATAAACTCATTGTTCATATA-----------GTTCTAATGACTCCCTCTATATAAATGCATCCAGATTTACATT--CAGATTCAACCACTTACTCTGTTATCAGATTAGA---TCAGTTGCTTGCAAAGTACCATCAAAAATGTAAAATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2922344 321 +  31815103 gacttaaaaa----tctagtcgccattcactgTGAAATTTTTTCTAAATGAGTATA----ATGTACTTTATCA-CCCTGT-------------------------------------------ACATATTACAAGGGTAAACATTAGAGTGGTATAAACTAACAATGGAAGTTATCTAAGCCAG---GGATTATTATACAATTTGACACTAGTCAA---ACTTTTTAAA-TTTTATATTTCCACTAATGAACTCATTGCTCATGTA-----------GTTTCAATTACTTCCTATATTTAAGTGATTCCAAATTTACATT--CAGACCTAACCATTTTCTCTGTTATCAGATTAGA---TCAGTTGCTTGCAAGGCACCACCAAAAATTTGAAATA
i micMur3.chr21             C 0 I 780
s proCoq1.NW_012140524v1      5019457 323 +  13104022 gactt-aaaa----tctagtcactattcactgTGAAATTTTTTCTAAATGAGTATA----ATGTACTTTATCACCCCTAT-------------------------------------------AAATATTACAACGGTAAACATTAGAGTGGTATAAACTAACAATGGAAGTTATCTAAGCCAG---GAATTATTATACAATTTAACACTAGCCAACT-ACTTTTCAAA-TTTTGTATTTGTACTAATGAACTCATTGCTCATATA-----------GTTTTAATTACTTCCTATATTTAAGTGATTCCAGATTTACATT--CAGACCTAACCACTTGCTCTGTTATCAGATTAGA---TCAGTTGCTTGCAAGGCTCCAACAAAAATTTGAAATA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510413 308 -  12054995 gactt-aaaa----tctggtcactattcac------ATTCATTCTAAATGTGTATA----ATGTACTTTATCA-CCCTAT-------------------------------------------AAATAATACAATGGCAAACATTAAAGCAATATAAACTAACAATGGAAGTTATCTAAGCTAC---AAATTATTATACAATTTAACACTAGCT-----GTGTTTTAAA---TTATATTTGCGTTAATGAACTCATGGCTCACATA-----------GTTT--GTTACTTCTTATACTTAAGTGATTCCAGATTCATAGT--CAGACCTAACTGCTTACTCTGTTATCAGATTGGA---TCAGTTGCTTGCAAGGTACCACCGAAAATTTGAAATG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364401 319 - 149736546 GG---AAAAGAATCTCTGCTCACTGTTTGCTGCACATTTTATTCTAAGGGAGAATATTTTATGTGCTTCATGA-CTCTAT-------------------------------------------AAATATCACCGTGGTGAGTGCTTCAATGGTGGAAACTGACAATGGAGGTTATCTAAGCCAGTGTGAATG--TGCACAATTTAACACCAGCCTGCACGTTC-------TGTTATACTT--ACTAATGAGCTCGTGGCTCATGCA-----------GCTTCACTTGCCTCCTGCATACGAATGTTTCCAGATTTGTATC--CAGATTGAACCACTTACTCTGTTATCAGATTAGA---GAAGTGGTTTGTCAGA---CACCAGAAATCTGGAATA
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             873314 312 -   1687904 AACTCAAAGG----T-AATTCGCCATTCACTGTGAAATTTGTCTCAATTGAGTATA----ACATGCCTCACCT-CCTTAC-------------------------------------------AAATATTATGATGGCAAGTATTAAAATGGTGGAAACTAACAGTGGAGGTTATCTAGGCCAG---AAATT---------TTCATCTCTATTTA---------------TTGTATATTCGTACCACTGAGGTGC---ACTATATAACATAATGCATGTTTCAATGATCTCCTGTACATAAATGCTTCCAGAGCTACATTCGCAGACGTAATCTCTTACACTG-TACCAGGTTAGACTTTCAGTTGCTTAGCAGGCGTCCCATGGAATCTGAGGGG
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19662835  41 +  45876710 I

a score=282323.000000
s hg38.chr12_GL383549v1_alt     12591 22 +    120804 TAATGTGTTGAAAGTTGCAAAT
s panTro5.chr12              62707529 22 + 137163284 TAATGTGTTGAAAGTTGCAAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834122 22 + 135337776 TAATGTGTTGAAAGTTGCAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049227 22 -  32808036 TAATGTGTTGAAAGTTGCAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233253 22 +  34552619 TAATGTGTTGAAAGTTGCAAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549091 22 - 133663169 TAATGTGTTGAAAGTTGCAAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948556 22 - 137757926 TAATGTGTTGAAAGTTGCAAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326374 22 -   7948249 TAATGTGTTGAAAGTTGCAAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219733 22 -  10730278 TAATGTGTTGAAAGTTGCAAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718124 22 - 128539186 TAATGTGTTGAAAGTTGCAAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112896 22 +    435186 TAATGTGTTGAAAGTTGCAAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501533 22 +   9309688 TAATGTGTTGAAAGTTGCAAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334829 22 -  29834108 TAATGTATTGAAAGTTGCAAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790330 22 -   1015025 TAATGTGTTGAAAGTTGCAAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804262 22 -   2295209 TAATGTGTTGAAAGTTGCAAAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019780 22 +  13104022 TGACATGTTTAAAATTGAAAAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510721 22 -  12054995 TAGTATGTTGGAAATTGAAAAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364720 22 - 149736546 TAATGTGTTGAAAGTAGAAAAT
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             873626 20 -   1687904 TAGTATGTTGGAAACGGAAT--
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e canFam3.chr27              19662835 41 +  45876710 I

a score=358256.000000
s hg38.chr12_GL383549v1_alt     12613 37 +    120804 ATTTTTCCCATTGGGAAAGTCACACCTACtac--tgtat
s panTro5.chr12              62707551 29 + 137163284 ATTTTTCCCATTGGGAAAGTCACACCTAC----------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834144 29 + 135337776 ATTTTTCCCATTGGGAAAGTCACACCTAC----------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049249 37 -  32808036 ATTTTTCCCGTTGGGAAAGTCACACCTACTAC--TGtat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233275 37 +  34552619 ATTTTTCCCGTTGGGAAAGTCACACCTACTAC--TGTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549113 37 - 133663169 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948578 37 - 137757926 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326396 37 -   7948249 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219755 37 -  10730278 ATTTTTCCCATTGGGAAAGTCACACTTACTTC--TGAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718146 37 - 128539186 CTTTTTCCCATTGGGAAAGTCACACCTACTGC--TGAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112918 37 +    435186 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501555 37 +   9309688 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334851 37 -  29834108 ATTTTTCCCATTGGGAAAGTTACACCTACTGC--TATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790352 37 -   1015025 ATTTTTCCCATTGGGAAAGTCACACCTACTGC--TGTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804284 37 -   2295209 ATTTTTCCCATTGGGAAAGTCACACCTACTAC--TGTAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019802 39 +  13104022 ATTTTGCCTGTTGGGAAAGTGATACCTGCTGCTATGCAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510743 39 -  12054995 ATTTTGTCTATTGGGAAAGTGATACCTACTGCCATGCAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364742 23 - 149736546 ATCTTACC-ACAGAGAAGTTAGCA---------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662876 39 +  45876710 CTTTCACCCATTGTACAAATGACCCCTACTGCTATTCAT
i canFam3.chr27             I 41 C 0
s dasNov3.JH562883             873646 37 -   1687904 GTTTTACCCACCGTGCGCGTGGCTCGTCCTGC--TCTGT
i dasNov3.JH562883          C 0 I 410
e micMur3.chr21               2922665 780 +  31815103 I

a score=1449.000000
s hg38.chr12_GL383549v1_alt     12650 12 +    120804 atactgtatata
s gorGor5.CYUI01000003v1      3049286 12 -  32808036 atactgtatata
i gorGor5.CYUI01000003v1    C 0 I 228
s nomLeu3.chr23               7233312  7 +  34552619 ATACTGT-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549150  3 - 133663169 ATG---------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948615  3 - 137757926 ATG---------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326433  3 -   7948249 ATG---------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219792  3 -  10730278 ATA---------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718183  3 - 128539186 ATG---------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112955  3 +    435186 ATA---------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501592  3 +   9309688 ATA---------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334888  3 -  29834108 ACA---------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790389  3 -   1015025 ATA---------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804321  3 -   2295209 ATA---------
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019841  3 +  13104022 ATA---------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510782  3 -  12054995 ATA---------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19662915  3 +  45876710 ATA---------
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2364765  0 - 149736546 C
e micMur3.chr21               2922665 780 +  31815103 I
e dasNov3.JH562883             873683 410 -   1687904 I
e panPan2.chr12              60834173  0 + 135337776 C
e panTro5.chr12              62707580  0 + 137163284 C

a score=51899.000000
s hg38.chr12_GL383549v1_alt     12662 7 +    120804 ctgtcat
s nomLeu3.chr23               7233319 3 +  34552619 ----CAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549153 7 - 133663169 CTGTCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948618 7 - 137757926 CTGTCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326436 7 -   7948249 CTGTCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219795 7 -  10730278 CTGTCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718186 7 - 128539186 CTGTCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       112958 7 +    435186 CTGTCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501595 7 +   9309688 CTGTCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334891 7 -  29834108 CTGTCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790392 7 -   1015025 CTGTCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804324 7 -   2295209 TTGTCAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019844 7 +  13104022 CTGCCAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510785 7 -  12054995 CTGGCAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364765 6 - 149736546 CTGTCA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662918 7 +  45876710 TTGCCTT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e dasNov3.JH562883             873683 410 -   1687904 I
e gorGor5.CYUI01000003v1      3049298 228 -  32808036 I
e panPan2.chr12              60834173 0 + 135337776 C
e panTro5.chr12              62707580 0 + 137163284 C

a score=131855.000000
s hg38.chr12_GL383549v1_alt     12669 11 +    120804 tactgtatata
s panTro5.chr12              62707580 11 + 137163284 tactgtatata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834173 11 + 135337776 tactgtatata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049526 11 -  32808036 tactgtatata
i gorGor5.CYUI01000003v1    I 228 C 0
s nomLeu3.chr23               7233322 11 +  34552619 TACTGTATGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549160 11 - 133663169 TACTGTATGTA
i rheMac8.chr11             C 0 I 17
s macFas5.chr11             108948625 11 - 137757926 TACTGTATGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326443 11 -   7948249 TACTGTATGTA
i macNem1.NW_012011422v1    C 0 I 17
s cerAty1.NW_011999477v1      8219802 11 -  10730278 TACTGTATGTA
i cerAty1.NW_011999477v1    C 0 I 17
s chlSab2.chr11             100718193 11 - 128539186 TACTGTACGTA
i chlSab2.chr11             C 0 I 17
s manLeu1.NW_012101287v1       112965 11 +    435186 TACTGTATGTA
i manLeu1.NW_012101287v1    C 0 I 17
s colAng1.NW_012114364v1      3501602 11 +   9309688 TACTGTATGTA
i colAng1.NW_012114364v1    C 0 I 17
s saiBol1.JH378123           11334898 11 -  29834108 TACTATAAGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790399 11 -   1015025 TACTGTATGTA
i cebCap1.NW_016107911v1    C 0 I 11
s aotNan1.NW_018488218v1      1804331 11 -   2295209 TACTATATGTA
i aotNan1.NW_018488218v1    C 0 I 11
s proCoq1.NW_012140524v1      5019851 11 +  13104022 TACTGCATGCA
i proCoq1.NW_012140524v1    C 0 I 59
s otoGar3.GL873576            4510792 11 -  12054995 TACTGTATGTG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364771  7 - 149736546 ----GTTTATA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662925 11 +  45876710 TACTGCATATG
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e dasNov3.JH562883             873683 410 -   1687904 I

a score=-16350.000000
s hg38.chr12_GL383549v1_alt     12680 23 +    120804 ctgtat--atactgtcattactgta
s panTro5.chr12              62707591 23 + 137163284 ctgtat--atactgtcattactgta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834184 23 + 135337776 ctgtat--atactgtcattactgta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049537 25 -  32808036 ctgtatacataCAGTCATTACTGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233333 11 +  34552619 --------AAAGAGTCTTT------
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108948636  9 - 137757926 ----------AAAGTCTTT------
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11334909 13 -  29834108 --------AAAGAGTCTTTTC----
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4510803 11 -  12054995 --------GAAGAGTCTtt------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364778  6 - 149736546 ------TGGAAG-------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662936  6 +  45876710 ---------AAGGAT----------
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e proCoq1.NW_012140524v1      5019862 59 +  13104022 I
e aotNan1.NW_018488218v1      1804342 11 -   2295209 I
e dasNov3.JH562883             873683 410 -   1687904 I
e cebCap1.NW_016107911v1       790410 11 -   1015025 I
e colAng1.NW_012114364v1      3501613 17 +   9309688 I
e manLeu1.NW_012101287v1       112976 17 +    435186 I
e chlSab2.chr11             100718204 17 - 128539186 I
e cerAty1.NW_011999477v1      8219813 17 -  10730278 I
e macNem1.NW_012011422v1      1326454 17 -   7948249 I
e rheMac8.chr11             104549171 17 - 133663169 I

a score=-16044.000000
s hg38.chr12_GL383549v1_alt     12703 15 +    120804 ---tGCACTCTATTTTAA
s panTro5.chr12              62707614 15 + 137163284 ---tGCACTCTATTTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834207 15 + 135337776 ---tGCACTCTATTTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049562 15 -  32808036 ---TGTACTCTATTTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233344  8 +  34552619 ----------TTCTTTCT
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108948645  8 - 137757926 -----TCCTCTGT-----
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11334922  6 -  29834108 -------CTCTCT-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790421  8 -   1015025 -----TCCTCTCT-----
i cebCap1.NW_016107911v1    I 11 C 0
s aotNan1.NW_018488218v1      1804353  8 -   2295209 -----TCCTCTCT-----
i aotNan1.NW_018488218v1    I 11 C 0
s otoGar3.GL873576            4510814 13 -  12054995 ---ttctctctatttt--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2364784 12 - 149736546 ------ACTTTATTTTGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662942 13 +  45876710 TATTTTCTTCTCT-----
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e proCoq1.NW_012140524v1      5019862 59 +  13104022 I
e dasNov3.JH562883             873683 410 -   1687904 I
e colAng1.NW_012114364v1      3501613 17 +   9309688 I
e manLeu1.NW_012101287v1       112976 17 +    435186 I
e chlSab2.chr11             100718204 17 - 128539186 I
e cerAty1.NW_011999477v1      8219813 17 -  10730278 I
e macNem1.NW_012011422v1      1326454 17 -   7948249 I
e rheMac8.chr11             104549171 17 - 133663169 I

a score=381532.000000
s hg38.chr12_GL383549v1_alt     12718 41 +    120804 ATTTTAAATTTTCTTCCTGCTGAAA-AAAGAAG--GAAAAAAAC
s panTro5.chr12              62707629 41 + 137163284 ATTTCAAATTTTCTTCCTGCTGAAA-AAAGAAG--AAAAAAAAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834222 41 + 135337776 ATTTCAAATTTTCTTCCTGCTGAAA-AAAGAAG--AAAAAAAAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049577 42 -  32808036 ATTTTAAATTTTCTTCCTGCTGAAA-AAAGAAG-AAAAAAAAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233352 43 +  34552619 ATTTTAAATTTTCTTCCTGCTGAAAGAAAGAAG-AAAAAAAAAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549188 44 - 133663169 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i rheMac8.chr11             I 17 C 0
s macFas5.chr11             108948653 44 - 137757926 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326471 44 -   7948249 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i macNem1.NW_012011422v1    I 17 C 0
s cerAty1.NW_011999477v1      8219830 44 -  10730278 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i cerAty1.NW_011999477v1    I 17 C 0
s chlSab2.chr11             100718221 44 - 128539186 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i chlSab2.chr11             I 17 C 0
s manLeu1.NW_012101287v1       112993 44 +    435186 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i manLeu1.NW_012101287v1    I 17 C 0
s colAng1.NW_012114364v1      3501630 44 +   9309688 ATTTTAAATTTTCTTCCTGTTGAAAGAAAGAAGAAAAGAAAAAC
i colAng1.NW_012114364v1    I 17 C 0
s saiBol1.JH378123           11334928 44 -  29834108 ATTTTAAATTTTCTTCCTGCTGAAAGAAAGAAGAAAATAACAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790429 44 -   1015025 ATTTTAAATTTTCTTCCTGCTGAAAGAAAGAAGAAAAAAATAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804361 44 -   2295209 ATTTTAAATTTTCTTCCTGCTAAAAGAAAGAAGAAAAAAATAAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4510827 35 -  12054995 ------ctctctatttCTGCTGAAAGAAAGAAGAAGAAAGC---
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2364796 30 - 149736546 -------ATGTTATATCTAATCAAAGAAAGAAGAAAG-------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662955 44 +  45876710 GTTTTTAATTTCCTTCCTGCTATAAGAGAGGAAGAAGCAAAAAG
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e proCoq1.NW_012140524v1      5019862 59 +  13104022 I
e dasNov3.JH562883             873683 410 -   1687904 I

a score=798423.000000
s hg38.chr12_GL383549v1_alt     12759 66 +    120804 ACAAATAAGGCAATGATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTTAGCTAAGAAGGTC
s panTro5.chr12              62707670 66 + 137163284 ACAAATAAGGCAATGATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTTAGCTAAGAAGGTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834263 66 + 135337776 ACAAATAAGGCAATGATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTTAGCTAAGAAGGTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049619 65 -  32808036 ACAAATAAGGCAA-GATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTTAGCTAAGAAGGTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233395 66 +  34552619 ATAAATAAGGCAATGGTTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTTAGCTATGAAGGTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549232 66 - 133663169 ACAAATAAGGCAATGATTAGAATACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948697 66 - 137757926 ACAAATAAGGCAATGATTAGAATACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326515 66 -   7948249 ACAAATAAGGCAATGATTAGAATACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219874 66 -  10730278 ACAAATAAGGCAATGATTAGAATACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718265 66 - 128539186 ACAAATAAGGCAATGATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       113037 66 +    435186 ACAAATAAGGCAATGACTAGAATACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501674 66 +   9309688 ACAAATAAGGCAATGATTAGAGTACT------------------GGAGTGATTAATGAAGCTGATAACCTGAGCTATGAAGGTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11334972 66 -  29834108 ACAAATAAGGCAATGATTAAAGTGCT------------------GGAGTGATTAATGAAGTTGATAACCTGAGCTATGAAGGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790473 66 -   1015025 ACAAATAAGGCAATGATGATAGTGCT------------------GGAGTGATTAGTGAAGTTGATAACCTGAGCTGTGAAGGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804405 66 -   2295209 ACAAATAAGGCAATGATTAGAGTGCT------------------GGAGTGATTAATGAAGTTGATAACCTGAGCTATGAAGGTT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5019921 66 +  13104022 gcaaataaGGCAATGATTAGAGTCCT------------------GGGGTTATCAATGATGTTGGTAACCGGAGCTATGAAGGTC
i proCoq1.NW_012140524v1    I 59 C 0
s otoGar3.GL873576            4510864 83 -  12054995 GCAAATTAGGCAATGA-TAGAGTGCTAATCAAGGGTAGCACTAAAGGGTAATCAATGATGTTGATAACCTGAGCTATGAAGGTC
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2364826 57 - 149736546 GTACATTTTGCAGTGATTTGAGTCCT------------------GGGGAAATCTGTG---------ATCTGGGTCATGAAGGTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19662999 66 +  45876710 GCAAATAATGCAATGATTATAGTACT------------------GGGATACTCCATGAAACAGATAACCTGAGCTATGCAGGTC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2922665 780 +  31815103 I
e dasNov3.JH562883             873683 410 -   1687904 I

a score=1956200.000000
s hg38.chr12_GL383549v1_alt     12825 167 +    120804 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATGAAGTGGAAGATTCCCTGGGGTGCAGACCTTTGAGATATCT-----TGATTATATTCAGTCAATCCTGGA---GCAGCAGTGATAAG--AAAAAAAACAGGATTCTGG-TGATGATGGCAGCCTTTAAGACCACGGAGATGA
s panTro5.chr12              62707736 167 + 137163284 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATGAAGTGGAAGATTCCCTGGGGTGCAGACCTTTGAGATATCT-----TGATTATATTCAGTCAATCCTGGA---GCAGCAGTGGTAAG--AAAAAAAACAGGATTCTGG-TGATGATGGCAGCCTTTAAGACCACGGAGATGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834329 167 + 135337776 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATGAAGTGGAAGATTCCCTGGGGTGCAGACCTTTGAGATATCT-----TGATTATATTCAGTCAATCCTGGA---GCAGCAGTGGTAAG--AAAAAAAACAGGATTCTGG-TGATGATGGCAGCCTTTAAGACCACGGAGATGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049684 168 -  32808036 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAAGATTTCCTGGGGTGCAGACCTTTGAGATATCT-----TGATTATATTCAGTCAATCCTGGA---GCAGCAGTGATAAG-AAAAAAAAACAGGATTCTGG-TGATGATGGCAGCCTTTAAGACCACGGAGATGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233461 165 +  34552619 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAAGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTCAATCCTGGA---GCAGCAGTGATAAG----AAAAAACAGGATCCTGG-TGATGGTGGCAGCCTTTAAGACCACGGAGATGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549298 166 - 133663169 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---GAGGCAGTGATAAG---AAAAAAACAGGATCCTGG-TGATGGTCGCAGCCTTTAAGACCACAGAGATGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948763 166 - 137757926 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---GAGGCAGTGATAAG---AAAAAAACAGGATCCTGG-TGATGGTCGCAGCCTTTAAGACCACAGAGATGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326581 166 -   7948249 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---GAGGCAGTGATAAG---AAAAAAACAGGATCCTGG-TGATGGTCGCAGCCTTTAAGACCACAGAGATGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8219940 166 -  10730278 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---CAGGCAGCGATAAG---AAAAAAACAGGATCCTGG-TGATGGTCACAGCCTTTAAGACCACGGAGATGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718331 166 - 128539186 AAAAA-ATGAATTGGACACAGGAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGAAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---GAGGCAGCGATAAG---AAAAAAACAGGATCCTCG-TGATGGTCGCAGCCTTTAAGACCACAGAGATGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       113103 165 +    435186 AAAAA-ATGAATTGGACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTGTTTCCTGGA---GAGGCAGCGATAAG---AAAAAAACAGGAT-CTGG-TGATGGTCGCAGCCTTTAAGACCACAGAGATGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501740 166 +   9309688 AAAAA-ATGAATTGCACACAGAAGCTAAAAAGATGATTAAGTGGAGGATTCCCTGGGGTGCAGACCTTTGAGATGTCT-----TGATTATATTCAGTCATTCCTGGA---GAGGCAGTGATAAG---AAAAAAACAGGATCCTGG-TGATGGTCTCAGCCTTTAAGACTACAGAGATGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335038 170 -  29834108 AAAAAAATGAATTGGATGCAGAAGCTAAAAAGATGATTAAGTGGAAGATTCCCTGGGGTGCAGATCTTTGAGATGTGT-----TGATTGCATTCAGTCAATCCTGGA---GGGGTAGTGATAAGAAAAAAAAAACAGAATCCTAG-TAATGGTGGCATCCTTTAAGACCACGTGGATGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790539 167 -   1015025 AAAAAAATGAATTGGATGCAGAAGCTAAAAAGATGATTAAGTGGAAGATTCCCTGGGGTGCAGATCTTTGAGATGTGT-----TGATTGCGTTCAGTCAATCCTGGA---GGGATAGTGATAAG---AAAAAAACAGAATCCTAG-TGATGGTGGCATCCTTTAAGACCACATGGATGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804471 167 -   2295209 AAAAAGATGAATTGGATGCAGAAGCTAAAAAGATGATTAAGTGGAAGATTCCCTGGGGTGCAGATCTTTGAGATGTGT-----TGA-TGTATTCAGTCAATCCTGGA---GGGGTAGTGATAAG--AAAAAAAACAGAATCCTAG-TGATGGTGGCATCCTTTAAGACCACATGAATGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2923445 169 +  31815103 AAAAA-ATGAACTGGGCACAGGAGCTACAAAAATGATTAAGTGGAGGATTCTCGGGGGTGCAGACCTTTGAGATGTGTAGAGTTGGTTGTCTTCAGTTAATCCTGGA---GGAGAAATGATGTG---AAATAGACAGGATCTGGGAAGA---TGGCAGCCTTTAAGACCACTTGGATGG
i micMur3.chr21             I 780 C 0
s proCoq1.NW_012140524v1      5019987 172 +  13104022 AAAAA-ATGAACTGGACACAGGAGCTAAAAAGATGATTAAGTGGGGGATTCCCTGGGGTGCAGACCTTTGAGATGTGTAGAGTTGATTGTCTTCAGTTAATCCTGGA---GGGGAAGTGATGTG---AACTAGACAGGATCTGGGAAGATGGTGGCAGCCTTTAAGACCACTTGGATGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4510947 165 -  12054995 AAAAA-ATGAACTGGACACAGGAGCTAAAAAGATGATTAAGTGGAGGATTCCCGGGCATGCAGACTCT----ATGTGTAGAAATGGTTGTCTTCAGTTCATC---AA---AGAGCAGTGATGGA---CAATAGATAGGATCTGGGAAGATGGTGGCAGTCTTTCAGACTACTTGGATGA
i otoGar3.GL873576          C 0 I 251
s mm10.chr6                   2364883 121 - 149736546 -AGAA-ATGAACTGGGCACAGGAG------------------------GTTCCCAGGGTGCAGGCCCTGGAA-----T-----TGATGGTCTTCAGCTAATCCTGCA---GGGGTGGTGATGTG------------------GGA-GAACGGTAGCAGTTTGTAAGAGCACTTGCAAGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19663065 174 +  45876710 AAAAA-ACAAACTGGAAACAAATAATAAAAAGATAAGTAAGTGGAAAATTCACTAGGGTGCAAACCTTTGAGCTATGTAGAGTTGATGATCTTTGGTGAGTTGGGGATAGAGGGCAGTGATGTG----AAATAGCAGGATCCCAAAAAATGGTGTCAGCCTTTAAGACTACTTGGATGG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             873683 410 -   1687904 I

a score=1505665.000000
s hg38.chr12_GL383549v1_alt     12992 114 +    120804 TAGAGAAACCAGTCCCAGGGGCTAAATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGTTGAACAGACCACAGACATCTTTAATAGTACAGAGAAACAGTCAAT
s panTro5.chr12              62707903 114 + 137163284 TAGAGAAAGCAGTCCCAGAGGCTAAATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGTTGAACAGACCACAGACATCTTTAATAGTACAGAGAAACAGTCAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834496 114 + 135337776 TAGAGAAAGCAGTCCCAGAGGCTAAATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGTTGAACAGACCACAGACATCTTTAATAGTACAGAGAAATAGTCAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049852 114 -  32808036 TAGAGAAACCAGTCCCAGAGGCTAAATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGTTGAACAGACCACAGACATCTTTAATAGTACAGAGAAACAGTCAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233626 114 +  34552619 CAGAGAAACCAGTCCTAGAAGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGTTGAACAGACCACAGACATCTTTAATAGTACAGAGAAACAGTCAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549464 114 - 133663169 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTAGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108948929 114 - 137757926 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTAGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326747 114 -   7948249 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAGGAAGAGAACCAGCCTGGACATAAAGTTAGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220106 114 -  10730278 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718497 114 - 128539186 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACTAGCCTGGACATAAAGTTAGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       113268 114 +    435186 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACGTAAAGTTAGTGAACAGACCACAGACAACTTTAATAGTACAGAGAAACAGTCAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3501906 114 +   9309688 TAGAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCAAGAAGAGAACCAGCCTGGACATAAAGTTGGTGAACAGACCACAGACAACTTTAACAGTACAGAGAAACAGTCAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335208 114 -  29834108 TAAAGAAACCAGTCCCAGAGGCTAGATTGGCTTGACTCCAGAAAAGAACTAGCCTGGACATAAAGTTGATGAACAGACCACAGACAACCTTAATAGTACAGAGAAACTGTCAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790706 113 -   1015025 TAGAGAAACCAGTCCCAGAGGCTAGATGGGCTTGACTCCAGAAAAGAACCAGCCTGGACAT-AAGTTGGTTAACAGACCACAGACAACCTTAATAGTACAGAGAAACTGTCAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804638 114 -   2295209 TAGAGAAACCACTCCCAGAGGCTAGATTGGCTTGACTCCAGAAAAGAACCAGCCTGGACATAAAGTTGGTAAACAGACCACAGACAACCTTAATAGTACAGAGAAACGGTGAAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2923614 114 +  31815103 TAGAGAGACCAATCCCAGAGGCCAACCCGGCTTGGCTCAGGAATAGAACCAGCCTGGACATAGAGTTGGTGAACAGATGACAGACAACATTAATAGTACAAAGAAACAGTCAGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5020159 114 +  13104022 TACAGAGACCAGTCCCAGAGGTTAAATCGGCTTGACTGAAGAATAGAACCAGCCTGGACATAAAGTAGGTGAATAGATCACAGACAACCTTAATAGTACAAAGAAACGGTCAGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511363  93 -  12054995 TAGAGAGACCAGTCACAGAAGCTAAATTGGCTTG-------------ACCATCCTGGACATAAAATTGCTGAAAAGATAGCAGGCAACCTTAATAATAGAAA--------CAGC
i otoGar3.GL873576          I 251 C 0
s mm10.chr6                   2365004 110 - 149736546 GAGAGAAACAGACCCTGGCAGCTGCATAGTCTTCACTCAAGAACAGAACTATCCCGGATG-ACAATGTGCAACCTGACCACAGGCAACCCGAGTGGCACAGAACCTCAG---GT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19663239 113 +  45876710 CAGAGAGACCA-TCTGAGAGGCTAGATTGGCTTGACCTAAGAATGGAACCAGCCTGGCTATAAAGTTTGTGAATAGGCCTCACACAGTGCGAATAGTACAGGGAGACAGACAAT
i canFam3.chr27             C 0 I 468
e dasNov3.JH562883             873683 410 -   1687904 I

a score=1530594.000000
s hg38.chr12_GL383549v1_alt     13106 162 +    120804 GACAAGAAGAATTA---TTTGCAGGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGTGCCAAGTAAAGATCCCTGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGCCCAGGAGAGAAA---TATTTG-------------------AAAAAAAAAATCC
s panTro5.chr12              62708017 162 + 137163284 GACAAGAAGAATTA---TTTGCAGGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCCAAGTAAAGATCCCTGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGCCCAGGAGAGAAA---TATTTG-------------------AAAAAAAAAATCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834610 162 + 135337776 GACAAGAAGAATTA---TTTGCAGGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCCAAGTAAAGATCCCTGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGCCCAGGAGAGAAA---TATTTG-------------------AAAAAAAAAATCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3049966 166 -  32808036 GACAAGAAGAATTA---TTTGCAGGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCAAAGTAAAGATCCCTGGGATAGGCT--GAGTGGACTAAGTCCAAGCTGAGCAGAGAATTGTTTCCCTCCTAAGCCCAGGAGAGAAA---TATTTG-------AAAA--------AAAAAAAAAATCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233740 165 +  34552619 GACAAGAAGAATCA---TTTGCAGGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCACAAAGTAAAGATCCC-GGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAACTGTTTCCCTCCTAAGCCCAGGAAAGAAA---TATTTG-------AAAA--------AAAAAAAAAATCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549578 174 - 133663169 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGAGGGAGCGCAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGTCCAGGAGAGAAA---TATTTG-------AAAAAAAAAATTTTAAAAAAAATCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949043 174 - 137757926 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGAGGGAGCGCAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGTCCAGGGGAGAAA---TATTTG-------aaaaaaaaaattaaaaaaaaaaTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1326861 166 -   7948249 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGAGGGAGCGCAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGTCCAGGAGAGAAA---TATTTG-------AAAA--------AAAAAAAAAATCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220220 166 -  10730278 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTATTTCCCTCCTAAGTCCAGGGGAGAAA---TATTTG-------AAAA--------AAACAAAAAATCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718611 166 - 128539186 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCACAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCCGAGCAGAGAATTGTTTCCCTCCTAAGTCCAGGAGAGAAA---TATTTG-------AAAA--------AAAAAAAAAATCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       113382 166 +    435186 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCAAAGTAAAGATCCCCGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTCCCT-------TCCAGGAGAGAAA---TATTTGaaaaaaaaaaa--------aaaaaaaaaaTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502020 168 +   9309688 GACAAGAAGAATCA---TTTGCACGAGGTGGAAGAGGTGAAAGGGACTTGCAGGGGGAGCGCAAAGTAAAGATCCCTGGGATAGGCT--GAGTGGACTAAGTCCACGCTGAGCAGAGAATTGTTTCCCTCCTAAGTCCAGGAGAGAAA---TATTTG-------AAAAAA------AAAAAAAAAATCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335322 139 -  29834108 GACATAAAGAATCA---TTTGCAGGAGGTGGAAGAGGTGAAAGGTGCTTGTAG-AGGAGTGCAAAGCAAAGATCCCCGGGGTTG----------------------GCTGAGCAAAGAATCGTTTCCCTCCTAAAcctaggagagaaa---taattg-------------------gaaaaa--aatct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790819 159 -   1015025 GACCAAAAGAATCA---TTTGCAGGAGGTGGAAGAGGTGAAAGGAGCTTGTAG-GGGAGTGCAAAGTAAAGATCCCCGGGGTTGGCT--GAGTGGACTAAGTCCACGCTGAGCAAAGAATTGTTTCCCTCCTAAACATGGGAGAGAAA---TAATTG-------------------AAAAAA--AATCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804752 154 -   2295209 GACAAAAAGAATCA---TTTGCAGGAGGTGGAAGAGGTGAAAGGAACTTGTAG-GGGGGTGCAAAGTAAAGATCCCCGGGGTTGGCT--GAGTGGACTAAGTCCACGCTGAGCAAAGAATTGTTTCCCTCCTAAACCTAGGAGAGAAA---TAATTG-------------------GAAAAA-------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2923728 129 +  31815103 GACAAGATGAATCC---TTTGCAGGAGATGGGAGAAGTGAAAGGTGTTGGCAGGGAGAGAGAAAAGTAAAAATTCCCGGGATACGATAAGAGTGGACTA---------------------------------AAGTCCAGGAGAGAAA---TCTTTG-------------------GAGAAA--GATCC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5020273 129 +  13104022 GACAGGATGAATCC---TTTGCAGGAGGTGGGAGAGGTGAAAGGTGTTGACAAGGAGAGAGAAAAGGAAAAATTCACAGGACAGGATATGAGTGAACTA---------------------------------AAGCCCAGGAGAGAAA---TCTATG-------------------GGGAAA--GATCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511456 126 -  12054995 AATATGAAAAATCC---TTTGCAGGAGGTGGGAGAGGTGAAAGTGGTTGGCAGAGAAAGAGAAAAGTAAAAATTCTTATCCTA--ATAAGAGTGAACTA---------------------------------TATCCTAGGGGAGAAA---TCTCAA-------------------GAG-AC--TATCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365114 128 - 149736546 GGGAAGCAGAATGC---TC--CAGGAGG-AGAGAAGGCAAAAGGTATCCACAT-GGAAGAGCTAAGCATTGTTCTTTGAGAGGGCAT--AAG------------------AGCAGGTGA-------------AGACTCAGGAGACAGCTCTTCTTTG-------------------AGGAGA--ACTCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19663820 128 +  45876710 aaaaagaagaaTCGTCCTTTGCAGGAAATGGG-GAGGTGAAAAGGGTTGGCAG-GGAATAGCAAAGTAAAGATCCCC--TATAAGATAAGAGAAAACTA---------------------------------AAACCCAGGAGAGAAG---TTTGTA-------------------GGGAAT--GATCC
i canFam3.chr27             I 468 C 0
e dasNov3.JH562883             873683 410 -   1687904 I

a score=982881.000000
s hg38.chr12_GL383549v1_alt     13268 69 +    120804 AGAAATTCCTTCTGCATTCAGGGAG-CAGGAGCTCTCACAGAGCCTTGAGGAAAT-----AGAAGGCAAAAGGGC
s panTro5.chr12              62708179 68 + 137163284 AGAAATTCCTTCTGCATTCAGGGAG-CA-GAGCTCTCACAGAGCCTTGAGGAAAT-----AGAAGGCAAAAGGGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834772 69 + 135337776 AGAAATTCCTTCTGCATTCAGGGAG-CAGGAGCTCTCACAGAGCCTTGAGGAAAT-----AGAAGGCAAAAGGGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050132 69 -  32808036 AGAAATTCCTTCTGCATTCAGGGAG-CAGGAGCTCTCACAGAGCCTTGAGGAAAT-----AGAAGGCAAAAGGGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233905 70 +  34552619 AGAAACTCCTTCTGCATTCAGAGAGCCAGGAGCTCTCACAGAGCCTTGAGGAAAT-----AGAAGGCAAAAGGGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549752 70 - 133663169 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949217 70 - 137757926 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327027 70 -   7948249 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220386 70 -  10730278 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718777 70 - 128539186 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGAAAAT-----AGAAGGCAAAAGGGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       113548 70 +    435186 AGAAATTCCTTCTACATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502188 70 +   9309688 AGAAATTCCTTCTGCATTCAGGGAGTCAGGAGCTCTCACAGAGCCTTAAGGAAAT-----AGAAGGCAAAAGGGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335461 70 -  29834108 agaaattccttctgcattcagGGAGCCAGGAGCTCTCACAGAGCCTTGAGGAGAT-----AGAAGCCAAAAGTAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       790978 70 -   1015025 AGAAATTCTTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTGAGGAGAC-----AGAAGCCAAAAGTAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804906 70 -   2295209 AGAAATTCCTTCTGCATTCAGGGAGCCAGGAGCTCTCACAGAGCCTTGAGGAGAT-----AGAAGCCAAAAGTAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2923857 69 +  31815103 AGAAATTCCTTCTGCATCCAGGGAGTTAGGAGCTCTCACAGAACGC-AAGGAGGT-----AGAAGGCAAAAGTGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5020402 70 +  13104022 AGAAATTCCTTCTGCATCCATGGAGCCAGGAGCTCTCACAGAGCCCTGAGGCTAT-----AGAAGGCAAAAGTGC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511582 67 -  12054995 AGAAATTCCTTCTACATCCAGGGAGCCAGGAGCTCTCACGGAGCCCTGAGGAGGT--------AGGTCAAAGGAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365242 65 - 149736546 AGGAAATATTCT----------AAGTTGGTGGCTCTCAAGGAGCTCTGAGGAGATGGAGGAGGAGCTGAAAGGGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19663948 66 +  45876710 AGAAATTCCT----CACCCAGTGAGCCTGAAGCTCTTACAGATTTCTGAGGTGAT-----AGAAGGCAAAAGTGC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             874093 69 -   1687904 AGAAACTCCTTCCTCTTCCAGGGAGCCGGGA-CCCGCACAGGGCGCTGGGCAGAG-----GGAAGGCGAGGGGGC
i dasNov3.JH562883          I 410 I 1057

a score=1807795.000000
s hg38.chr12_GL383549v1_alt     13337 156 +    120804 AGGGAAACCT-GGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGA--AGGATTTCACCAAATCTGCGTGCAGTGGGGATAACCAGAAGCTCGC----TACCATACTGGTGTGTGTAAGAT----TGATGT
s panTro5.chr12              62708247 156 + 137163284 AGGGAAACCT-GGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGA--AGGATTTCACCAAATCTGCGTGCAGTGGGGATAACCAGAAGCTCGC----TACCATACTGGTGTGTGTAAGAT----TGATGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834841 156 + 135337776 AGGGAAACCT-GGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGA--AGGATTTCACCAAATCTGCGTGCAGTGGGGATAACCAGAAGCTCGC----TACCATACTGGTGTATGTAAGAT----TGTTGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050201 156 -  32808036 AGGGAAACCT-GGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGA--AGGATTTCACCAAATCTGCGTGCAGTGGGGATAACCAGAAGCTCGC----TACCATACTGGTGTATGTAAGAT----TGATGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7233975 157 +  34552619 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGAGC-AGGAAAACTGAAAGCTGTTATT-GGC-AGAGGG--AGGATTTCACCAAATCTGCGTGCAGTGGGGATAACTGGAAGCTCGC----TACCATATTGGTGTGTGTAAGAT----TGACGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104549822 156 - 133663169 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACACGCAGAGA-C-AGGAAAGCTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATCTGCGTGCAGTAGGGATAACTGGAAGCTCGC----TACCATACTGGTGTGTATAAGAT----TGATGT
i rheMac8.chr11             C 0 I 36
s macFas5.chr11             108949287 156 - 137757926 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACACGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATCTGCGTGCAGTAGGGATAACTGGAAGCTCGC----TACCATACTGGTGTGTATAGGAT----TGATGT
i macFas5.chr11             C 0 I 4
s macNem1.NW_012011422v1      1327097 156 -   7948249 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACACGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATCTGCGTGCAGTAGGGATAACTGGAAGCTCAC----TACCATACTGGTGTGTATAAGAT----TGATGT
i macNem1.NW_012011422v1    C 0 I 36
s cerAty1.NW_011999477v1      8220456 156 -  10730278 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATCTGCGTGCAGTAAGGATAACTGGAAGCTCGC----TACCATACTGGTGCGTATAAGAT----TGATGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100718847 156 - 128539186 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACATGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACTAAATCTGCGTGCAGTAGGGATAACTGGAAGCTCGC----TACCATACTGGTGTGTATAAGAT----TGATGT
i chlSab2.chr11             C 0 I 36
s manLeu1.NW_012101287v1       113618 156 +    435186 AGGGAAACCTGGGTAT--GAAGGCAACCACCAGAGAGCTCACACGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCATCAAATCTGCGTGCAGTAGGGATAACTGGAAGCTCGC----TACCATACTGGTGTGTATAAGAT----TGATGT
i manLeu1.NW_012101287v1    C 0 I 4
s colAng1.NW_012114364v1      3502258 156 +   9309688 AGGGAAACCTGGGCAT--GAAGGCAACCACTAGAGAGCTCACATGCAGAGA-C-AGGAAAACTGAAAGCTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATGTGCGTGCAGTAGGGATAACTGGAAGCTCGC----TACCATACTGGTGCGTATAAGAT----TGATGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335531 153 -  29834108 AGGAAAACCTGGGTAT--GAAGGTAACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGCAAGTTGCTATT-GGC-AGAGGG--AGGATTTCACCAAATCTACGTGCAGTGGGGGTAACTGGAAGCTCCC----TACCATCCTG----GTGTAAGCT----TGATGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791048 157 -   1015025 AGGGAAACCTGGGTAT--GAAGGTAACCGCCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGGAAGCTGCTATT-GGC-AGAGGG--AGGGTTTCATCAAATCTACGTGCAGTGGGGGTAACTGGAAGCTCCC----TACCATACTGGTGTGTGTAAGAT----TGATGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1804976 157 -   2295209 AGGGAAACCTGGGTAT--GAAGGTGACCACCAGAGAGCTCACATGCAGAGAAC-AGGAAAACTGGAAGCTGCTATT-GGC-AGAGGG--AGGATTTCATCAAATCTACGTGCAGTGGGGGTAACTGGAAGCTCCC----TACCATACTGGTGTGTGTAAGAT----TGATGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2923926 161 +  31815103 AGAGAATCCTGGGTAT--GGAGGCAACCATCT-AGAGCTCAAGTGCAAAGA-A-AGGAAGTCTGAAAACTGATATT-GGCAAGAGAA--GGGTCTTCACCAAATTTACATGCAGTGGGGATAATTGGAAGCTCCT---TTAACATGCTGGTTTGGGTAAGATTGTCTGATGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5020472 159 +  13104022 AGAGAATCCT-GGTAT--GGAGGCAA-CATC--AGAGCTCAAGTGCAGAGA-AGAGGATATCTGAAAACTGTTATT-GGCAAGAGGG--AGGTCCTCACCAAATGTATATGCAGTGGGGATAACTGGAAGCTCCT---TGACCACACTGGTTTGGGTAAGATTGTCTGATGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511649 157 -  12054995 AGAGAATGCTGGGCAT--GGAGACAACCATTTGAGAGCTCAAATGTGGAGA-G-AGGAATTCTGAAACCTGCTATT-GGCAAGATGG--AGGACTTCACCAAATCTATATGCAGTGGGGAACACTAGAAGTTCTT--------ACATTGATTTAGGTAAGATTGTCTGATGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365307 156 - 149736546 CG------TTGCGCACCAAGAGGTTAGTCCCTGAGCCTTCA---GCATGGA-G-AAGGAAGTGGAAAACTGCTGTTAGGC-CGTGGGTCAGACATGTACCTCTCTTGTCTCCC----AAGCAATTCTAAATCCACAGAGGGAAACACTGGCCTTTGTGAGACAGTCTAATGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664014 163 +  45876710 AGGGAATCCTAGGCAC--AGTGGCAACCAGCTGGGAATTCAGAAACTGGGAAG-AGGAAGATTACAAGCTGCTACT-GGCAGGAGGG--GGTGGCTCACCAAATCTATCTGTAGTAGGAATAATTGGAAGCACCC---TCACCACATTGGTCTTGGTAAGGTTGTCTAATGT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             874162 1057 -   1687904 I

a score=52706.000000
s hg38.chr12_GL383549v1_alt     13493 7 +    120804 CCAAACT
s panTro5.chr12              62708403 7 + 137163284 CCAAACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60834997 7 + 135337776 CCAAACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050357 7 -  32808036 CCAAACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234132 7 +  34552619 CCAAACT
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108949447 7 - 137757926 GCAATCT
i macFas5.chr11             I 4 I 25
s cerAty1.NW_011999477v1      8220612 7 -  10730278 CCAAACT
i cerAty1.NW_011999477v1    C 0 C 0
s manLeu1.NW_012101287v1       113778 7 +    435186 ACAATCT
i manLeu1.NW_012101287v1    I 4 I 25
s colAng1.NW_012114364v1      3502414 7 +   9309688 CCAAACT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335684 7 -  29834108 CCACACT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791205 7 -   1015025 CCACACT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805133 7 -   2295209 CCACACT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924087 7 +  31815103 CCAAACT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5020631 6 +  13104022 CC-AATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511806 7 -  12054995 CCAAACT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365463 7 - 149736546 CCACACA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664177 7 +  45876710 CCAAACT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             874162 1057 -   1687904 I
e chlSab2.chr11             100719003 36 - 128539186 I
e macNem1.NW_012011422v1      1327253 36 -   7948249 I
e rheMac8.chr11             104549978 36 - 133663169 I

a score=2680055.000000
s hg38.chr12_GL383549v1_alt     13500 217 +    120804 GCTGGTAAACACAAGCAAAGGAAAGAAACT--AAAATCCAAG-TGTCCCATTAGGTGTTCCAAACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTGTGG--TACGTTTTAAATTTTCTAGTAGATT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATATTGT
s panTro5.chr12              62708410 217 + 137163284 GCTGGTAAACACAAGCAAAGGAAAGAAATT--AAAATCCAAG-TGTCCCATTAGGTGTTCCAAACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTGTGA--TACATTTTAAATTTTCTAGTAGATT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATATTGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835004 217 + 135337776 GCTGGTAAACACAAGCAAAGGAAAGAAACT--AAAATCCAAG-TGTCCCATTAGGTGTTCCAAACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTGTGA--TACGTTTTAAATTTTCTAGTAGATT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATATTGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050364 217 -  32808036 GCTGGTAAACACAAGCAAAGGAAAGAAACT--AAAATCCAAG-TGTCCCATTAGGTGTTCCAAACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTGTGA--TACGTTTTAAATCTTCTAGTAGATT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATATTGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234139 217 +  34552619 GCTGGTAAACACAAGCTAAGGAAAGAAACT--AAAATCCAAG-TGTCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTCTTGA--TAAGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTATAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATATTGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550014 217 - 133663169 GCTGGTAAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TATCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TACGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i rheMac8.chr11             I 36 C 0
s macFas5.chr11             108949479 217 - 137757926 GCTGGTTAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TATCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TACGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i macFas5.chr11             I 25 C 0
s macNem1.NW_012011422v1      1327289 217 -   7948249 GCTGGTAAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TATCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACTGATGTTAGGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TATGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i macNem1.NW_012011422v1    I 36 C 0
s cerAty1.NW_011999477v1      8220619 217 -  10730278 GCTGGTAAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TGTCCCATTAGATGTTCCAGACAAAT--TATAATGTGAAACTGATGTTAAGTATATTTTGATAAGAGATCAGTACTGAA-AAACTCGTGTTTTGA--TAAGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719039 217 - 128539186 GCTGGTAAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TATCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACCGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TAAGTTTTAAATGTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i chlSab2.chr11             I 36 C 0
s manLeu1.NW_012101287v1       113810 217 +    435186 GCTGGTAAACGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TATCCCATTAGATGTTCCAGACAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TACGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATACTGT
i manLeu1.NW_012101287v1    I 25 C 0
s colAng1.NW_012114364v1      3502421 217 +   9309688 GCTGGTAAATGCAAGCTAAGGAAAGAAATT--AAAATCCAAG-TGTCCCATTAGATGTTCCAGACAAAT--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAGATCAGTACTGAA-AAACTCATGTTTTGA--TACATTTTAAGTTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTATGCAAGAACTTTAAGAAAATGTTTGATAGTGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335691 215 -  29834108 GCTGATAAACACAAGTTAAGGAATGAATCT--AAAATCCAAG-TGTCCCATTAGATGTTCCAGTCAAAC--TATAATGTGAAACTGATGTTAAGTACATTTCGAT-AGAAGTCAGTACAGAA-AAACTCATGTTTTGA--TAAGTTTTACA-TTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTTTGCGAAAACTTTAAGACAAAGTTTGGTATTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791212 217 -   1015025 GTTGATAAACACAAGTTAAGGAACGAAACT--AAAATCCAAG-GGTCCCATTAGATGTTCCAGTCAAAC--TATAATGTGAAACTGATGTTAAGTACATTTAGATAAGAAGTCAGTACTGAA-AAACTCATGTTTTGA--TAAGTTTTACATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCAAAAGGTTA-CTTTGCAAAAACTTTAAGAAAAAGTTTGGTATTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805140 214 -   2295209 GCTGAT---CACAAGTTAAGGAACGAAACT--AAAATCCAAG-TGTCCCATTAGATGTTCCAGTCAAAC--TATAATGTGAAACTGATGTTAAGTACATTTTGATAAGAAGTCAGTACTGAA-AAACTCGTATTTTGA--TAAGTTTTAAATTTTCTAGTAGACT---------------------------------------TTTTATTGGTGTAGGCGAAATGTTA-CTTTGCAAAAACTTTAAGAAAAAGTTTGGTATTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924094 208 +  31815103 GCTGGTAAATTCAAGTTAGGGAAAGGAACT--AAAGTCTGAG-TCTCCCATTAGATGTTCTAGTCAAACCCTATAAA-----------GTTAAATACACCTTGATAAGAAATGTGTATTGAT-AAACTCATGTTTTGC--TGAGTTTTAAATGTTCTAGTAGATT---------------------------------------TTCTATTGGTGTAGGCAAAAGGTTA-CTAGGCAAGTACTTTGGGGAAAAGTTTGATATTGT
i micMur3.chr21             C 0 I 83
s proCoq1.NW_012140524v1      5020637 221 +  13104022 GCCAGTAAATTCAAGTTAAGGAAAGGAACTAAAAAGTCTGAGCTGTCCCATTAGATGTTCTAGCCAAACCCTGTAAAGTTAAACTTATGTTAAATACATTTTGATAAGAAATGTGTACTGAT-AAACTCATATTTTGC--TGAG-TTTAAATTTTCTAATAGCTT---------------------------------------TTCTATTGGTGTAGGCAAAAGGTTA-CTAGGCAAGCACTTTGGGGAAAAATTTGATATTGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4511813 218 -  12054995 GCTGGGAAATTCAAATTAAAGAAAGGAATT--GAAGCCTGAA-TGTCCCATTAGATGTTCCAGCCAAACCTTACAAAGTTAAACTGATGTTAAATACATTGTGATAAGAAATCTATACTGATAAAACTCCTGTTTTGT--TCAGTTTTTAATTTTCTAGTAGATT---------------------------------------TTCTATTGGCGTAGGCAAAAGGTTA-CTATGCAAGTACTTTTGAGAAAAGTTTGATATT--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365470 194 - 149736546 -ATGAGTAACCC---TTAAGGGAAGAAGCT--GAGGACCAAG-TGCTGCCCTGGCTAGCCCAGTCAAAC----TAAGGTTAAACTGATGTGAAGTACATAGCAGTAAGGAAT-----CTGGT-AAACTTGGGTTTTGA--GGAATTTTATATTTTC---TAGATT---------------------------------------TTATTCTGTTGTAGGAAAAAAGATACCCATGCAAGGACTCACACGATAAGT----------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664184 245 +  45876710 CATAGTAAATTCAAGTTGAGAAAAGAGGCT--AAAACCTGAG-CACCCCATTAAATGCTCCAGCCAAAG----TAAAGTAGAATAGACCTTAAAAAGGTTTTGATAAGAAATCTGTGCTGGA-AAACTCCCATTTTGATTTGAATTTTAAATTTGCCAATAATTTCTGTAAAACATTAGTTATCTTTTAATACAGCACCTACTATTTAAATGGGGTAGG-AAAAGGTTA-CTACACA----------GAAAAAATGTGATGCTGT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             874162 1057 -   1687904 I

a score=653503.000000
s hg38.chr12_GL383549v1_alt     13717 69 +    120804 CTTTAATGAGTAGAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAACG----------AAAAAAAACAGCTGAAG--------GCC
s panTro5.chr12              62708627 69 + 137163284 CTTTAATGAGTAGAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAACG----------AAAAAAAACAGTTGAAG--------GCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835221 69 + 135337776 CTTTAATGAGTAGAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAACG----------AAAAAAAACAGTTGAAG--------GCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050581 70 -  32808036 CTTTAATGAGTAGAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAACG---------AAAAAAAAACAGTTGAAG--------GCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234356 69 +  34552619 CTTTAATAAGTAGAAAAGAAA-AGGAATTTG-TTTACCTGTCTACCAAATG----------AAAAAAAACAGTCGAAG--------GCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550231 74 - 133663169 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAAAG--A---AAAAAAAAAAAACAGTTGAAG--------GCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949696 74 - 137757926 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAAAG--A---AAAAAAAAAAAACAGTTGAAG--------GCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327506 76 -   7948249 CTTTAACGAGTCAAAAAGAAA-AGCAATTTG-TTCACCTGTCTACCaaaagaaa---aaaaaaaaaaaaCAGTTGAAG--------GCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220836 73 -  10730278 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-CTCACCTGTCTACCAAAAG------AAAAAAAAAAAACAGTTGAAG--------GCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719256 76 - 128539186 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCaaaagaaa---aaaaaaaaaaaaCAGTTGAAG--------GCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114027 74 +    435186 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-TTCACCTGTCTACCAAAAG--A---AAAGAAAAAAAACAGTTGAAG--------GCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502638 72 +   9309688 CTTTAATGAGTCAAAAAGAAA-AGGAATTTG-TTCACCTCTCTACCAAAAG-------AAAAAAAAAAACAGTTGAAG--------GCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335906 72 -  29834108 CTCTAATGAGTCGAAAAGAAA-AGGAATTTG-TTCACCTCTCTACCAAATG--G---AAAATAAAAAAAGAGTTGAAG--------G--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791429 75 -   1015025 CTCTAATGAGTTGAAAAGAAA-AGGAATTTG-TTCACCTCTCTACCAAATG--GAAAAAAAAAAAAAAAGAGTTGAAG--------G--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805354 69 -   2295209 CTCTAATGAGTC-AAAAAAAA-AGGAATTTG-TTCACCTCTCTACCAAATG--A-----AAAAAAAAAAGAGTTGAAG--------G--
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5020858 71 +  13104022 CCCTAATGAACTGAAAAGAAA-AGAAATTTGTTTCACTTCTCTACCAAGAG---------AGTTGAAAAGAGTTGAAG--------GCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4512031 58 -  12054995 -------GAACT-----AAAA-TGAAATTTG-TTCACTTCTCTACCAAGAG---------AGTTGAAATGAGTTGAAG--------GCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365664 77 - 149736546 CTCTAACAAGCCTAGAAGAAAGGGGAAATTG-TCCACTTTTCCCTCCAAAG-----------AGGTAAAGAGTTGAAGCACCCAACACC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664429 69 +  45876710 CTCTAATGAACTGAGAAGAGA-AGGAATTTG-TTCATGTCTCTACTGAGAT---------AGTGGAAAAGAGCTGAAG--------G-T
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2924302 83 +  31815103 I
e dasNov3.JH562883             874162 1057 -   1687904 I

a score=169369.000000
s hg38.chr12_GL383549v1_alt     13786  23 +    120804 CCTAGTGATTGggtagt---------------------------------------------------------------------------------gtggcg
s panTro5.chr12              62708696  23 + 137163284 CCTAGTGATTGGGTAGT---------------------------------------------------------------------------------GTGGCG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835290  23 + 135337776 CCTAGTGATTGggtagt---------------------------------------------------------------------------------gtggcg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050651  23 -  32808036 CCTAGTGATTGggtagt---------------------------------------------------------------------------------gtggcg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234425  23 +  34552619 CCTAGTGATTGGGTAGT---------------------------------------------------------------------------------GTGGCG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550305  23 - 133663169 CCTAGTGATTGGGTAAA---------------------------------------------------------------------------------gtggcg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949770  23 - 137757926 CCTAGTGATTGGGTAAT---------------------------------------------------------------------------------gtggcg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327582  23 -   7948249 CCTAGTGATTGGGTAAT---------------------------------------------------------------------------------gtggcg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220909  23 -  10730278 CCTAGTGATTGGGTAAT---------------------------------------------------------------------------------gtggtg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719332  23 - 128539186 CCTAGTAATTGGGTAAT---------------------------------------------------------------------------------GTGGCG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114101  23 +    435186 CCTAGTGATTGGGTAAT---------------------------------------------------------------------------------gtggtg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502710  23 +   9309688 CCTAGTGATTGGGTAAT---------------------------------------------------------------------------------gtggcg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11335978 104 -  29834108 CCTTGTGGTTGGGTAATgtggtggtagtgctggtggtggtggtggtggtggtggtggtggtgggggtgatggtgatggggatcatggtggtgatggtagtggtg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791504  29 -   1015025 CCTAgtggttgggtaatgtggtg---------------------------------------------------------------------------gtggtg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805423  56 -   2295209 CCTAGTGGTTGGGTAAtgtggtgatagtggtggttgtggtggtggtggtg------------------------------------------------gtggtg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5020929  19 +  13104022 CCTAGCAGCTGGGTAAT---------------------------------------------------------------------------------GC----
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4512089  20 -  12054995 CCTAGTGGTTGGGTAAC---------------------------------------------------------------------------------AGG---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365741  23 - 149736546 ACTTGTGGCTGGCTAAT---------------------------------------------------------------------------------GTGAAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664498  23 +  45876710 CCTACCAGTTGGACGAT---------------------------------------------------------------------------------GCGACC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             875219  15 -   1687904 ccTAGAGGTTGGATA-----------------------------------------------------------------------------------------
i dasNov3.JH562883          I 1057 C 0
e micMur3.chr21               2924302  83 +  31815103 I

a score=2085985.000000
s hg38.chr12_GL383549v1_alt     13809 148 +    120804 gtagtggtggtggtggCTATCTTGAAGTGAAA----TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
s panTro5.chr12              62708719 148 + 137163284 GTAGTGGTGGTAGAGGCTATCTTGAAGTGAAA----TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835313 148 + 135337776 gtagtggtggtggtggCTATGTTGAAGTGAAA----TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050674 148 -  32808036 gtagtggtggtggtggCTATCTTGAAGTGAAA----TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234448 151 +  34552619 GTAATGGTGGTAGTGGCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTTAGTCTCTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550328 151 - 133663169 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTAGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949793 151 - 137757926 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTAGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327605 151 -   7948249 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTAGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8220932 147 -  10730278 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTT----TCTGGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719355 151 - 128539186 GTAGTGGTGGTAGTGGCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTAGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114124 147 +    435186 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGATTCACTTTGGAGGGAAAACCTCAGGTGAAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTT----TCTGGCTTTTCCTCTTCCTCTGTGAGTCTCTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502733 151 +   9309688 gtagtggtggtggtggCTATCTTGAAGTGAAACTT-TATCTATAAATCTCCAAGGTTCACTTTGGAAGGAAAACCTCAGGTGGAAAG-----AGGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336082 151 -  29834108 atgatggtggtggtggCTGTCTTGAAGTGAAACTG-TATCTATAAATCTCCAAGGTTAACTTTGGAAGGAAAACCTCAGATGGAAAG-----AAGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791533 151 -   1015025 gcggtgttgatggtggCTATCTTGAAGTGAAACTG-TATCTATAAATCTCCAAGGTCAACTTTGGAAGGACAACCTCAGGTGGAAAG-----AAGCAGCTGATCAAACAGCTTCTAGCCTTTCTCTCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805479 147 -   2295209 gttgtggtggtggtggCTATCTTGAAGTGAAACTG-TATCTATAAATCTCCAAGGTTAACATTGGAAGGAAAACCTCAGGTGAAAAG-----AAGCAGCTGATCAAACAGCTTCTAGCCTT----TCTGGCTTTCCCTCTTCCTCTGTGAGTCTCTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924385 151 +  31815103 GCAGTGTTGGTGGTAGCTATCTTGAAACGAAACTG-TGTCTATGAATCTCCAAGGTTAACATTGGGAAGAAAGTCTCAGATAGAAAG-----AGGCAGCTGATCAAACAGCTTCTCCTCTTTCTTCCTGGCTGTCACTCTTCCTCTGTGAGCCTCTC
i micMur3.chr21             I 83 C 0
s proCoq1.NW_012140524v1      5020948 149 +  13104022 --AGTGTTGGTGGTGGCTATCTTGAAGTGAAACTA-TATCTATGAATCTCCAAGGTTAACACTGGAAGGAAAATTTCAGGTAGAAAG-----AGGCAGCTGATCAAACAGCTTCTCCCCTTTCTTCCTGGCTGTCACTCTTCCTCTGTGAGTCTCTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4512109 128 -  12054995 ------------------ATCTTGATGTGAAACCGTTACCTATGAATCTCCAAGATTAACATTGGAAGGAAAATCTCAGGTAGAAAG-----AGGAAACTAATCAAACATCTTCTGGCCTTTTTTCCTGG------CTCTTCCTCTGTGAGCTTCTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365764 122 - 149736546 ----------AGGTGGCTTTCTGGAAGT-----TT-TACCT-TGAATCTCCAAGGATAACTT--GAAAGGGACTTCCAAGCACAAAGTCAGTGGGCTGC-GATCA-------TCCAGCCTTTCTCCCTGG--------CTTCCTCTGCAAAGCCCTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664521 128 +  45876710 ------GTGGTGATAGTTGTTTTTAAGTGATA--T-TATCTATGAATCTCCAAGGTTAACTTTGGAAGGAAAATCTCAAGT-GAAAG-----AGGCAGCTGATCAAGCAGCTTCTAGTCTTGCTCCCTGGCTTTCTCTCTT--------------TT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             875234 145 -   1687904 -CAGTAGAGGTGGCGGCTTTCTT----TGACCCTG-TCCCTGTGAATCTCCAAGGTTAATTTTGGGAGAAAAACCTCAGGTGGAAAG------GGCAGCTGACAGAGCCACTTCTTTTCCCTCGCCCTGGCTTTCAGGTTTCCTCAGTAAATGTTCC
i dasNov3.JH562883          C 0 I 91

a score=2878514.000000
s hg38.chr12_GL383549v1_alt     13957 239 +    120804 ACTTAGAGTACTATTGCATTTCCAAAGTATAAGATGGACTATTGCCAGGGCCAACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATTAGCTCCTTTG--GCACAGCAGCCCAACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTGTTA-TAATAAAGAAGGGA---AGTTGTTGCTGCTGCTGTTGTTTCTTCTCATCA
s panTro5.chr12              62708867 239 + 137163284 ACTTAGAGTACTATTGCATTTCCAAAGTATAAGATGGACTATTGCCAGGGCCCACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGCCCAACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTGTTA-TAATAAAGAAGGGA---AGTTGTTGCCGCTGCTGTTGTTTCTTCTCATCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835461 239 + 135337776 ACTTAGAGTACTATTGCATTTCCAAAGTATAAGATGGACTATTGCCAGGGCCCACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGCCCAACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTGTTA-TAATAAAGAAGGGA---AGTTGTTGCCGCTGCTGTTGTTTCTTCTCATCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3050822 239 -  32808036 ACTTAGGGTACTATTGCATTTCCAAAGTATAAGATGGACTATTGCCAGGGCCAACAGTTTCCAGTAGAACTGAACACTCCCCT---CCGTTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGCCCAACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTGTTA-TAATAAAGAAGGGA---AGTTGTTGCTGCTGCTGTTGTTTCTTCTCATCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234599 237 +  34552619 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGAGTACTGCCAGGGCCA--AGTTTCCAGTGGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGCCCAACTGAAAAGTCAGGGACAAAGGTTCTGAGTTTTGTTT-TAATAAAGAAGGGA---AGTTGTTGCTGCTGCTGTTGTTTCTTCTCATCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550479 239 - 133663169 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTGCA--TTAATTGAGCCCATGAGCTCCTTTG--ACATGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGTGGCTGTTGTTTCTTCTCATCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108949944 239 - 137757926 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTGCA--TTAATTGAGCCCATGAGCTCCTTTG--ACATGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGTGGCTGTTGTTTCTTCTCATCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327756 239 -   7948249 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTTCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAATTTCAAAGGGTGCA--TTAATTGAGCCCATGAGCTCCTTTG--ACATGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGTGGCTGTTGTTTCTTCTCATCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221079 239 -  10730278 ACTTAAAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTCCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTGCA--TTTATTGAGCCCATGAGCTCCTTTG--ACACGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGTGGCTGTTGTTTCTTCTCATCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719506 239 - 128539186 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTCCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGATATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGCGGCTGTTGTTTCTTCTCATCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114271 239 +    435186 ACTTAGAGTACTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCAACAGTTCCCAGTAGAACTGAACATGCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACGGCAGCCCCACTGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGCGGCTGTTGTTTCTTCTCATCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3502884 239 +   9309688 ACTTAGAGTACTATTGCATTTCCAAAGTATCCGATGGACTATTGCCAGGGCCAACAGTTCCCAGTAGAACTGAACACTCCCCT---CCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACGGTAGGCCCACCGAAAAGTCAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGAAGGGA---AGTTGTTGCTGCGGCTGTTGTTTCTTCTCATCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336233 215 -  29834108 ACTTACAGTCCTATTGCATTTCCAAAGTATCAGATGGACTATTGTCAGGGCCAACAGTTTTCAGTAGAACTGAACACTCCCTCCCCCCATTAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAACAGC---------------------------CTGAGTTTTGTTT-TAATAAAGAAGGAA---AGTTGTTGCTGCAGCTGTTGTTTCTTCTCATCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791684 214 -   1015025 ACTTAGGGTCCTATTGCATTTCCAAAGTATCAGATGGACTATTGCCAGGGCCTACAGTTCTCAGTAGAGCTGAACACTCCCCCGACCCAATAAAACAGGGAGATAGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGC---------------------------CTGAGTTTTGTTT-TAATAAAGAAGTAA---AGTT-TTGCTGCAGCTGTTGTTTCTTCTCATCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805626 214 -   2295209 AGTTAGAGTACTATTGCATTTCCAAAGTGTCAGATGGGCTATTGCCAGGGCCAACAGTTCTCAGTAGAACTGAGCACTCCCCCAA-CCATTAAAAAGGGGAGATCGTTTCAAAGGGTATA--TTTATTGAGCCCATGAGCTCCTTTG--ACACAGCAGC---------------------------CTGAGTTTTGTTT-TAATAAAGAAGGAA---AGTTGTTGCTGCAGCTGTTGTTTCTTCTTATCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924536 243 +  31815103 ACCAACAGTGCTATTGCATTTCCGAAATACCAGATGGACTGTTGCCAGGGCCAACAGCTCCTAGTAGAACCAAATATTCCATT---CCATTAAAACAGGGAGATGGTTTCAAAGAGTATGTTTTTACTGCGACCGTGAGCTCGTTTGACACACAGCAGCCTAACTGAAAAGTTAGGGACAGAGGTTCTGAGTTTTATTT-TAATAAAGGAGGGA---AgttgttgctgctgttgttgtttgttTTCATCA
i micMur3.chr21             C 0 I 41
s proCoq1.NW_012140524v1      5021097 242 +  13104022 ACCAACAGTGCTATTGCGTTTCCAAAATACCAGATGGACTATTGCCAGGGCCAATAGCTCCCAGTAGAACCAAATACTCCCTT---TGATTAAAACAGGGAGATGGTTTCAAAGAGCATGTTTTTACTGAGCCTATGAGCTCATTTG--ACAGAGCAGCCTAACTGAAAAGTTAGGGACAGAGGTTCCGAGTTTTTTTTGTAATAAAGGAGGGA---AgttgttgttgctgttgttgttgttTCTCCTCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4512237 220 -  12054995 ACTAACAATACTGTTGCATTTCCAAAATACCAGATGGCTTATTGCCCAGGCCAACAGCTCCCAGTAGAGCTGAATA-TCCCTT---CCATTAAAACAGGGAGATGGTTTCAAAGGGCATG--TTTATTGAACCCATG-GCTCACTTG--ACACAGCAGCAAAACTGAAAAGTTAGGGACAGAGGTTCTGAGCTT------CAATAAAGGGAA---------------GCTCTTATTGTTTCTTCTCATCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2365886 185 - 149736546 ACTT-CAGTGCCACTGCCTGTA-------------GGATTGTTGCTGGGGCCAGTGGCTCCCAAGAGTAATGAGCAGCCCCAT--------------------------------GAGCC--CTGATTG-------------CCTGC--ACACAGTGGGCTAACTAAAAGCTTAGGGATGGAGCTTCTGAGTTTGGCTT-TAATTTGGCAGGGATGGAGTTCTGGCTACCACTGCTGTCTCTCACCATT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664649 214 +  45876710 ACTTACGGTACCATTGCATTTCCATAATATCAGATGGACTGTTGTCAAGGCCAACTGTGCCCAGGAAAGCAGAACACTCTCTT---CCATTAAAGCATGGAGATTGTGTCAAAGGGTGTG--GCCACTGAGTCCAAAAGCCACTTTG--ACACA--AGCCTAACTGAAAAGTTGAGGGCAGAA-----GAGTTT------TAATA------------AATTGCTGTT----CCTTTTTGTCTTTTCATCA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             875379  91 -   1687904 I

a score=11708.000000
s hg38.chr12_GL383549v1_alt     14196 3 +    120804 GCA
s panTro5.chr12              62709106 3 + 137163284 GCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835700 3 + 135337776 GCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051061 3 -  32808036 GCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234836 3 +  34552619 GCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550718 3 - 133663169 TCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950183 3 - 137757926 TCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327995 3 -   7948249 TCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221318 3 -  10730278 TCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719745 3 - 128539186 TCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114510 3 +    435186 TCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503123 3 +   9309688 TCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336448 3 -  29834108 TTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791898 3 -   1015025 TTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805840 3 -   2295209 TTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5021339 3 +  13104022 TCA
i proCoq1.NW_012140524v1    C 0 I 2
s otoGar3.GL873576            4512457 3 -  12054995 TCT
i otoGar3.GL873576          C 0 I 759
s canFam3.chr27              19664863 2 +  45876710 TC-
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2366071 0 - 149736546 C
e micMur3.chr21               2924779 41 +  31815103 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=316818.000000
s hg38.chr12_GL383549v1_alt     14199 64 +    120804 CCTTTCTATAGAATCAGAAGG-AAAACTGTT-aaaaaaaaaaaaaaaaaaccaat--aaaaaaaGTGC
s panTro5.chr12              62709109 66 + 137163284 CCTTTCTATAGAATCAGAAGG-AAAACTGTTaaaaaaaaaaaaaaaaaaaacaat-aaaaaaaaGTGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835703 64 + 135337776 CCTTTCTATAGAATCAGAAGG-AAAACTGTT--aaaaaaaaaaaaaaaaacaaat-aaaaaaaaGTGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051064 61 -  32808036 CCTTTCTATAGAATCAGAAGG-AAAACTGTT----aaaaaaaaaaaaacaacaat--aaaaaaaGTGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234839 55 +  34552619 CCTTTCTATAGAACCAGAAGG-AAAACTGTT-----------AAAAAACAACAAC-AACAAAAAGTGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550721 43 - 133663169 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------T-AAAAAAAAGTGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950186 43 - 137757926 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------T-AAAAAAAAGTGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1327998 43 -   7948249 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------T-AAAAAAAAGTGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221321 43 -  10730278 CCTTTCTATAGAGCCAGAAAG-AAAACTGGT-----------------------T-TAAAAAAAGTGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719748 44 - 128539186 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------TAAAAAAAAAGTGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114513 43 +    435186 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------T-AAAAAAAAGTGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503126 43 +   9309688 CCTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------T-AAAAAAAAGTGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336451 38 -  29834108 CTTTTCTATAGAGCCAG-AGG-AAAAC---------------------------T-GATAAAAAGTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791901 38 -   1015025 CTTTTCTATAGAGCCAG-AGG-AAAAC---------------------------T-GATAAAAAGTAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805843 38 -   2295209 CTTTTCTATAGAGCCAG-AGG-AAAAC---------------------------T-GAAAAAAAGTCC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5021344 39 +  13104022 CTTTTCTGTGGAGCCAGAAGGAAAAACTGGT-----------------------------AAAACCGT
i proCoq1.NW_012140524v1    I 2 C 0
s otoGar3.GL873576            4513219 39 -  12054995 CTTTTCTATAGAGCCAGAAGG-AAAACTGGT-----------------------A-----AAAACTGT
i otoGar3.GL873576          I 759 I 7
s mm10.chr6                   2366071 30 - 149736546 CTTTTCTACAGAACTAGAAGC-AAAACTCAC-------------------------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664865 36 +  45876710 CTTTTCTATAGAGCCTAAAGG-AAA-----------------------------T--ACTAGAATTGC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2924779 41 +  31815103 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=1637207.000000
s hg38.chr12_GL383549v1_alt     14263 140 +    120804 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTATGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCGTATTTACTTCTACACATGAATTC-AA
s panTro5.chr12              62709175 140 + 137163284 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTATGATGTGCTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCGTGGATAAACTAAGTGTCGTATTTACTTCTACACATGAATTC-AA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835767 140 + 135337776 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTATGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCGTATTTACTTCTACACACGAATTC-AA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051125 140 -  32808036 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTATGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCGTATTTACTTCTACACATGAATTC-AA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7234894 140 +  34552619 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTATGATGTACTA--CTCCT-CTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCATATTTACTTCTACACATGAACTC-AA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550764 136 - 133663169 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-CTTTGC-CTC--ACACACAAAAACTGCATCGATAAAC----TGTCATATTTACTTCTACACAAGAATTC-AA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950229 136 - 137757926 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-CTTTGC-CTC--ACACACAAAAACTGTGTCGATAAAC----TGTCATATTTACTTCTACACAAGAATTC-AA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328041 136 -   7948249 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-CTTTGC-CTC--ACACACAAAAACTGCATCGATAAAC----TGTCATATTTACTTCTACACAAGAATTC-AA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221364 136 -  10730278 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAAC----TGTCATATTTACTTCTACACAAGAATTC-AA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719792 136 - 128539186 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACACAAACTGCATCGATAAAC----TGTCATATTTACTTCTACACAAGAATTC-AA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114556 140 +    435186 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCATATTTACTTCTACACATGAATTC-AA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503169 140 +   9309688 AGCAAGAAGAGATTTGGTGAAATGTCAGGATTCCTTGTAGATGGGGATAGCTTTGATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAACTGCATCGATAAACTAAGTGTCATATTTACTTCTACACAAGAATTC-AA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336489 138 -  29834108 AGCAAGAAGAGATTCGGTGAAATGTCAGGATT-ATTATAGATGTGGATAGCTATCATGTACTA--TTCCT-TTCC-ATTTGC-CTC--ACACACAAAAATTGTATTGATAAACTAAGTGCCATATTTACTTCTAT-CATGAATCC-AG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       791939 138 -   1015025 AGCAAGAAGAGATTTGGTGAAATGTTGGGATT-ATTATAGATAGGGATAGCTATCATGTACTA--CTCCT-TTCT-ATTTGC-CTC--ACACGCAAAAATTTCATTGATAAACTAAGTGCCATATTTACTTCTAT-CATGAATCC-AG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1805881 138 -   2295209 AGCAAGAAGAGATCTGGTGAAATGTCAGGATT-ATTATAGATGGGGATAGCTGTCATGTACTA--CTCCT-TTCC-ATTTGC-CTC--ACACACAAAAATTGCATTGATAAACTAAGTGCCATATTTACTTCTAT-CATGAATCC-AG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924820 142 +  31815103 AGCAAAAAGAGATTTGGTGAAGTGTTAAGATC-CCTATAGATAGTGACAGCTATGACGAACTA--CTCCTGTCCC-ATTTGC-CTCATACACACAAAAA-TGCATTGCTAAACTAAGTGTACTGTTTACTTCTATGCATAAATCCAAA
i micMur3.chr21             I 41 C 0
s proCoq1.NW_012140524v1      5021383 141 +  13104022 AGCAAAAAGAGATTTGGTGAAATGTTAAGATC-CCTATAGACAGTGA-AGCTATGATGAACTA--CTCCTGTCCC-ATTTGC-CTCCTACACACAAAAA-TGCATTGCTAAACTAAGTGTGGTATTTACTTCTATACATAAACCCAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513265 131 -  12054995 ------AAGAGATTTGGTGAAATGTAAAGATC-CTTGCTGATAGTGACACCTATGAGGAACTA--CTCCTTCTCC-ATATGA-CAC--ACACGCACAAA-TGCATTGCTAAACAAAGGGTAG---TTACTTCTATGCATAAATCCAAA
i otoGar3.GL873576          I 7 C 0
s mm10.chr6                   2366101 129 - 149736546 AGAGAAGAGAGATTTGCTGAAAGCTTAGGAGC-CTCTCAGGTGGGGATAGGTATGATGTATTAAGTATTT-TCTC-ACTTGTATTC--ACCTACAAAAT-TGCCTTGCTAGAT------------TTACTCCCACACTTAAACCC-AA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19664901 139 +  45876710 AGCAAGAAGAGATTTGGTGAAACCTCA-GATTCCTTATAGATGAAGAAAGCTATGATGTATTA--CTCCT-TTCCTGTTTAC-CAC--ACACA-AAGAATTGCATTGCTACAGTAAGTATAAGATTTACCAGTATTCACAAATCC-AA
i canFam3.chr27             C 0 I 2772
e dasNov3.JH562883             875379  91 -   1687904 I

a score=4157.000000
s hg38.chr12_GL383549v1_alt     14403 1 +    120804 T
s panTro5.chr12              62709315 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835907 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051265 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235034 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550900 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950365 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328177 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221500 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719928 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114696 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503309 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336627 1 -  29834108 C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792077 1 -   1015025 C
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806019 1 -   2295209 C
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924962 1 +  31815103 G
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5021524 1 +  13104022 T
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513396 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2366230 1 - 149736546 T
i mm10.chr6                 C 0 I 710
s canFam3.chr27              19667812 1 +  45876710 t
i canFam3.chr27             I 2772 C 0
e dasNov3.JH562883             875379 91 -   1687904 I

a score=513632.000000
s hg38.chr12_GL383549v1_alt     14404 38 +    120804 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
s panTro5.chr12              62709316 38 + 137163284 ATAATGTTGAATGATACCTGAAAACATTTTGCAAATCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835908 38 + 135337776 ATAATGTTGAATGATACCTGAAAACATTTTGCAAATCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051266 38 -  32808036 ATAATGTTGAATGATATCTGAAAACATTTTGCAGATCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235035 38 +  34552619 ATAATGTTCAATGATATCTGAAAACATTTTGCAAATCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550901 38 - 133663169 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950366 38 - 137757926 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328178 38 -   7948249 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221501 38 -  10730278 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719929 38 - 128539186 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114697 38 +    435186 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503310 38 +   9309688 ATAATGTTGAATGATATCTGAAAACATTTTGCAAATCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336628 38 -  29834108 ATCATGTTGAATGATGTCTGAAAACATTTTTCAAATCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792078 38 -   1015025 ATCATGTTGAATGATGTCTGAAAACATTTTGCAAATCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806020 38 -   2295209 ATCATGTTGAATGATGTCTGAAAACATTTTGCAAATCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2924963 38 +  31815103 ATAATATTGAATGATACCTGAAAACATTTTGCAAATCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5021525 38 +  13104022 ATAATATTGAGTGATACCTGAAAACATATTGCAAATCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513397 34 -  12054995 ATAATGTTGAATGATACTAGAAAACATTTTGCCA----
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19667813 38 +  45876710 ATATGTTTAAGTGATCTCTGAAGACATTTTGCAAATCA
i canFam3.chr27             C 0 I 22
e mm10.chr6                   2366231 710 - 149736546 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=269754.000000
s hg38.chr12_GL383549v1_alt     14442 22 +    120804 CAGATGCAGTCCGGAGTCTCTC
s panTro5.chr12              62709354 22 + 137163284 CAGATGTAGTCCGGAGTCTCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835946 22 + 135337776 CAGATGTAGTCCGGAGTCTCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051304 22 -  32808036 CAGATGTAGTCCGGAGTCTCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235073 22 +  34552619 CAGATGTAGTCCTGAGTCTCTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550939 22 - 133663169 CAGATGTAGTCCTGAGTCTCTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950404 22 - 137757926 CAGATGTAGTCCTGAGTCTCTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328216 22 -   7948249 CAGATGTAGTCCTGAGTCTCTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221539 22 -  10730278 CAGATGTAGTCCTGAGTCTCTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719967 22 - 128539186 CAGATGTAGTCCTGAGTCTCTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114735 22 +    435186 CAGATGTAGTCCTGAGTCTCTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503348 22 +   9309688 CAGTTGTAGTCCTGAGTCTCTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336666 22 -  29834108 CAGATGTAGTCCTGAGTCTCTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792116 22 -   1015025 CAGATGTAGTCCTGAGTCTCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806058 22 -   2295209 CAGATGTAGTCCTGAGTCTCTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2925001 22 +  31815103 CAGATGTAGTCCTGAGTCTCTC
i micMur3.chr21             C 0 I 32
s proCoq1.NW_012140524v1      5021563 22 +  13104022 CAGATGTAGTCCTGAGTCTCTC
i proCoq1.NW_012140524v1    C 0 C 0
e otoGar3.GL873576            4513431  0 -  12054995 C
e mm10.chr6                   2366231 710 - 149736546 I
e canFam3.chr27              19667851 22 +  45876710 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=273342.000000
s hg38.chr12_GL383549v1_alt     14464 31 +    120804 AGTAGTCTCCACCTCAGTTCTCACACTGAAG---
s panTro5.chr12              62709376 31 + 137163284 AGTAGTCTCCACCTCAGTTCTCACACTGAAG---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835968 31 + 135337776 AGTAGTCTCCACCTCAGTTCTCACACTGAAG---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051326 31 -  32808036 AGTAGTCTCCACCTCAGTTCTCACACTGAAG---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235095 31 +  34552619 AGTAATCTCCACCTCAGTTCTCACATTGAAG---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550961 31 - 133663169 AGTAGTCTCCGCCTCGGTTCTCACATTGAAG---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950426 31 - 137757926 AGTAGTCTCCACCTCGGTTCTCACATTGAAG---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328238 31 -   7948249 AGTAGTCTCCGCCTCGGTTCTCACATTGAAG---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221561 31 -  10730278 AGTAGTCTCCGCCTCGGTTCTCACATTGAAG---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100719989 31 - 128539186 AGTAGTCTCCGCCTCGGTTCTCACATTGAAG---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114757 31 +    435186 AGTAGTCTCCGCCTCGGTTCTCACATTGAAG---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503370 31 +   9309688 AGTAGTCTCCACCTCAGTTCTCACATTGAAG---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336688 31 -  29834108 AGTAGTCTCTGCCTCAGTTCTGACACTGAAG---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792138 31 -   1015025 AGTAGTCTCTGCCTCAGTTCTGACATTGAAG---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806080 31 -   2295209 AGTAGCCTCTGCCTCAGTTCTGACATTGAAG---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5021585 29 +  13104022 --CAGCC-CCACCTCA--TTCTACATCGAAAGTA
i proCoq1.NW_012140524v1    C 0 C 0
e otoGar3.GL873576            4513431  0 -  12054995 C
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925023 32 +  31815103 I
e canFam3.chr27              19667851 22 +  45876710 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=1939192.000000
s hg38.chr12_GL383549v1_alt     14495 183 +    120804 GA--ATATATAACTATAACGTGTGAGGATGCACTCAGATGTTAACTCTCAAGCCCAGTCCACATGGATCTAGATTTCATTTCTGAGAGAGAA-ATCAGGAAGTTTCTTCTAACTGATTTTGCTACCTTTGGAGTAGAAGGAGATAGAGGAAACAAAGAATAACTTGAGTTCTGACAATGCAAGGAC
s panTro5.chr12              62709407 183 + 137163284 GA--ATATATAACTATAACgtgcgaggatgcactcagatgttaactctcaagcccagtccacatggatctagatttcatttctgagagagaa-atcaggaagtttcttctaactGATTTTGCTACCTTTGGAGTAGAAGGAGGTAGAGGAAACAAAGAATAACTTGAGTTCTGACAATGCAAGGAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60835999 183 + 135337776 GA--ATATATAACTATAATgtgcgaggatgcactcagatgttaactctcaagcccagtccacatggatctagatttcatttctgagagagaa-atcaggaagtttcttctaactGATTTTGCTACCTTTGGAGTAGAAGGAGGTAGAGGAAACAAAGAATAACTTGAGTTCTGACAATGCAAGGAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051357 183 -  32808036 GA--ATATATAACTATAACgtgcgaggatgcactcagatgttaactctcaagcccagtccacatggatctagatttcatttctgagagagaa-atcaggaagtttcttctaactGATTTTGCTACCTTTGGAGTAGAAGGAGGTAGAGGAAACAAAGAATAACTTGAGTTCTGACAATGCAAGGAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235126 183 +  34552619 GA--ATATATAACTATAACGTGTGAGGATTCACTCAGATGTTAACTCTCAAGCCCAGTCCACATGGATCTAGATTTCATTTCTGTGAGAGAA-ATCAGGAAGTTTCTTCTAACTGATTTTGCTACCTTTGGAGTAGAAGGAGGTAGAGGAAACAAAGAATAACTTGAGTTCTGACAATGCAAGGAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104550992 181 - 133663169 GA--ATACATAACTATAACGTGTGAGGATTCACTAAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTACAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950457 181 - 137757926 GA--ATACATAACTATAACGTGTGAGGATTCACTAAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTACAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328269 181 -   7948249 GA--ATACATAACTATAACGTGTGAGGATTCACTAAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTACAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221592 181 -  10730278 GA--ATATATAACTATAACGTGTGAGGATTCACTCAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTACAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720020 181 - 128539186 GA--ATATATAACTATAACGTACGAGGATTCACTCAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTAGAGAA-ATCAGGAAGTTTCTTCTCATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114788 181 +    435186 GA--ATATATAACTATAACGTGCGAGGATTCACTCAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTACAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAGTAGAGGAAAC--AGAGTAACTTGAGTTCTGCCAATGCAAGAAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503401 183 +   9309688 GAATATATATAACTATAACGTGTGAGGATTCACTCAGATGGTAACTCTCAAGCCCATTCCACATGGATCTAGACTTCATTTCTGTTAGAAAA-ATCAGGAAGTTTCTTCTAATTGATTTTGCTACCTTTGGAGTAGAAGGAAATAGAGGAAAC--CGAGTAACTTGAGTTCTGCCAATGCAAGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336719 179 -  29834108 GA--ATATA----TATAACACCTGAGGATTCACTCAGATGGTAACTCTCAAGCCCAGTCCCCATGGATCTAGATTTCATTTGTGTAAGAGAA-ATCAGGAAGTTTCTTCTAATTGATTTTACCACCTTTGGAGTGGAAGGAGGTAGAGGAAATAAAGAATAACTTGAGTTCTGACAACGCAAGGAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792169 183 -   1015025 GA--ATATATAACTATAACACGTGTGGATTCACTCAGATGGTAAGTCTCAAGCCCAGTCCACATGGATCTAGATTTCACTTGTGTAAGAGAA-ATTAGGAAGTTTCTTCTCATTGATTTTGATACCTTTGGAGTGGAAGGAGGAAGAGGAAATGAAGAGTAACTTGAGTTCTGACAATGCAAGGAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806111 183 -   2295209 GA--ATATATAACTATAACACGTGAAGATTCACTCAGATGGTAACTCTCAAGCCCAGTCCACATAGATCTAGATTTCATTTGTGTAAGAGCA-ATCAGGAAGTTTCTTCTAATTGATTTTACCACCTTTGGAGTGGAAGGAGGTAGAGGTAATAAAGAGTAACTTGAGTTCTGACAATGCAAGGAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2925055 184 +  31815103 GA--ATATATAATTGTAACGTGCCAGGATTAACTCAGATGGTGACTTCCAAGCCCAGACCACAAGGATCTAGATTTAATTTCTCTAAATGAAGATAAGGAAGTTTCTTCTAGTCAGTTTCTCCACCTTTGGAGTGAGAGGAGGTAGATGAAACAAAGAGTAGCATGAGTTCTGACAATGCAAAGAC
i micMur3.chr21             I 32 I 110
s proCoq1.NW_012140524v1      5021614 184 +  13104022 GA--GTATACAACTGTAACGTGCCAGGATTAACTCAGATGGTGACTTGCAAGCCCAGTCCACGTGGATCTATATTTTGTTTCTCTAAACAAAGATCAAGAAGTTTCTTCTAGTCAGTTTTTCCACCTTTGGAGTGAGAGGAGGTAGATGAAACAAAGAGTAGCATGAGTTCTGACAATGCAAGGAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513431 133 -  12054995 -------------------------GGAT---------TGGTGACTTTCAAGCCCAGACCACGTGGATCTAGATTTTGTTCCTCTAAACCAAGATCAAGACCTTT-TAAAAGTCAGTTTTGCCATCTTTG------------------GAAACAAAGAATGACATAAGTTCTGACAATGCAAGGAC
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2366231 710 - 149736546 I
e canFam3.chr27              19667851  22 +  45876710 I
e dasNov3.JH562883             875379  91 -   1687904 I

a score=1044754.000000
s hg38.chr12_GL383549v1_alt     14678 111 +    120804 AAACAGACTAAAT--TAATTAAAATAGATGCTTACAAAATCTAAAAGTACAAACCGTGCTTTTGAAAACTATTTGGCTTTTCTATGCAGGATGGACAA------------CATGTTCATATTGGA
s panTro5.chr12              62709590 111 + 137163284 AAACAGACTAAAT--TAATTAAAACAGATGCTTACAAAATCTAAAAGTACAAACTGTGCTTTTGAAAACTATTTGGCTTTTCTATGCAGGATGGACAG------------CATGTTCATATTGGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836182 111 + 135337776 AAACAGACTAAAT--TAATTAAAACAGATGCTTACAAAATCTAAAAGTACAAACTGTGCTTTTGAAAACTATTTGGCTTTTCTATGCAGGATGGACAA------------CATGTTCATATTGGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051540 111 -  32808036 AAACAGGCTAAAT--TAATTAAAACAGATGCTTACAAAATCTAAAAGTACAAACTGTGCTTTTGAAAACTATTTGGCTTTTCTATGCAGGATGGACAA------------CATGTTCATATTGGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235309 111 +  34552619 AAACAGACTAAAT--TAATTAAAACAGGTGCTTAAAAAATCTAAAAGTATAAACAGTGCTTTTGAAAACGATTTGGCTTTTCTATGCAGGATGGACAA------------CATGTTCATATTGGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551173 106 - 133663169 AAACAGACTAAAT--TAATTAAAACA---GCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACTATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950638 106 - 137757926 AAACAGACTAAAT--TAATTAAAACA---GCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACTATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328450 106 -   7948249 AAACAGACTAAAT--TAATTAAAACA---GCTCACAAAATCTAAAAGTGCAAAT--TGCTTTTGAAAACTATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221773 106 -  10730278 AAACAGACTAAAT--TAATTAAAACA---GCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACTATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720201 109 - 128539186 AAACAGACTAAAT--TAATCAAAACAGGTGCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACGATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       114969 106 +    435186 AAACAGACTAAAT--TAATTAAAACA---GCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACTATTTGGCATTTCCATGCAGGATGAACAG------------CATGTTCATATTGGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503584 109 +   9309688 AAACAGACTAAAT--TAATTAAAACAGGTGCTCACAAAATCTAAAAGTGCAAAC--TGCTTTTGAAAACTATTTGGCATTTCTATGTAGGATGAACAG------------CATGTTCATATTGGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11336898 111 -  29834108 AAATAGACTAAAT--TAATGAAAACAAATGCTTGCAAAATCTAAAAGTACAAATTGTGCTTTTGAAAAATATTTGGCATTTCTATGCAGGATGGACAA------------CATGCTCATATTGGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792352 111 -   1015025 AAATAGACTAAAT--TAAGTAAAACAAATGCTTACAAAATCTAAAAGTACAAATTGTGCTTTTGAAAAATATTTGGCATTTCTATGCAGGATGGACAA------------CATGCTCATATTGGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806294 111 -   2295209 AAATAGACTAAAT--TAATTAAAACAAGTGCTTACAAAATCTAAAAGTACAAATTGTGCTTTTGAAAACTATTTGGCATTTTTATGCAGGATGGACAA------------CATGCTCATATTGGA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5021798 110 +  13104022 ---------------TAAGAAAAACAGGTGCTTACAAAATCTAAAAGTAAAAATTGTGCTTTTGAAAAACGTTTGGCATTCCTGTGTGGGATGGACAGGAACTTGCATTTCATATTCCTATGGGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513564 124 -  12054995 AAATAGACTAAACTATAATTAAAATAAGTGCTTACAAAATAGAAAAGCAAAGATTGTGCTTTTGAAAGACGTTTGGCGTT-CTGTGTAGGATGGACAGGGACTTGCGTTTCATATTCAGACGACT
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925239 110 +  31815103 I
e canFam3.chr27              19667851  22 +  45876710 I
e dasNov3.JH562883             875379  91 -   1687904 I

a score=730216.000000
s hg38.chr12_GL383549v1_alt     14789 58 +    120804 CTATAATGTATGTTATTGAGCACCTAAAATATGCTATTGGCACTGCTAATTAATACTC
s panTro5.chr12              62709701 58 + 137163284 CTATAATGTATGTTATTGAGCACCTAAAATATGCTATTGGCACTGCTAATTAATACTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836293 58 + 135337776 CTATAATGTATGTTATTGAGCACCTAAAATATGCTATTGGCACTGCTAATTAATACTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051651 58 -  32808036 CTATAATGTATGTTATTGAGCACCTAAAATATGCTATTGGCACTGCTAATTAATACTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235420 58 +  34552619 CTATAATGTAAGTTATTCAGCACCTAAAATATGCTATTGGCACTGCTAATTAATACTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551279 58 - 133663169 CTATAATATATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950744 58 - 137757926 CTATAATGTATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328556 58 -   7948249 CTATAATGTATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221879 58 -  10730278 CTATAATGTATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720310 58 - 128539186 CTACAATGTATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115075 58 +    435186 CTATAATGTATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503693 53 +   9309688 CTA-----TATGTTATTGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337009 58 -  29834108 CTGTAAAGCATGTTATCGAGCACCTAAAATATGCAATTGGCACTGCTAATTAATACTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792463 58 -   1015025 CTGTAATGTATGTTATTGAGCACCTAAAATATGCAAATGGCACTGCTAATTAGTACTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806405 58 -   2295209 CTATAATGTATGTTATCGAGCACCTAAAATATGCAATTGGCACTGGTAATTAATACTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2925349 58 +  31815103 CTATAATGCATGTTATTGAGCAGCTAAAATGTGCAATTGGCACTGCTAATTAATACTC
i micMur3.chr21             I 110 I 378
s proCoq1.NW_012140524v1      5021908 58 +  13104022 CTATAATGCATGTTATCGAGCAGCTAAAATATGCAATTGACACTGGTAATTAATACTT
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4513688 58 -  12054995 CTATAATGCATGTTACTGAGCACCTATAATGTGCAATTGGCACTGCAGATTAATACTC
i otoGar3.GL873576          C 0 I 1
e mm10.chr6                   2366231 710 - 149736546 I
e canFam3.chr27              19667851 22 +  45876710 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=619956.000000
s hg38.chr12_GL383549v1_alt     14847 57 +    120804 ATGCAATAGGCACTTGCAGTGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
s panTro5.chr12              62709759 57 + 137163284 ATGCAATAGGCACTTGCACTGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836351 57 + 135337776 ATGCAATAGGCACTTGCACTGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051709 57 -  32808036 ATGCAATAGGCACTTGCAGTGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235478 57 +  34552619 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551337 57 - 133663169 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950802 57 - 137757926 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328614 57 -   7948249 ATGCAATAGGCACTTGCAATGATTTATGTATCCTCATCTTGCCTTCCTAAATTCCTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221937 57 -  10730278 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720368 57 - 128539186 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATTTTGCCTTCCTAAATTCCTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115133 57 +    435186 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503746 57 +   9309688 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGCCTTCCTAAATTCCTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337067 57 -  29834108 ATGCAACAGGAACTTGCAATGATTTGTGTATCCTCATCTTGTCTTCCTAAATTCCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792521 57 -   1015025 ATGCAATAGGCACTTGCAATTATTTGTGTATCCTCATCTTGTCTTCCTAAATCCCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806463 57 -   2295209 ATGCAATAGGCACTTGCAATGATTTGTGTATCCTCATCTTGTCTTCCTAAATCCCTC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5021967 57 +  13104022 CTGAAAGAGGCActtgaaatgctttgtgtgtgctcatcttgtcttcctaaattcctc
i proCoq1.NW_012140524v1    I 1 I 49
s otoGar3.GL873576            4513747 45 -  12054995 TTGCAAGAGGCACTTGCCA-----------TGCTCATTTT-TCTTCCCAAATTCATC
i otoGar3.GL873576          I 1 C 0
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851 22 +  45876710 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=428203.000000
s hg38.chr12_GL383549v1_alt     14904 59 +    120804 CAAAGCCAAAACTGCTTTATGTTTTTTCTGTAGTCCCTCTGCTCAAGAGTTGCTTTTCC
s panTro5.chr12              62709816 59 + 137163284 CAAAGTCAAAACTGCTTTATGTTTTTTCTGTAGTCCCTCTGCTCAAGAGTTGCTTCTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836408 59 + 135337776 CAAAGTCAAAACTGCTTTATGTTTTTTCTGTAGTCCCTCTGCTCAAGAGTTGCTTCTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051766 59 -  32808036 CAAAGCCAAAACTGCTTTATGTTTTTTCTGTAGTCCCTCTGCTCAAGAGCTGCTTCTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235535 59 +  34552619 CAAAGCCAAAACTGCTTTACTTTTTTTCCGTAGTCCCTCTGCTCAAGAGTTGCTTCTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551394 58 - 133663169 CAAAACCAAAACTGCCTTAGGTTTTT-CCATAGTCCTTCTGCTCAAGAGTTGCTTCTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950859 58 - 137757926 CAAAACCAAAACTGCCTTAGGTTTTT-CCATAGTCCTTCTGCTCAAGAGTTGCTTCTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328671 58 -   7948249 CAAAACCAAAACTGCCTTAGGTTTTT-CCATAGTCCTTCTGCTCAAGAGTTGCTTCTCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8221994 57 -  10730278 CAAAACCAAAACTGCCTTAGGTTTTT--CATAGTCCTTCTGCTCAAGAGTTGCTTCTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720425 58 - 128539186 CAAAACCAAAACTGCCTTAGGTTTTT-CCATAGTCCTTCTGCTCAAGAGTTGCTTCTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115190 58 +    435186 CAAAACCAAAACTGCCTTAGGTTTTT-CCATAGTCTTTCTGCTCAAGAGTTGCTTCTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503803 58 +   9309688 CAAAACCAAAACTGCTTTAGGTTTTT-CCGTAGTCCTTCTGCTCAAGAGTTACTTCTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337124 57 -  29834108 GAAGGCCACAACTGCTTTACCTTTTT-CTGTA-TCCCTCTGCTCAAGAGCTGTTTCTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       792578 57 -   1015025 GAAGGCCAAAACTGCTTTACCTTTTT-CTGTA-TCCCTCTGCTCAAGAGTTGTTTCTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1806520 57 -   2295209 GAAGGCCAAAACTGCTTTATCTTTTT-CTGTA-ACCCTCTGCTCAAGAGTTGTTTCTCT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4513792 26 -  12054995 AAAGACAAAGACTCCTTTACTTTTCT---------------------------------
i otoGar3.GL873576          C 0 I 24
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851 22 +  45876710 I
e proCoq1.NW_012140524v1      5022024 49 +  13104022 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=1059228.000000
s hg38.chr12_GL383549v1_alt     14963 127 +    120804 Aggcctggtgcagtggctcatgcctgtaatcccaacactttgagaggccaaggcgggtggatcatctgaggtcaggagttcaagaccagcctggccaacatggtgaaacccccatctctacta---------aaaa
s panTro5.chr12              62709875 136 + 137163284 Aggcctggtgcggtggctcatgcctgtaatcccaacactttgagaggccaaggcgggtggatcatctgaggtcaggagttcaagaccagcctggccaacatggtgaaacccccatctctactaaaaatatttaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836467 133 + 135337776 Aggcctggtgcggtggctcatgcctgtaatcccaacactttgagaggccaaggcgggtggatcatctgaggtcaggagttcaagaccagcctggccaacatggtgaaacccccatctctactaaaaatattt---a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051825 135 -  32808036 Aggcctggtgcagtggctcatgcctgtaatcccaacactttgagaggccaaggcgggtggatcatctgaggtcaggagttcaagaccagcctggctaacatggtgaaacccccatctctactaaaaatatat-ata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235594 136 +  34552619 Agacctggtgcagtggctcatgcctgtaatcccaacactttgagaggccaaggcaggtggatcatctgaggtcaagagttcaagaccagcctggccaacatggtgaaaccctcatctctactaaaaatacaaaaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551452 135 - 133663169 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcgagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108950917 135 - 137757926 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcgagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328729 135 -   7948249 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcgagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222051 135 -  10730278 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcgagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720483 135 - 128539186 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcaagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaattacaa-aaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115248 135 +    435186 Aggcctggtgtggtggcttatgcctgtaatcccaacacttcgagaggccaaggcaggtggatcatctgagatcaggagttcaagactagtctggccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503861 135 +   9309688 Aggcctggtgcagtggcttatgcctgtaatcccaacacttcgagaggccaagacaggaggatcatctgagatctggagttcaagaccagtctagccaacatggtgaaacccccatctctactaaaaatacaa-aaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337181 126 -  29834108 ATgcctggtgtggcagttcatacctgtaatcccagcacgttgagaggctgaggcagggggatcacttgaggtcaggagttcaagaccagcctggactacatggtgaaaccg-cgtgtctactaagaa---------
i saiBol1.JH378123          C 0 I 18
s cebCap1.NW_016107911v1       792635 125 -   1015025 ATGCCT-gtgtggtggttcatgcctataatcccagcactttgagaggctgagacgggtggatcacctgaggtcaggagttcaagaccagcctggactacatggtgaaaccc-catctctactaaaaa---------
i cebCap1.NW_016107911v1    C 0 I 284
s aotNan1.NW_018488218v1      1806577 126 -   2295209 ATgcctggtgcggtggttcatgcctgtaatctcagcactttgggaggtcgaggcgggtggatcacctgaggtcaggagttcaagaccagcctggactacatggtgaaaccc-tgtctctactaaaaa---------
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4513818  24 -  12054995 I
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851  22 +  45876710 I
e proCoq1.NW_012140524v1      5022024  49 +  13104022 I
e dasNov3.JH562883             875379  91 -   1687904 I

a score=57141.000000
s hg38.chr12_GL383549v1_alt     15090 10 +    120804 aaaaaaaaaa
s panTro5.chr12              62710011 10 + 137163284 aaaaaaaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836600 10 + 135337776 aaaaaaaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051960 10 -  32808036 aaaaaaaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235730 10 +  34552619 aaaaaaaaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551587 10 - 133663169 taaaaataaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951052 10 - 137757926 taaaaataaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328864 10 -   7948249 taaaaataaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222186 10 -  10730278 taaaaataaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720618 10 - 128539186 taaaaataaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115383 10 +    435186 taaaaataaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3503996 10 +   9309688 taaaaataaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337325 10 -  29834108 aacaaaaaaa
i saiBol1.JH378123          I 18 C 0
s aotNan1.NW_018488218v1      1806703 10 -   2295209 tacaaaaaaa
i aotNan1.NW_018488218v1    C 0 I 319
e otoGar3.GL873576            4513818 24 -  12054995 I
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851 22 +  45876710 I
e proCoq1.NW_012140524v1      5022024 49 +  13104022 I
e dasNov3.JH562883             875379 91 -   1687904 I
e cebCap1.NW_016107911v1       792760 284 -   1015025 I

a score=904577.000000
s hg38.chr12_GL383549v1_alt     15100 163 +    120804 --tagccacacatgatggcgagtgcctgtaatcccagctacttgggaggctgaggcaggagaactgcttgaacccaggaggcggaggttacaatgagctgagatcatgccactgcactccagtctgggcaacagagcaagactccgtctc-----aaaaaaaaaaaaaaa-------------------------------------------
s panTro5.chr12              62710021 161 + 137163284 --tagccacacatgatggcgagtgcctgtaaacccagctacttgggaggctgaggcaggagaactgcttgaacccaggaggcggaggttacaatgagctgagatcacgccactgcactccagtctgggcaacagagcaagactccatctc-------aaaaaaaaaaaaa-------------------------------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836610 159 + 135337776 --tagccacacatgatggcgagtgcctgtaaacccagctacttgggaggctgaggcaggagaactgcttgaacccaggaggcggaggttacaatgagctgagatcacgccactgcactccagtctgggcaacagagcaagactccatctc---------aaaaaaaaaaa-------------------------------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3051970 168 -  32808036 --tagccacacatgatggtgagtgcctgtaatcccagctacttgggaggctgaggcaggagaattgcttgaacccaggaggcagaggttacaatgagctgagatcacgccactgcactccagtctgggcaatagagcaagactccgtctcaaaaaaaaaaaaaaaaaaaa-------------------------------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235740 159 +  34552619 --tagccacacatgatggccagggcctgtaatcccagctacttgggaggctgaggcaggagaattgcttgaacccaggaggcggaggttacagtgagctgagatcacgccactgcactccagcctgggcaacagagcaagactctgtctc---------aaaaaaataaa-------------------------------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551597 152 - 133663169 --tagccacacatgatggtgggcgcc-gtaatcccagctact-ggcagactgaggcaggagaattgcttgaacccaggaggcggaggttacaatgagctgagatcacgcctctgcactccagcccaggcaacagagcaagactctgtctc-------------aaaaag--------------------------------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951062 153 - 137757926 --tagccacacatgatggtgggcgcc-gtaatcccagctactcagcagactgaggcaggagaattgcttgaacccaggaggcggaggttacaatgagctgagatcacgcctctgcactccagcccaggcaacagagcaagactctgtctc-------------aaaaag--------------------------------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1328874 153 -   7948249 --tagccacacatgatggtgggcgcc-gtaatcccagctactcggcagactgaggcaggagaattgcttgaacccaggaggcggaggttacaatgagctgagatcacgcctctgcactccagcccaggcaacagagcaagactctgtctc-------------aaaaag--------------------------------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222196 154 -  10730278 --tagccacacatgatggtgggcgcc-gtaatcccagctactcggcaggctgagataggagaattgctcgaacccaggaggcggaggttacaatgagctgagatcatgcctctgcactccagcccgggcaacagagcaagactctgtctc-------------aaaaaga-------------------------------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720628 155 - 128539186 --tagccacacatgatggtggccgcctgtaatcccagctactcggcaggctgaggcaggagaattgctcgaacccaggaggcggaggttacaatgagctgagatcatgcctctgcactccagcccgggcaacagagcaagactctgtctc-------------aaaaaga-------------------------------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115393 154 +    435186 --tagccacacatgatggtgggcgcc-gtaatcccagctactcggcaggctgagataggagaattgctcgaacccaggaggcggaggttacaatgagctgagatcatgcctctgcactccagcccgggcaacagagcaagactctgtctc-------------aaaaaga-------------------------------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504006 155 +   9309688 --tagccatacatgatggtgggcacctgtaatcccagctactgggcaggctgaggcaggagaattgcttgaacccaggaggcggaggttacaatgagctgagatcatgcctctgcactccagcctgggcaacagagcaagactctgtctc-------------aaaaaga-------------------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337335 200 -  29834108 ctgagctgtgcatgatggcagatgcctgtaatcccagcttctcgggaggctgaggtgagagaatcgcttgaacctgggaggcagaggttgcaatgagccaagatcgcaccactgcactatagcctgggtgacaaagtgagactcAGAATG-------------Agaaagagggagggaaggaaggaaggaagcaaggaaggaaggaaggaagg
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4513818  24 -  12054995 I
e mm10.chr6                   2366231 710 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851  22 +  45876710 I
e proCoq1.NW_012140524v1      5022024  49 +  13104022 I
e aotNan1.NW_018488218v1      1806713 319 -   2295209 I
e dasNov3.JH562883             875379  91 -   1687904 I
e cebCap1.NW_016107911v1       792760 284 -   1015025 I

a score=16931.000000
s hg38.chr12_GL383549v1_alt     15263 2 +    120804 aa
s panTro5.chr12              62710182 2 + 137163284 aa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836769 2 + 135337776 aa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052138 2 -  32808036 aa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235899 2 +  34552619 aa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551749 2 - 133663169 aa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951215 2 - 137757926 aa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329027 2 -   7948249 aa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222350 2 -  10730278 aa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720783 2 - 128539186 aa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115547 2 +    435186 aa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504161 2 +   9309688 aa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337535 2 -  29834108 aT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793044 2 -   1015025 aa
i cebCap1.NW_016107911v1    I 284 C 0
s aotNan1.NW_018488218v1      1807032 2 -   2295209 aa
i aotNan1.NW_018488218v1    I 319 C 0
s mm10.chr6                   2366941 2 - 149736546 AG
i mm10.chr6                 I 710 C 0
e otoGar3.GL873576            4513818 24 -  12054995 I
e micMur3.chr21               2925407 378 +  31815103 I
e canFam3.chr27              19667851 22 +  45876710 I
e proCoq1.NW_012140524v1      5022024 49 +  13104022 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=43056.000000
s hg38.chr12_GL383549v1_alt     15265 4 +    120804 GAGT
s panTro5.chr12              62710184 4 + 137163284 GAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836771 4 + 135337776 GAGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052140 4 -  32808036 GAGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235901 4 +  34552619 GAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551751 4 - 133663169 GAGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951217 4 - 137757926 GAGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329029 4 -   7948249 GAGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222352 4 -  10730278 GAGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720785 4 - 128539186 GAGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115549 4 +    435186 GAGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504163 4 +   9309688 GAGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337537 4 -  29834108 GGGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793046 4 -   1015025 gAGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807034 4 -   2295209 ggGT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2366943 4 - 149736546 GAGC
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19667873 4 +  45876710 GAGA
i canFam3.chr27             I 22 C 0
e otoGar3.GL873576            4513818 24 -  12054995 I
e micMur3.chr21               2925407 378 +  31815103 I
e proCoq1.NW_012140524v1      5022024 49 +  13104022 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=12376.000000
s hg38.chr12_GL383549v1_alt     15269 1 +    120804 T
s panTro5.chr12              62710188 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836775 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052144 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235905 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551755 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951221 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329033 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222356 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720789 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115553 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504167 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337541 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793050 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807038 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5022073 1 +  13104022 T
i proCoq1.NW_012140524v1    I 49 C 0
s canFam3.chr27              19667877 1 +  45876710 T
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4513818 24 -  12054995 I
e mm10.chr6                   2366947 1 - 149736546 I
e micMur3.chr21               2925407 378 +  31815103 I
e dasNov3.JH562883             875379 91 -   1687904 I

a score=2767880.000000
s hg38.chr12_GL383549v1_alt     15270 262 +    120804 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATACTCCTGGGAACATTCTATTTGTATTGTAGTGCCTGCCAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTGGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-gcctgctcctatgagctctgcagatcagactgtgacacgtc----------tctacattcaatcacctcatcttcatagtttgaaattggctatggtggga
s panTro5.chr12              62710189 262 + 137163284 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCCTGGGAACATTCTATTTGTATTGTAGTGCCTGCTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTGGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-gcctgctcctatgagctctgcagatcagactgtgacacatc----------tctacattcaatcacctcatcttcacagtttgaaattggctatggtggga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60836776 262 + 135337776 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCCTGGGAACATTCTATTTGTATTGTAGTGCCTGCTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTGGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-gcctgctcctatgagctctgcagatcagactgtgacacatc----------tctacattcaatcacctcatcttcacagtttgaaattggctatggtggga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052145 262 -  32808036 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCCTGGGAACATTCTATTTGTATTGTAGTGCCTGCTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-gcctgctcctatgagctctgcagatcagattgtgacacatc----------tctacattcaatcacctcatcttcatagtttgaaattggctatggtggga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7235906 262 +  34552619 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCCTGGGAACATTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACCCAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtggtgtgtgag-gcctgctcctatgagctctgcagagcagattgtgacacatc----------tctacattcaatcacctcatcttcatagtttgaaattggttatggtggga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104551756 267 - 133663169 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctag-g-ctgctcctgtgagctctgcagagcagattgtgatagatt----cccaagtctacattcaatcgcctcatcttcatagtttgaaactggccatggtggga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951222 267 - 137757926 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagagcagattgtgatagatt----cccaagtctacattcaatcgcctcatcttcatagtttgaaactggccatggtggga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329034 267 -   7948249 GCTTCTCTAAACTTGCACAAGACATCCTTACTCACATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagagcagattgtgatagatt----cccaagtctacattcaatcgcctcatcttcatagtttgaaactggccatggtggga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222357 267 -  10730278 GCTTCTCTAAACTTGCACAAGACATCCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCTTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagaacagattgtgacagatt----cccaagtctacattcaatcgcctcatcttcatagtttgaaactggccatggtggga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100720790 266 - 128539186 GCTTCTCTAAATTT-CACAAGACATTCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagagcagattgtgacagatt----cccaagactacattcaatcacctcatcttcatagtttgaaactggccatggtgaga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115554 265 +    435186 GCTTCTCTAAACTTGTACAAGACATCCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCTTGTTAAAGTGTCCAGAACAACCCAAG--ACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagaacagattgtgacagatt----cccaagtctacattcaatcgcctcatcttcatagtttgaaactggccatggtggga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504168 267 +   9309688 GCTTCTCTAACCTTGCACAAGACATCCTTACTCATATAGTCTTGGGCACACTCTATTTGTATTGTAGTGCCTGTTAAAGTGTCCAGAACAACCCAAGACACAGAGAAGGCACTTGAA--ATGTGTTTGTATCTGGAACGTGATTGGCTGACTTGGGAGCcagtggtgtgctgg-g-ctgctcctgtgagctctgcagagcagactgtgacagatt----cccaagtctacattcaatcacctcatcttcatagtttgaaactgaccatggtggga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337542 252 -  29834108 GCTTCTCTAAACTTGCATGGAACATTCTTACTCATATAGTCTTGGGCATATTCTA-TTGTATT-TAGTGCCTGTTAAAGGGTCCAGATCAACCCAGGACACAGAGAAGACACTTGAA--ATGTGTTTGTGTCTGAAATGTGATTGGTTGACTTGGGAGCcagtgatgtgctgg-gcctgctcctatgagctctgcagagcagattgtgacatatctcttcctaagcctacattca--------------atagaccgaaattggccatgat----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793051 267 -   1015025 GCTTCT-TAAACTTGCATGGAACATTCTTACTCATATAGTCCTGGGCACATTCTATTTGTATTGTAGTGCCTGTTAAAGGATCCAGAACAACCCAAGACACACAGAAGGCACTTGAA--GTGTGTTTGTATCTGGAATGTGATTGGCTGACTTGGGAGCcagtgatgtgctgg-gcctgctcctatgagctctgcagagcagattgtgacacatctcttcctaagtctacattcaatgacctcctcttcatagattgaaattggccatgat----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807039 268 -   2295209 GCTTCTCTAAACTTGCATGAAACATTCTTACTCATATAGTCCTGGGCACATTCTATTTGTATTGTAGTGCCTGTTAAAGGGTCCAGAACAACCCAAGACACAGAGAAGGCCCTTGAA--ATGTGTTTGAATCTGGAATGTGATTGGCTGACTTGGGAGCcagtgatgtgctgg-gcctgctcctatgagctctgcagagcagattgtgacacacctctttccaagtcgacattcaatgacctcatcttcacagactgaaattggccatgat----
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5022074 273 +  13104022 GCTTCTCTGACCTTGCACAAGACAGCCTTATTCATAGAGTCCTGGCCCCATTCTACTCAGATTGCAGCCCCTGTTGAGGTGTCCAGCACAACACAACACACAAAGTAGGCATTTGAAACACGTGTTTGTATCTGGAATGTGATTGGTTGACTTATGAGTcagtagggtgctgg-gcctgcacgtatgagctctgcagagcagattgtg-cacatgtgttcccagctctatgttcagtgatctcatcttggtagcttgaaatcggccatggtggga
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4513842 265 -  12054995 GCTTCTCAGACCTTGCACAGGACACACTTATTCAT--AGTCCTAGCCTCATTCTACTTGGACTGTACCTCCTGTTGGGATATCCAGCACGACATGAGACACAAAATGTGCACTCGAAACATGTGCTTGTGTCTGGAATGTGAATGGTTGACTTAGGAGTCATTAGggtgccag-gcctgcac-----cagtctgt-gaacaaactgtc-cacaacttttcccaactctatgttctgtgatctcatcttggtaacttgaaattggccatggtggga
i otoGar3.GL873576          I 24 C 0
s mm10.chr6                   2366948 233 - 149736546 GCTTCTATGAACTTTCTCAAGGTGTTCTTGCCCAT--CATTATGGGCACACATTG------TTGTAACACCTACAGAAGGGCACAGCACCACACATGACATGGAGTAGACACCTGGT-------TTTGCGTCTGGAATG----AGGCTAAGTTGGAAGC---TCATGTGCTGACGCCTTCTTGGAGGAGCACCAAAGACTAGACTC---CTCTTT----------------TCCCATGACCTCTCCTTGTAAGGTGGACATTGGCCAGGGTGGA-
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19667878 233 +  45876710 ACATCTCTGACCTTGCACAAGACCTTCTTACTCTTATAGTCCTGGATACATTCTAC-----TTGTAGTCCCTGTC---------------------TACACACAGTAGACAC-------TCATGTTTGTACCTGAAATGTGG-----TGACTCATGAGCcagtggtgcactggagtttgctcagatgtgccatg-aatccagattgta-cacatctcttcccaagtctatgtgcagtgaccttactttggtagcttgagatagtccatggtgg--
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2925407 378 +  31815103 I
e dasNov3.JH562883             875379  91 -   1687904 I

a score=794085.000000
s hg38.chr12_GL383549v1_alt     15532 60 +    120804 gggagcatttatac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
s panTro5.chr12              62710451 60 + 137163284 gggagcatttatac-cacagaaattgt-ccaacTGGTTTTAAGCATTCTGAATATAAGCAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837038 60 + 135337776 gggagcatttatac-cacagaaattgt-ccaacTGGTTTTAAGCATTCTGAATATAAGCAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052407 60 -  32808036 gggagcatttatac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7236168 60 +  34552619 gggagcgtttacac-cacagaaattgT-CTAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552023 60 - 133663169 gggagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951489 60 - 137757926 gggagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329301 60 -   7948249 gggagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222624 60 -  10730278 gggagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCAGAATATAAGCAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721056 60 - 128539186 gggagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115819 60 +    435186 gggagcatttacac-cacagaaattgT-CCAATTGGTTGTAAGCATTCTGAATATTAGCAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504435 60 +   9309688 ggaagcatttacac-cacagaaattgT-CCAATTGGTTTTAAGCATTCTGAATATAAGCAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337794 60 -  29834108 gggagcatttacac-cacagaaattgT-CCAATTGATTTTAAGCATTCTAAATATAAGTAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793318 60 -   1015025 gggagcatttacac-cacagaaattgT-CCAATTGATTTTAAGCATTCTTAATATAAGCAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807307 60 -   2295209 gggagcatttacac-cacagaaattgT-CCAGTTGATTTTAAGCATTCTTAATATAAGCAAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2925785 60 +  31815103 gggagcatttacac-cacaggaattgt-ccaacTGATTTTAAGTGTTCTGAATATAAGCACT
i micMur3.chr21             I 378 C 0
s proCoq1.NW_012140524v1      5022347 56 +  13104022 ----gcatttacac-cacagaaattgt-ccaacTGATTTTAAGTGTTCTGAATGTAAGCACT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4514107 57 -  12054995 ----gcacttacac-cgcagaaattgTCCCAACTGACTTTAAGCCTTCTGAATATAAGTGTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2367181 54 - 149736546 -----CATACTCACGCACAGAAACTGT---AGCATGTTGAAGACACTCAGAATAGAGACATT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19668111 41 +  45876710 --------------------aaACCAT-CCAGTTGATTTTAAGCATTCTGAGTATAAGCACT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             875379 91 -   1687904 I

a score=4762534.000000
s hg38.chr12_GL383549v1_alt     15592 343 +    120804 CTGTCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGTCAAGAATTTCATGTGAGAATTGTACTTTGAGTAACTA----CATTTATCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC------AGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGATGCTAAAATTTTCTTTGTTTAATGACCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
s panTro5.chr12              62710511 343 + 137163284 CTGTCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----CATTTATCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATAACTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC------AGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATACTCAGTAAAGATGCTAAAATTTTCTTTGTTTCATGACCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837098 343 + 135337776 CTGTCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----CATTTATCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATAACTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC------AGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATACTCAGTAAAGATGCTAAAATTTTCTTTGTTTCATGACCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052467 343 -  32808036 CTGCCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGTCAAGATTTTCATGTGAGAATTGTACTTTGAGTAACTA----CATTTATCTTTTCAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC------AGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGATGCTAAAATTTTCTTTGTTTAATGACCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7236228 343 +  34552619 CTGTCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTAAGTAACTA----TATTCATATTTTCAAAAATTCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC------AGTTCTTTGCTTAGTTTACATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATTAGTAAAGATGATAAAATTTTCTTTGTTTAATGATCAGGAAATTAAATTGTCGAGTTTGTAAAGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552083 347 - 133663169 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTGTCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-CTTTGTACATACCTTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTAGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951549 347 - 137757926 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTGTCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-CTTTGTACATACCTTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAATTTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329361 347 -   7948249 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTGTCTTTTAAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-CTTTGTACATACCTTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8222684 347 -  10730278 TTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTGTCTTTTCAAAAAATCATTTTTAGTTT-TTGAAGAAAAGGAATTA-CTTTGTACATACATTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i cerAty1.NW_011999477v1    C 0 I 7219
s chlSab2.chr11             100721116 346 - 128539186 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTATCTTTTCAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TA-TT-TTCCCAACATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       115879 346 +    435186 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTGTCTTTTCAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATGTCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAGTTAC-AAAGA-AAAATGTGCTGTTC-TA-TT-TTCCCAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504495 347 +   9309688 CTGTCTTCAA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTA-TTTTGAATTTAGCAGTCAAGACTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTTATCTTTTCAAAAAATCATTTTTAGTTT-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATCATTTTAGACAATCATTTTCAAATAAGAC--AATTAGTTCTTTGCTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAATGTGCTGTTC-TATTT-TTCCAAAAATTGTTATTAA---ATAATCAGTAAAGACACTAAAATTTTCTTTGTTTAAAGATCAGGAAATTAAATTGTCTAGTTTGTAAAGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11337854 349 -  29834108 CCGTCTTCCA--TT--TCTTTTATTCCATCTAGGTTTTAAGCTG-TTTTAAGTTTAGCAGTCAAGACTTTCATGTGAGAATTACACTTTGAGTAACTAACTATATTTATTTTTTCAAAAAATCATTTTTAGCTC-TTGAAGAACAGCAATTA-TTTTGTACATACGTTTTTATATAATTTTAGACAATCATTTCCAAATAAGCC--AATT-TTTTTTTACTTAGTTTATATAAGTAGTAATTAC-AAAGA-AAAAAGAGCTGTTC-TGTTTCTTGCCAAAACCGTTATTAA---ACAATTAGTAAAGACTCTAAAATTTGCTTTGTTTAATAATCAGGAAATCAAATTGTCTAGTTTGTGAAGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793378 343 -   1015025 CCGTCTTCCA--TTTCTCTTTTATTCTATCTAGCTTTTAAGCTG-TTTTAAGTTTAGCAGTCAAGACTTTCATGTGAGAATTGCACTTTGAGTAACTA--------TATCTTTTCAAAAAATCATTTTTAGCTC-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATAATTTTAGACAATCATTTTCAAATAAGAC--AACTATTTCTTTGCTTAGTTTATATAAGTAATAATTAC-GAAGA-AAAAAGAACTGTTC-GGTTT-TTGCCAAAATTGTTATTAA---ATAACTAGTAAAAGCTCTAAAATTTGCTTTGTTTAATAATCAGGAAATCAAATTGTCTGGTTTGTAAAGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807367 348 -   2295209 CTGTCTTCCA--TTTCTCTTTTATTCCATCTAGCTTTTAAGCTG-TTTTAAGTTTAGCAGTCAAGACTTTCATGTGAGAATTGCACTTTGAGTAACCA----TATTTATCTTTTCAAAAAATCATTTTTAGCTC-TTGAAGAAAAGCAATTA-TTTTGTACATACCTTTTTATATAATTTTAGACAATCATTTTTAAATAAGAC--AATTATTTCTTTGCTTAGTTTATATAAGCAGTAATTAC-AAAGA-AAAATGAGCTGTTC-TGTTTTTTGCCAAAATTGTTATTAA---ATAATTAGTAAAGACTCTAAAATTTGCTTTGTTTAATAATCAGGAAATCAAATTGTCTACTTTGTAGAGTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2925845 351 +  31815103 CTATCTTCTA--TTTCTTTTTCATTCCATCTAGCTTTTAAGCTG-TTTTAAATTTAGCAGCTAAGACTTTCCTATGAGAACTGCACTTTGAATAACTA----TATTTATCTTCTCAAAAAGTCATTTTTAATTTATCGAAGAAAAGCAATTATTTTTGTACATAACTTTTTATATCATGTTGGATAATCATTTTCAGATAAGAC--AATTATTCCTTTACTTAGTTTATATAAATAGTAGTTACTAAAGG-AAAAAGAGCTACTCTTATTT-TTGCCAAAATTGTTATTAA---ATAATTAGTAAAGGCTCTAAAATCTGCTTTGTTCAATGATCAGGAAATTAAATTGTCTAGTTTGTAAAATT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5022403 350 +  13104022 CTATCTTCTA--TTTCTTTTTTATTCCATCTAGCTTTTAAGCTG-TTTTGAATTTAGCAGCGAAGACTTTCCTATGAGAATTGCACTTTGAATAACTA----TATTTGTCTTTTCAAAAAGTCATTTTTAATTTATTGAAGAAAAGCAATTA-TTTTGTACATAATTTTTTATATCATTTTGGATAATCATTTTCAGATAAGAC--AATTATTCCTTTACTTAGTTTATATACATAATAGTTACTAAAGG-AAAAAGAACTATTCTTATTT-TTGCCAAAATTGTTATTAC---ATAATTAGTAAAGGCTCTAAAATCTGCTTTGTTTAATGATCAGGAAATTAAATTGTCTGGTTTGTAAAATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4514164 344 -  12054995 CTGTCTTCTGTTTTTCTTTTTCACACCATCTAG--TTTAAGCTG-TTTCAAATTTAGCAGCTAAGACTTTCATACGAGAATTGCACTTTGAATGACTA----TATTTATCTTCTCAAAAAGTCA-TTTTAATTTATTGAAGAAAAGCAATTA-TTTTGTACATAACTTCTCATATCAT-TTGGACCATCACTTTCAGATAAGAC--AGTGATAA---GATTTAGTTTATGTAAAGAATAGTTACTAAAGG-GAAAAGGGTAATTCTTATTT-TTGCCaaaattattattaa---ataattaGTAAAGACTCTAAAATGTGCTTTGTTTAATGATCA-GAAATTAAATTGTCTAGTTTGTAAAATT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2367235 284 - 149736546 GTG-----CA--TTTTCTTTCCA---CAGTTACCTTATAAACTATTTTTTAACTTAGCAGATATGACT-------------TAAACATAGAATTAATA----CGTTTCT------AAAGAAATATGATTAAATT----------------TA-CTTT---CATAATTTTGTATG----------CAACCAGTCTCAA-----------TTATTCTTTTACTTAGTTTGTATAAACAGCAAGGAT-GAAGAGAAAAACTGCAGTTC-CACTT-TAGTCAGAAGTATTATTAAATGATAATTAATAATGACTTTAAAATGTAGTT--TTTAATGACCAGGAAATTAAATTGTC--ATGTGTAAAATT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19668152 341 +  45876710 TTGTTTTCTC--CTTCCTTTTTATTCCATTTAGTGTATAAGCTG-TTTTATATTTAGCAG-CAAGTCTTTCATGTGAGAATTGTACTTTGAGTAACTA----TATTCATCtttt--aaaaattatttttaattt-attaaaGAAAGTAATTA-TTCTGGACATGTCTTTTTATATTATTTTGGAC-ATTATTTTTGG--AAGAG--AATTATTCCTTTGCTTGGTTTATATAATGAGTAGTTATCAAAAG-AAAAAATGGTATTT-TAATT-TTGCCAAAAGTATTATTAA---ACAATTAGTAAAGACTCTAAAATTTCCTTTTTTTAATGACCAGGAAATTAAATTGT-TGGTTTGTAAAATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             875470 328 -   1687904 CTGTCTTCTG--TTT---TTTAATTTGGTCTAGCTTATAAGGTG-TTTTCTCTTTAACAGGTAATCCTTCCA-GTAAGAATTGCACTATGAATAACAA----TAGTCATCTTTTTAAAAAACCGTTTTTAATTT---GAAGAAAAGCAACTG-TTTTGTACACGTTTTTTAATACCATTTTGGGCAATCCTTTTCAGAGAGGGCATAATTATTCCTTTACTCAGTTATT----------------AAAGG-AAGAAATGCTATTC-TATGT-TTGCCTAAAGTATTATTAA---GCAATTAGTAAAGGCTCTAAAATTTGCTTTATTTAATGACCAGGAAATTAAATTGTCTAGTTGGTAAAATT
i dasNov3.JH562883          I 91 C 0

a score=4516658.000000
s hg38.chr12_GL383549v1_alt     15935 311 +    120804 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTG-GTGTTTTTGGAAA--TTATCTTACTATCTGACGAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGCCTTTGTAATATTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTACGGTATTTTGAAATTAAATTAGTTGTTTAAC-AAAGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtccttaggaacagaaaatgtggggct-aactgccagaattctagtcccaga
s panTro5.chr12              62710854 311 + 137163284 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTG-GTGTTTTTGGAAA--TTATCTTACTATCTCATGAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGCCTTTGTAATATTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTACGGTATTTTGAAATTAAATTAGTTGTTTAAC-AAAGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtccttaggaacagaaaatgtggggct-aactgccagaattctagtcccaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837441 311 + 135337776 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTG-GTGTTTTTGGAAA--TTATCTTACTATCTCATGAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGCCTTTGTAATATTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTACGGTATTTTGAAATTAAATTAGTTGTTTAAC-AAAGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtccttaggaacagaaaatgtggggct-aactgccagaattctagtcccaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3052810 311 -  32808036 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTG-GTGTTTTTGGAAA--TTATCTTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGCCTTTGTAATATTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTACGGTATTTTGAAATTAAATTAGTTGTTTAAC-AAAGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtccttaggaacagaaaatgtggggct-aactgccagaattctagtcccaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7236571 309 +  34552619 GGAAAATAA--C--TGTG--TTAGAAAGTTAATTCCATTGCATTAAAATTA-GTGTTTTTGGAAA--TTATCTTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATATTAAAATATGAACATTCA-TTTTCCAGAACATGGATAGGAGAGACTACGGTATTTTGAAATTAAATTAGTTGTTTAAC-AAAGAGAATAAAACCCCATATCCTTTAGAAAGGcagtagagtgctgtccttaggaacagaaaatatggggct-aactgccagaattcttgtcccaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552430 311 - 133663169 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GGGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAATTTAAAGTAGCGGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggcc-aactgccagaattctagtcccaga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108951896 311 - 137757926 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GGGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAAATTAAAGTAGCGGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggcc-aactgccagaattctagtcccaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1329708 311 -   7948249 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GGGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAAATTAAAGTAGCGGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggcc-aactgccagaattctagtcccaga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230250 311 -  10730278 agaaaataa--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GGGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAAATTAAAGTAGCTGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggct-aactgccagaattctagtcccaga
i cerAty1.NW_011999477v1    I 7219 C 0
s chlSab2.chr11             100721462 311 - 128539186 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCAGTGCATTAAAATTA-GTGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTACTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAAATTAAAGTAGCGGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggct-aactgccagaattctagtcccaga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116225 311 +    435186 AGAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GGGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGACGGTATTTTGAAATTAAAGTAGCGGTTTAAC-AAGGAGAATAATACCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggcc-aactgccagaattctagtcccaga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3504842 311 +   9309688 AAAAAATAA--C--TGTGTATTAGAAAGTTAATTCCATTGCATTAAAATTA-GTGTTTTTGGAAA--TTATATTACTATCTGACAAAATAATTGCTATTTTAGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATACGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACGATGGTATTTTGAAATTAAATTAGCTGTTTAAC-AAGGAGAATAATATCCCATATCCTTTGGAAAGGcagtagagtgctgtgcttaggaacagaaaatatggggct-aactgtcggaattctagtcccaga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338203 311 -  29834108 AGAAAATAA--C--TGTGTGTTAGAAAGTTATTTCCATTGCATTAAAATTC-CTGTTTTTGGAAA--CTATATTGCTACCTGACAAAATAATCACTATTTTGGCCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTAATTTTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTATGGCATTTTGAAATTAAATTAACTTTTTAAC-AAGGAGAATAATACCCCATAACCTTTAGAAAGAAagtaaagtgctgtgcgtagtaacagaaaatctggggct-aattgccaggattctagtcccaga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       793721 311 -   1015025 AGAAAATAA--C--TGTGTGTTGGAAAGTTAATTCCATTGAATTAAAATTC-GTGTTTTTGGAAA--CTATATTGCTACCTGAGAAAATAATCACTATTTTGGCCAAATGTATAACAC-TTTCTGACTAAAATGGGCTTTGTAATTTTAAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTATGGCATTTTGAAATTAAATTAACTTTTTAAC-AAGGAGAATAATACCCCATACCCTTTGGAAAGGcagtaaagtgctgtgcttagtaacagaaaatctggggct-aattgccagaattctagtcccaga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1807715 311 -   2295209 AGAAAATAA--C--TGTGTGTTAGAAAGTTAATTCCATTGCATTAAAATTC-GTGTTTTTGGAAA--CTATATTGCTACCTGACAAAATAATCACTATTTTGGCCAAATGCATGACTC-TTTCTGTCTAAAATGAGCTTTGTAGTTTTAAAATATGAACATTCA-TTTTCCAGAACATGCACTGGAGAGACTATGGCAGTTTGAAATTAAATTAACTGTTTAAC-AAGGAGAATAATACCCCATACCCTTTGGAAAGGcagtaaagtgctgtacttagtaacagaatatctggggct-aattgccagaattctagtcccaga
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2926196 306 +  31815103 AGAAAGTAA--A--TGTGTACTAGAAAGTTAATTCCATTGCATTAA------GTTTTTTTGGAAG--TTATATTGCTATCTGACAAAATAATTGCTATTTTAACCAAATGCATAACAC-TTTCTGTCTAAAAGGGGCTTTGTGATTTTTAAATATGAACATTCGTTTTTCTAGAACATGCATTGGAGAGACTATGGTCTTTTGAAATTAAATTAACTGTTTAAC-AAAGAGAATGATGCCCAGTACTCTTTG-AAAGGcagtagagagctgtgcttaggagcagagaatctggggga-aattgccagacttctagccccaga
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5022753 309 +  13104022 AGAAGGTAA--A--CGTGTACTAGAAGGTTAATTCCATTGCATTAAAATTAGGTTTTTTTGGAAG--TTATATTACTGAC---AAAAATAATTGCTATTTTAACCAAATGCATAACAC-TTTCTGTCTAAAATGGGCTTTGTGATATTTAAATATGAACATTCA-TTTTCCAGAACATGCATTGGAGAGACTATGGTCTCTTGAAATTAAATTAACTATTTAAC-AAGGAGAATGATGCCCAGTACCCTTTGAAAAGGcagtagagtgctgtgcttaggagcagagaatctggggga-aattgccagggttctagtcccaga
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4514508 308 -  12054995 AGA---CAA--G--TGTATACTAGAAAGTTAATTCCATTGCATTAAAATTA-GTCTTTCTGGAAG--TTATATTACTATCTGACAAAATCATTGCTATTTTAACCAAACGCACAACAC-TTTCTGTCTAAAATGGGCTTTGTGATTTTAAAATATGAACATTCATTTTTCCAGAACAGGAACTGGGGAGATGATGGTCTTTTGAAATTAAATTAACTGTTTAAC-AAGGAAAATGATGCCCAGTACTCTTTGAAAAGGcaatagagcactgtgcttaggagcagaaaatct-gagga-aattgccagagttctagtcccaga
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2367519 278 - 149736546 GGAAAATAA--CATTGTGTACTAGAAAGTTAATTCCATCGCATTAAAATTA-GTCTCTTTGGAAG--TTCTATTACTGGTTGACAAAATAATTGTTGTCTTAGCCAAACTCCTAACACTTTTTTGTCTCAAATAG--CTTATGAGTTTCAGATGCAGGCCATCA-CTTTCTAGAACATGCATGGGGGAGACAATAGTCTTTTGAAGGTAA-----CCATCTAA---------------------------TGGGAAGGCTGTA-CGTGCTG--CTGAGTAACCAAGAACTGGGGGAT-AGCTATAAAGGATCTAGTCCCAGA
i mm10.chr6                 C 0 I 60
s canFam3.chr27              19668493 313 +  45876710 AGAAAATAGGTT--TGTGTACTAGAAAGTTACTTTCATTGCATTGAAATTA-CCCATTTGAGGAG--CTCTATTACTGTCTGACAAAATAATTGCTATTTAAACCAAATGCATAATAC-TTTTTGTCTAAAATGGGCTTTGTGATTTT-AAATATGAACTTTCA-TTTTCCAGAACATGCATTAGAGAGATTACAGTCTTTGGAGGTTCAAATAACTGTTTAATGGGGGAGAATGATGCTTCCTACTCTTCAGGAAAGcagtaaagtactatgcttaggaggtgaggctccaaggca-aactgccaaggttctagccccaga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             875798 305 -   1687904 AGAATATAAGCT--TTTGTACTAGAAAACTAATTCGACTGTGTTAAAATTA-GTCTTTGGGGGAGATCTATTTTACTATTTGATAAAATAATTGCTATTTTATCCAAATGCATCACAC-ATTTTGTCTAAAACAGGCTTTTTAATTTT-CAGTCTGAACATGCC-TTTTCCAGAACATGTACTGGAGACACTG-AGTCTTATGAG---------GCTGTTTAAT-GGGAAGAACAATGGCCAGCGCTCCATGGAAAGGcaggagagcgctgtgcttaggagcagagattctgggcccaaactaccaggggtttaggtctaga
i dasNov3.JH562883          C 0 C 0

a score=220410.000000
s hg38.chr12_GL383549v1_alt     16246 23 +    120804 aactccctttattagcagtgtga
s panTro5.chr12              62711165 23 + 137163284 aactccctttattagcagtgtga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837752 23 + 135337776 aactccctttattagcagtgtga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053121 23 -  32808036 aactccctttattagcagtgtga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7236880 23 +  34552619 aactccctttattagcagtgtga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552741 17 - 133663169 aactccctt------cagtgtga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952207 17 - 137757926 aactccctt------cagtgtga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330019 17 -   7948249 aactccctt------cagtgtga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230561 17 -  10730278 aactccctt------cagtgtga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721773 17 - 128539186 aactccctt------cagtgtga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116536 17 +    435186 aactccctt------cagtgtga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505153 17 +   9309688 aactccctt------cagtgtga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338514 23 -  29834108 gactccctttattagtagtgtga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794032 23 -   1015025 gattccctttattagtagtgtga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808026 23 -   2295209 gactccctttattagtagtgtga
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2926502 23 +  31815103 taccacccttattagctgtgtga
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5023062 23 +  13104022 tactccccttattagctgtgtga
i proCoq1.NW_012140524v1    C 0 I 173
s otoGar3.GL873576            4514816 23 -  12054995 tactccctttattagttgcgtga
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19668806 23 +  45876710 tactccttttattatctgtatga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             876103 23 -   1687904 tgcttccgtcattagctgtgtga
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2367797 60 - 149736546 I

a score=1041356.000000
s hg38.chr12_GL383549v1_alt     16269 98 +    120804 gtttaggaaagtcagataacttctgagtacctcagtttctccctgtgttcaatggggatggtaatagaactggtttcatacgtttatggtaaggatta
s panTro5.chr12              62711188 98 + 137163284 gtttaggaacgtcagataacttctgagtacctcagtttctccctgtgttcaatggggatggtaatagaactggtttcatacgtttatggtaaggatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837775 98 + 135337776 gtttaggaacgtcagataacttctgagtacctcagtttctccctgtgttcaatggggatggtaatagaactggtttcatacgtttatggtaaggatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053144 98 -  32808036 gtttaggaaagtcagataacttctgagtacctcagtttctccctgtgttcaatggggatggtaatagaactggtttcatacgtttatggtaaggatta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7236903 98 +  34552619 gtttaggaaagtcagataacttctgagtacctcagtttctccctatgttcaatgggaatagtaatagaactggtttcatacgtttacagtgaggatta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552758 98 - 133663169 ctttaggaaagtcagataacttctgagtacctcagtttctcactgtgttccatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952224 98 - 137757926 ctttaggaaagtcagataacttctgagtacctcagtttctcactatgttccatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330036 98 -   7948249 ctttaggaaagtcagataacttctgagtacctcagtttctcactatgttccatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230578 96 -  10730278 ctttaggaaagtc--ataacttctgagtacctcagtttctcactaggttcaatggggatggtaatagaactgatttcatatgtttatggtgaggatta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721790 98 - 128539186 ctttaggaaagtcagataacttctgagtacctcagtttctcactatgttccatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116553 98 +    435186 ctttaggaaagtcagataacttctgagtacctcagtttctcactaggttccatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505170 98 +   9309688 ctttaggaaagtcagataacttctgagtacctcagtttctcactatgttcaatggggatggtaatagaactggtttcatatgtttatggtaaggatta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338537 97 -  29834108 ctttaggaaagtcagttaacttatgagtacctcagtttctccctatgtacgatggg-atggtaatagaactggtttcacacatttatggtaaggaaca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794055 97 -   1015025 ctttaggaaagtcagttaacttatgagtacctcagtttctccctatgtacgatggg-atggtaatagaactggtttcacacatttatggtaaggaaca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808049 97 -   2295209 ctttcagaaagtcagttaacttatgagtacctcagtttctccctatgtacaatggg-atggtaatagaactggtttcacacatttatggtaaggaaca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2926525 93 +  31815103 ccttaagaaagtc-----acttctcactgcctcagctttctcatatgcacaatggggatggtaatagaccttgtttcatatgtttatggtgaggatta
i micMur3.chr21             C 0 I 142
s otoGar3.GL873576            4514839 89 -  12054995 ccttaataaagtc-----cc--ctaagtgcctcagtcttctcacatgaacagtaaaggtgttgacaa--cctgtttgatatgattatggtgaggatca
i otoGar3.GL873576          C 0 I 8
s canFam3.chr27              19668829 97 +  45876710 ccttaggaaagtcacttaacttctcagtgccttggtttcttcatatgta-aatgaggatgataatagagcctgctttattgatttacaatttggagta
i canFam3.chr27             C 0 I 8
s dasNov3.JH562883             876126 89 -   1687904 ccttaggaaagtcacttaacctctctgcagctcagtttcctcatataaccaatggg-ttggtaacagaagttgcttcatagatat-tggta-------
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2367797 60 - 149736546 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I

a score=310252.000000
s hg38.chr12_GL383549v1_alt     16367 28 +    120804 agtgctgc-------------------acatgtaaaacacttggaat
s panTro5.chr12              62711286 28 + 137163284 agtgctgc-------------------acatgtaaaacacttggaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837873 28 + 135337776 agtgctgc-------------------acatgtaaaacacttggaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053242 28 -  32808036 agtgctgc-------------------acatgtaaaacacttggaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237001 47 +  34552619 agtgctgctaatgcacttaaaactgctacatgcaaaacacttggagt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552856 28 - 133663169 agtgctgc-------------------acatgtaaaacacttggagt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952322 28 - 137757926 agtgctgc-------------------acatgtaaaacacttggagt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330134 28 -   7948249 agtgctgc-------------------acatgtaaaacacttggagt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230674 28 -  10730278 agtgctgc-------------------acatgtaaaacacttggagt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721888 28 - 128539186 agtgctgc-------------------acatgtaaaacacttggagt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116651 28 +    435186 agtgctgc-------------------acatgtaaaacacttggagt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505268 28 +   9309688 agtgctgc-------------------acatgtaaaacacttggagt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338634 28 -  29834108 agtgctgc-------------------acatgtaaaacatttggagt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794152 28 -   1015025 agtgctgc-------------------acatgtaaaacatttggagt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808146 28 -   2295209 agtgctgc-------------------acatgtaaaacatttggagt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4514936 24 -  12054995 aatactgt-------------------acatgtaaaacaat----gt
i otoGar3.GL873576          I 8 C 0
s canFam3.chr27              19668934 28 +  45876710 aatactgt-------------------gtgtttaaaacaCTTGAAGT
i canFam3.chr27             I 8 I 277
s dasNov3.JH562883             876215 28 -   1687904 gatactct-------------------acatgtgagacgcttggaga
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I

a score=260118.000000
s hg38.chr12_GL383549v1_alt     16395 29 +    120804 aatacctagtaatcaataagtgttcaata
s panTro5.chr12              62711314 29 + 137163284 aatacctagtaatcgataagtgttcaata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837901 29 + 135337776 aatacctagtaatcgataagtgttcaata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053270 29 -  32808036 aatacctagtaatcaataagtgttcaata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237048 29 +  34552619 aatacccagtaatcaatatgtgttcaata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552884 29 - 133663169 aatacctagtaattaataagtgttcaata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952350 29 - 137757926 aatacctagtaattaataagtgttcaata
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330162 29 -   7948249 aatacctagtaattaataagtgttcaata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230702 29 -  10730278 aatacctagtaattaataagtgttcaaaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721916 29 - 128539186 aatacctagtaattaataagtgttcaata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116679 29 +    435186 aatacctactaattaataagtgttcaata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505296 29 +   9309688 aatacctagtaattaataagtgttcaata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338662 29 -  29834108 aatacttactactcaacaagtattcaata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794180 29 -   1015025 aatacttactactcaacaagtattcaata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808174 29 -   2295209 aatacttactactcaacaagtattcaata
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4514960 29 -  12054995 gatatttagtgcccaataaatgttCAATA
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             876243 27 -   1687904 ggtgcc-aggGCTCAA-AAGTGTGTGATA
i dasNov3.JH562883          C 0 I 12
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I

a score=122037.000000
s hg38.chr12_GL383549v1_alt     16424 12 +    120804 aatgctaattat
s panTro5.chr12              62711343 12 + 137163284 aatgctaattat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837930 12 + 135337776 aatgctaattat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053299 12 -  32808036 aatgctaattat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237077 12 +  34552619 aatgctaattat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552913 12 - 133663169 aatgctaattat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952379 12 - 137757926 aatgctaattat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330191 12 -   7948249 aatgctaattat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230731 12 -  10730278 aatgctaattat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721945 12 - 128539186 aatgctaattat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116708 12 +    435186 aatgctaattat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505325 12 +   9309688 aatgctaattat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338691 12 -  29834108 aatgctcattat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794209 12 -   1015025 aatgctaattat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808203 12 -   2295209 aatgctaattat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4514989 12 -  12054995 ATTGTTTATTAT
i otoGar3.GL873576          C 0 I 6
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I

a score=1091655.000000
s hg38.chr12_GL383549v1_alt     16436 136 +    120804 agccaggagtggtgtgtttgtagtcccagatacttaggaggattgcttgagccctggagttggaggctgcatgttcattcc-tttgcactccagcctggacaatgaa-----agagtgagactttgtctcTAAgaaggaaag
s panTro5.chr12              62711355 127 + 137163284 agccaggagtggtgtgtttgtagtcccagatacttaggaggattgcttgagccctggagttggaggctgcatgttcattcc-tttgcactccagcctggacaatgaa-----agagcgagactttgtctctaa---------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60837942 136 + 135337776 agccaggagtggtgtgtttgtagtcccagatacttaggaggattgcttgagccctggagttggaggctgcatgttcattcc-tttgcactccagcctggacaatgaa-----agagcgagactttgtctctaagaaagaaGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053311 135 -  32808036 agccaggagtggtgtgtttgtagtcccagatacttaggaggattgcttgagccctggagttggaggctgcatgttcattcc-tttgcactccagcctggacaatgaa-----agag-gagactttgtctcTAAgaaggaaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237089 136 +  34552619 agccaggagtggtgtgtttgtagtcccagatacttaggaggattgcttgagccctggagttggaggctgcatgttcattcc-tttgcactccagcctggacaacgaa-----agagcgagagtttgtctctaagaaggaaag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104552925 134 - 133663169 agccaggagtggtgtgtttatagtcccagatactcaggaggattgcttgagccctggagttggaggctgcatgttcatcccatttgcactccagcctggacaac--------agagtgagactttgtctcaaagaaggaagg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952391 134 - 137757926 AGCCAgcagtggtgtgtttatagtcccagatactcaggaggattgcttgagccctggagttggaggctgcatgttcatcccatttgcactccagcctggacaac--------agagtgagactttgtctcaaagaaggaagg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330203 134 -   7948249 Agccaggagtggtgtgtttatagtcccagatactcaggaggattgcttgagccctggagttggaggctgcatgttcatcccatttgcactccagcctggacaac--------agagtgagactttgtctcaaagaaggaagg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230743 134 -  10730278 agccaggagtggtgtgtttgtagtcccagatactcaggaggattgcttgagccctggagttggaggctgtatgttcatcccatttgcactccagcctggacaac--------agagcgagattttgtctTTAAgaaggaagg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100721957 134 - 128539186 Agccaggagtggtgtgtttgtagtcccagatactcaggaggattgcttgagccctggagttggaggctgcatgttcatcccatttgcactccagcctggacaac--------agagtgagactttgtctctaagaaggaagg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       116720 134 +    435186 agccaggagtggtgtgtttgtagtcccagatactcaggaggattgcttgagccctggagttggaggctgcatgttcatcccatttgcactccagcctggacaac--------agagtgagactttgtctcaaagaaggaagg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505337 134 +   9309688 Agccaggagtggtgtgtttgtagtcccagatacacaggaggatttcttgagccctggagttgaaggctgcatgttcatcccatttgcactccagcctggacaac--------agagcaagactttgtctctaagaaggaagg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338703 141 -  29834108 tgccaggcatggtgtgcttgtagttgaagatacTcaggtggattgcttgagcccaggatttgcaggctgcatcttcatgcc-tttgcactccagcctggacaacagagtaacagagtgagaccttgtctctaagaaagaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794221 141 -   1015025 AGCCAGGCATGGTGTGCTTGTAGTTGAAGATACTcaggaggattgcttgagcccaggagttgtaggctgcatcttcatgcc-tttgcactccagcctggacaacagagtaacagaatgagaccttgtctctaagaaagaaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808215 141 -   2295209 aaccaggcatggtgtgcttgtagttgaagatacTcaggaggattgcttgagcccaggagttgtaggctgcatcttcacgcc-tttgcactccagcctggacaacagagtaacagagtgagaccttgtctctaagaaagaaag
i aotNan1.NW_018488218v1    C 0 I 82
e otoGar3.GL873576            4515001   6 -  12054995 I
e mm10.chr6                   2367797  60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270  12 -   1687904 I

a score=187373.000000
s hg38.chr12_GL383549v1_alt     16572 48 +    120804 aaggaaggaaggaagga-aggaaggaaggaaggaagg-aaggaaggaagg
s panTro5.chr12              62711482 17 + 137163284 --------------------------------gaaag-aaggaaggaagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838078 48 + 135337776 AAGGAagggagagaggg-agggagggagggaggaagg-gagggagggagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053446 40 -  32808036 aaggaaggaaggaagga-aggaag--------gaagg-aaggaaggaagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237225 48 +  34552619 aaggaaggaaagaagga-aagaaggaaagaaggaaag-aaggaaggaagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553059 48 - 133663169 aagaaaggaaggaagaa-aggaaggaagggaggaagg-gagggagggagg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952525 40 - 137757926 aagaaaggaaggaagaa-agga--------aggaagg-gaggaagggagg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330337 48 -   7948249 aagaaaggaaggaagaa-aggaaggaagggaggaagg-gaggaagggagg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230877 41 -  10730278 aaggaaggaaggaagga-agga--------aggaaggcaaggaagggagg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722091 48 - 128539186 aagaaaggaaggaaggg-aggaagggaggaagggagg-gaagggaggaaa
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       116854 48 +    435186 aagaaaggaaggaagaa-aggaaggaagggaggaagg-gagggagggagg
i manLeu1.NW_012101287v1    C 0 I 340
s colAng1.NW_012114364v1      3505471 48 +   9309688 aaggaaggaaggaagga-aggaaggaaggaaggaagg-aaggaagggaag
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11338844 41 -  29834108 --gaaagagagagagag------agaaagaaagagaa-agagagagagag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794362 47 -   1015025 --aaaagaaagagagagaaagaaagatagagagagaa-aaggaaggaagg
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I

a score=1826.000000
s hg38.chr12_GL383549v1_alt     16620 1 +    120804 a
s panTro5.chr12              62711499 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838126 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053486 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237273 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553107 1 - 133663169 g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952565 1 - 137757926 g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330385 1 -   7948249 g
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100722140 1 - 128539186 a
i chlSab2.chr11             I 1 I 81
s colAng1.NW_012114364v1      3505520 1 +   9309688 a
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11338885 1 -  29834108 a
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794409 1 -   1015025 a
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e cerAty1.NW_011999477v1      8230918 0 -  10730278 C

a score=23443.000000
s hg38.chr12_GL383549v1_alt     16621 7 +    120804 agggagg
s panTro5.chr12              62711500 7 + 137163284 agggagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838127 7 + 135337776 aaagagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053487 7 -  32808036 agggaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237274 7 +  34552619 aggaagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553108 7 - 133663169 aagggag
i rheMac8.chr11             C 0 I 124
s macFas5.chr11             108952566 7 - 137757926 agggagg
i macFas5.chr11             C 0 I 1
s macNem1.NW_012011422v1      1330386 7 -   7948249 agggagg
i macNem1.NW_012011422v1    C 0 I 1
s colAng1.NW_012114364v1      3505521 7 +   9309688 aaggagg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338886 7 -  29834108 gaaaagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794410 7 -   1015025 aggaagg
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e cerAty1.NW_011999477v1      8230918 0 -  10730278 C

a score=15680.000000
s hg38.chr12_GL383549v1_alt     16628 9 +    120804 gagggagg--g
s panTro5.chr12              62711507 9 + 137163284 gagggagg--g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838134 9 + 135337776 gagggagg--g
i panPan2.chr12             C 0 I 7
s gorGor5.CYUI01000003v1      3053494 9 -  32808036 gagggagg--g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237281 9 +  34552619 aaggaagg--a
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952574 8 - 137757926 aagggagg---
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1330394 8 -   7948249 aagggagg---
i macNem1.NW_012011422v1    I 1 C 0
s cerAty1.NW_011999477v1      8230918 9 -  10730278 gagggagga--
i cerAty1.NW_011999477v1    C 0 I 62
s colAng1.NW_012114364v1      3505528 9 +   9309688 gagggagg-g-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338893 9 -  29834108 aaggaagg--a
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794417 9 -   1015025 aaggaagg--a
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e rheMac8.chr11             104553115 124 - 133663169 I

a score=33389.000000
s hg38.chr12_GL383549v1_alt     16637 15 +    120804 agggagggagggagg
s panTro5.chr12              62711516 15 + 137163284 agggaggaagggagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838150 15 + 135337776 agggagggaagggga
i panPan2.chr12             I 7 I 150
s gorGor5.CYUI01000003v1      3053503 15 -  32808036 agggagggagggagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237290 15 +  34552619 aggaaggaaagaagg
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952582 13 - 137757926 --aaagagatagaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330402 13 -   7948249 --aaagagatagaga
i macNem1.NW_012011422v1    C 0 C 0
s colAng1.NW_012114364v1      3505537 11 +   9309688 ----agggaggaagg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338902 15 -  29834108 aggaaaggaaggagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794426 15 -   1015025 aggaagggagggagg
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e rheMac8.chr11             104553115 124 - 133663169 I

a score=9368.000000
s hg38.chr12_GL383549v1_alt     16652 5 +    120804 gaggg
s panTro5.chr12              62711531 5 + 137163284 gaggg
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053518 5 -  32808036 gaggg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237305 4 +  34552619 -aggg
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952595 5 - 137757926 aagaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330415 5 -   7948249 aagaa
i macNem1.NW_012011422v1    C 0 C 0
s colAng1.NW_012114364v1      3505548 5 +   9309688 aagga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338917 5 -  29834108 gaagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794441 5 -   1015025 gaggg
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e aotNan1.NW_018488218v1      1808356 82 -   2295209 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e rheMac8.chr11             104553115 124 - 133663169 I
e panPan2.chr12              60838165 150 + 135337776 I

a score=7614.000000
s hg38.chr12_GL383549v1_alt     16657 5 +    120804 aggga
s panTro5.chr12              62711536 5 + 137163284 aggga
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053523 5 -  32808036 aggga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237309 5 +  34552619 agaga
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952600 5 - 137757926 agaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330420 5 -   7948249 agaaa
i macNem1.NW_012011422v1    C 0 C 0
s colAng1.NW_012114364v1      3505553 5 +   9309688 aggaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338922 2 -  29834108 ga---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794446 5 -   1015025 aggga
i cebCap1.NW_016107911v1    C 0 I 85
s aotNan1.NW_018488218v1      1808438 5 -   2295209 aggga
i aotNan1.NW_018488218v1    I 82 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e rheMac8.chr11             104553115 124 - 133663169 I
e panPan2.chr12              60838165 150 + 135337776 I

a score=51059.000000
s hg38.chr12_GL383549v1_alt     16662 38 +    120804 aagagggagggaggggaggggaagggagggaag------gggag
s panTro5.chr12              62711541 38 + 137163284 aagagggagggaggggaggggaagggagggaag------gggag
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053528 38 -  32808036 aagagggagggaggggaggggaagggagggaag------gggag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237314 44 +  34552619 aagaggaagggaggggaggggaggggaggaaagagataaagaaa
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952605 38 - 137757926 caacgaaagagaggaaagagagaaagaaagaaa------aaaag
i macFas5.chr11             C 0 I 5
s macNem1.NW_012011422v1      1330425 38 -   7948249 caacgaaagagaggaaagagagaaagaaagaaa------aaaag
i macNem1.NW_012011422v1    C 0 I 5
s colAng1.NW_012114364v1      3505558 38 +   9309688 ggaaggaaggaaggaaggaaggaaggaaggaag------gaagg
i colAng1.NW_012114364v1    C 0 I 3
s saiBol1.JH378123           11338924 27 -  29834108 -----------cagagggaggaagggagggaat------gagag
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1808443 27 -   2295209 -----------cagagggaggaaaggagggaat------gagag
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e cebCap1.NW_016107911v1       794451 85 -   1015025 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e chlSab2.chr11             100722141 81 - 128539186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e rheMac8.chr11             104553115 124 - 133663169 I
e panPan2.chr12              60838165 150 + 135337776 I

a score=25194.000000
s hg38.chr12_GL383549v1_alt     16700 17 +    120804 gaaagac--aga-aagaaag
s panTro5.chr12              62711579 19 + 137163284 gaaagagaaaga-aagaaag
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053566 17 -  32808036 gaaagac--aga-aagaaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237358 19 +  34552619 gaaagagagaga-gagaaag
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108952648 17 - 137757926 gaaagca--aga-aaaagag
i macFas5.chr11             I 5 I 36
s macNem1.NW_012011422v1      1330468 17 -   7948249 gaaagca--aga-aaaagag
i macNem1.NW_012011422v1    I 5 I 40
s chlSab2.chr11             100722222 18 - 128539186 gaaagag--agaggaaagag
i chlSab2.chr11             I 81 I 23
s colAng1.NW_012114364v1      3505599 17 +   9309688 gaaggaa--gga-aaggaag
i colAng1.NW_012114364v1    I 3 I 11
s saiBol1.JH378123           11338951 13 -  29834108 -aaacag------gaaagag
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1808470 17 -   2295209 -aaacaga-gga-aagagag
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e cebCap1.NW_016107911v1       794451 85 -   1015025 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e rheMac8.chr11             104553115 124 - 133663169 I
e panPan2.chr12              60838165 150 + 135337776 I

a score=10010.000000
s hg38.chr12_GL383549v1_alt     16717 2 +    120804 aa
s panTro5.chr12              62711598 2 + 137163284 aa
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053583 2 -  32808036 aa
i gorGor5.CYUI01000003v1    C 0 I 14
s nomLeu3.chr23               7237377 2 +  34552619 aa
i nomLeu3.chr23             C 0 I 8
s rheMac8.chr11             104553239 2 - 133663169 aa
i rheMac8.chr11             I 124 C 0
s macFas5.chr11             108952701 2 - 137757926 aa
i macFas5.chr11             I 36 C 0
s macNem1.NW_012011422v1      1330525 2 -   7948249 aa
i macNem1.NW_012011422v1    I 40 C 0
s chlSab2.chr11             100722263 2 - 128539186 aa
i chlSab2.chr11             I 23 C 0
s colAng1.NW_012114364v1      3505627 2 +   9309688 aa
i colAng1.NW_012114364v1    I 11 C 0
s saiBol1.JH378123           11338964 2 -  29834108 aa
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1808487 2 -   2295209 aa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e cebCap1.NW_016107911v1       794451 85 -   1015025 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I
e cerAty1.NW_011999477v1      8230927 62 -  10730278 I
e panPan2.chr12              60838165 150 + 135337776 I

a score=98939.000000
s hg38.chr12_GL383549v1_alt     16719 40 +    120804 aga-ag-gaaagaaagagag--agagaaaga-aagaaaaagagag
s panTro5.chr12              62711600 42 + 137163284 agagagagagagaaagaaag--agagaaaga-aagaaaaagagag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838315 41 + 135337776 agagagagagagaaagaaag--agagaaaga-aag-aaaagagag
i panPan2.chr12             I 150 C 0
s gorGor5.CYUI01000003v1      3053599 42 -  32808036 aaagagagagagaaagaaag--agagagaaa-gaaagaaaaagag
i gorGor5.CYUI01000003v1    I 14 C 0
s nomLeu3.chr23               7237387 41 +  34552619 aaagagagagagagaaagaa--agagaaaga-aag-aaaagagaa
i nomLeu3.chr23             I 8 C 0
s rheMac8.chr11             104553241 40 - 133663169 --agagagcaagaaagaaag--agagaaagc-aacaaagagaaag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952703 40 - 137757926 --agagagcaagaaagaaag--agagaaagc-aacaaagagaaag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330527 40 -   7948249 --agagagcaagaaagaaag--agagaaagc-aacaaagagaaag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8230989 33 -  10730278 ----aaagaaagaaagaaag--agagagg------aaagagaaaa
i cerAty1.NW_011999477v1    I 62 C 0
s chlSab2.chr11             100722265 40 - 128539186 --agagagcaagaaagaaag--agagaaagc-aacaaagagaaag
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3505629 41 +   9309688 --ggaaagaaggaaggaagg--agaaaaagagaaaagaaagaaag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338966 26 -  29834108 ----agaatgagaaagaaagaaagagaaag---------------
i saiBol1.JH378123          C 0 I 2
s aotNan1.NW_018488218v1      1808489 16 -   2295209 ----agaatgagaaagaaag-------------------------
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e cebCap1.NW_016107911v1       794451 85 -   1015025 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I

a score=84713.000000
s hg38.chr12_GL383549v1_alt     16759 30 +    120804 a--ggagagaaaaagagaaagaaataaagaaa
s panTro5.chr12              62711642 30 + 137163284 a--ggagagaaaaagagaaagaaagaaagaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838356 30 + 135337776 a--ggagagaaaaagagaaagaaagaaagaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053641 30 -  32808036 a--ggagagaaaaagagaaagaaagaaagaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237428 30 +  34552619 a--agaaagacagggagagagaaagaaaaaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553281 31 - 133663169 a-aaaagaaagaaagaaaaagaaagaaagaaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952743 31 - 137757926 a-aaaagaaagaaagaaaaagaaagaaagaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330567 31 -   7948249 a-aaaagaaagaaagaaaaagaaagaaagaaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231022 32 -  10730278 agaaaagaaagaaagagaaagagagcaataaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722305 31 - 128539186 a-aaaagaaagaaagagaaagaaagaaagaaa
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3505670 31 +   9309688 a-gaaagaaagcaagagagagaaagaaagcaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11338994 11 -  29834108 ------------------aggaaagaaag---
i saiBol1.JH378123          I 2 C 0
s cebCap1.NW_016107911v1       794536 27 -   1015025 ----atgagagaaacag-aggaaagaaagaga
i cebCap1.NW_016107911v1    I 85 C 0
s aotNan1.NW_018488218v1      1808505  7 -   2295209 ----------------------aggaagg---
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e mm10.chr6                   2367797 60 - 149736546 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I

a score=101624.000000
s hg38.chr12_GL383549v1_alt     16789 60 +    120804 -aaagaa--ag---aaaaagaga-aagag-------------agggagagagaaag--aa--------aaagaaacaaac--aaagaaac-----------aa
s panTro5.chr12              62711672 69 + 137163284 -aaagaa--ag---agaaagata-gggag-------------agagaaagaaaaag--aa------agaaagaaacaaac--aaacaaacaaagaaa----aa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838386 73 + 135337776 -aaagaa--ag---agaaagata-gggag-------------agagaaagaaaaag--aa------agaaagaaacaaac--aaacaaacaaagaaaaaagaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053671 69 -  32808036 -aaagaa--agaaaagaaagaga-gggag-------------agagaaagaaaaag--aa------acaaacaaacaaac--aaaaaaacaaag-------aa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237458 61 +  34552619 -aagaaa--ga---aaaaagaaa----ag-------------aaagaaagaaaaag--aa------agaaagaa--aaag--aaagaaagaaaa-------ag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553312 54 - 133663169 -aagaaaagaa---agaaagaaa-agaag-------------aaagaaagaaagaa--aa------agaaagaaagaaag-----------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952774 54 - 137757926 -gaaaaag-aa---agaaagaaagaaaag-------------aaagaaagaaagaa--aa------agaaagaaagaaag-----------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330598 55 -   7948249 -gaaaaagaaa---agaaagaaagaaaag-------------aaagaaagaaagaa--aa------agaaagaaagaaag-----------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231054 51 -  10730278 -aaaagaa-ag---agaaagaaa---aag-------------aaagaaagagaaag--aa------agaaagagagagag-----------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722336 49 - 128539186 -gaaag---aa---agaaagaaa-gaaag-------------aaagaaagaaag----aa------agaaagaaagagaa-----------------------
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3505701 57 +   9309688 -gaaagag-aa---agaaagaaa-gaaag-------------aaagaaagaaagaaagaa------agaaagaaagaaagaa---------------------
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11339005 40 -  29834108 ---------aa---agaatgaag-gaaag-------------aaagaatgaaagaa--ag------agaaagaa-----------------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794563 59 -   1015025 ---------aa---ggaaggaag-gaaagaagaaagaaagaaaaagaaagaaagaa--ggaaggaaagaaagaa-----------------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808512 36 -   2295209 ---------aa---ggaaggaag-gaaaa-------------aaggaaggaaagaa--ag----------agaa-----------------------------
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2367857 60 - 149736546 agagagag-ag---agagagaga-gagag-------------agagagagagagag--ag------agagagagagagag--aACTAG---------------
i mm10.chr6                 I 60 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I
e manLeu1.NW_012101287v1       116902 340 +    435186 I

a score=125894.000000
s hg38.chr12_GL383549v1_alt     16849 21 +    120804 ---agaaag------aaagaaa---CACTAGTT
s panTro5.chr12              62711741 21 + 137163284 ---agaaag------aaagaaa---CACTAGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838459 21 + 135337776 ---agaaag------aaagaaa---CACTAGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053740 21 -  32808036 ---agaaag------aaagaaa---CACTAGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237519 21 +  34552619 ---aaaaag------aaagaaa---gaCTAGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553366 20 - 133663169 ---agaaag------aaagaaa----ACTAGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952828 20 - 137757926 ---agaaag------aaagaaa----ACTAGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330653 20 -   7948249 ---agaaag------aaagaaa----ACTAGtt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231105 24 -  10730278 ---agaaag------aaagaaagaaTACTAGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722385 18 - 128539186 ---agaaag------aaagaaa----ACTAG--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117242 20 +    435186 ---agaaag------aaagaaa----ACTAGTT
i manLeu1.NW_012101287v1    I 340 C 0
s colAng1.NW_012114364v1      3505760 24 +   9309688 ---agaaag------aaagaaagaaTACTAGTT
i colAng1.NW_012114364v1    I 2 C 0
s saiBol1.JH378123           11339045 21 -  29834108 ---agaaaa------gaaaAAG---CACTAGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794622 21 -   1015025 ---agaaaa------gaaaAAG---CACTAGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808548 21 -   2295209 ---agaaaa------gaaaAAG---CACTAGTT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2367917 30 - 149736546 CTTATGATGACCTTCAGAGAGT---CACTTCCC
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4515001  6 -  12054995 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I
e dasNov3.JH562883             876270 12 -   1687904 I

a score=14899.000000
s hg38.chr12_GL383549v1_alt     16870 2 +    120804 AC
s panTro5.chr12              62711762 2 + 137163284 AC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838480 2 + 135337776 AC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053761 2 -  32808036 AC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237540 2 +  34552619 AC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553386 2 - 133663169 AT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952848 2 - 137757926 AT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330673 2 -   7948249 at
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231129 2 -  10730278 AT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722403 1 - 128539186 -T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117262 2 +    435186 AT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505784 2 +   9309688 AT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339066 2 -  29834108 AT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794643 2 -   1015025 AT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808569 2 -   2295209 AT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2367947 2 - 149736546 AC
i mm10.chr6                 C 0 I 9
s dasNov3.JH562883             876282 2 -   1687904 AT
i dasNov3.JH562883          I 12 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I
e proCoq1.NW_012140524v1      5023085 173 +  13104022 I

a score=39695.000000
s hg38.chr12_GL383549v1_alt     16872 3 +    120804 TAT
s panTro5.chr12              62711764 3 + 137163284 TAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838482 3 + 135337776 TAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053763 3 -  32808036 TAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237542 3 +  34552619 TAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553388 3 - 133663169 TAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952850 3 - 137757926 TAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330675 3 -   7948249 tat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231131 3 -  10730278 TAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722404 3 - 128539186 TAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117264 3 +    435186 TAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505786 3 +   9309688 TAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339068 3 -  29834108 TAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794645 3 -   1015025 TAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808571 3 -   2295209 TAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5023258 3 +  13104022 TAT
i proCoq1.NW_012140524v1    I 173 C 0
s mm10.chr6                   2367958 3 - 149736546 TGT
i mm10.chr6                 I 9 I 17
s dasNov3.JH562883             876284 3 -   1687904 TAT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4515001 6 -  12054995 I
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I

a score=207986.000000
s hg38.chr12_GL383549v1_alt     16875 19 +    120804 TATTTCTAGCATCTATGTG
s panTro5.chr12              62711767 19 + 137163284 TATTTCTAGCATCTATGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838485 19 + 135337776 TATTTCTAGCATCTATGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053766 19 -  32808036 TATTTCTAGCATCTATGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237545 19 +  34552619 TATTTCTAGCATCTATGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553391 19 - 133663169 TATTTCTAGCCTCTATGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952853 19 - 137757926 TATTTCTAGCCTCTATGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330678 19 -   7948249 tatttctagcctctatgtg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231134 19 -  10730278 TATTTCTAGCCTCTATGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722407 19 - 128539186 TATTTCTAGCCTCTATATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117267 19 +    435186 TATTTCTAGCCTCTATGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505789 19 +   9309688 TATTTCTAGCCTCTATGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339071 19 -  29834108 TATTTCTAGCCTTTATATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794648 19 -   1015025 TTTTTCTAGCCTTTGTATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808574 19 -   2295209 TATTTCTAGCCTTTATATA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5023261 19 +  13104022 TATTTCTAGCCTCTATATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515007 19 -  12054995 TATGTCTAGCTGCCATCTT
i otoGar3.GL873576          I 6 C 0
s mm10.chr6                   2367978 19 - 149736546 TGATTATGAATCCTATGCC
i mm10.chr6                 I 17 C 0
s dasNov3.JH562883             876287 19 -   1687904 TGTTTCTAGCCTCTGTGCT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2926618 142 +  31815103 I
e canFam3.chr27              19668962 277 +  45876710 I

a score=352778.000000
s hg38.chr12_GL383549v1_alt     16894 31 +    120804 TCTCAGCCCAGAGTCATACATATACTGGGTA
s panTro5.chr12              62711786 31 + 137163284 TCTCAGCCCAGAGTCATACATATACTGGGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838504 31 + 135337776 TCTCAGCCCAGAGTCATACATATACTGGGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053785 31 -  32808036 TCTCAGCCCAGAGTCATACATATACTGGGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237564 31 +  34552619 TCTCAGTCCAGAGTCATACATATACTGGGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553410 31 - 133663169 TCTCAGTCCAGAGTCATACACATACTGGATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952872 31 - 137757926 TCTCAGTCCAGAGTCATACACATACTGGGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330697 31 -   7948249 tctcagtccagagtcatacacatactgggta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231153 31 -  10730278 TCTCAGTCCAAAGTCATACACATACTGGGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722426 31 - 128539186 TCTCAGTCCAGAGTCATACACATACTGGGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117286 31 +    435186 Tctcagtccagagtcatacacatactgggta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505808 31 +   9309688 TCTCAGTCCAGAGTCATACACATACTGGGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339090 31 -  29834108 TCTCAGCCTAGAGTCATACACGTATTGGGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794667 31 -   1015025 TCTCAGCCCACAGTCATACACATATTGCATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808593 31 -   2295209 Tctcaacccagagtcatacacatattgggta
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5023280 31 +  13104022 TCTGAGCACAGAATCTTACACATACTTGGTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515026 31 -  12054995 TCTGAGCACAGAATCTTACACATACTTGGTG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2367997 31 - 149736546 TGATGTTCCATGTCCTTCTAAGCACAGACTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669239 31 +  45876710 TCCAAGCCCAGAATCTCACACATACTGGGTA
i canFam3.chr27             I 277 C 0
s dasNov3.JH562883             876306 31 -   1687904 TCTAGGCAGAGAATCCCAGGCAGCTCAAGTG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2926618 142 +  31815103 I

a score=863369.000000
s hg38.chr12_GL383549v1_alt     16925 66 +    120804 CTTAATAAACGTTTCTAAATTGGTTAATTAAATGACCGGTTACTAG-CATAGAGCAAAGGAAT----AAAG
s panTro5.chr12              62711817 66 + 137163284 CTTAATAAACGTTTCTAAATTGGTTAATTAAATGACCGGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838535 66 + 135337776 CTTAATAAACGTTTCTAAATTGGTTAATTAAATGACCGGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053816 65 -  32808036 CTTAATAAACGTTTCTAAATTGGTTAA-TAAATGACCGGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237595 66 +  34552619 CTTAATAAGCATCTCTAAGTTGGTTAATTAAATGACCAATTACTAG-CATAGAGCAAAGGAAT----AAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553441 66 - 133663169 CTTAATAAATGTTTCTAAATTGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952903 66 - 137757926 CTTAATAAATGTTTCTAAATTGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330728 66 -   7948249 cttaataaatgtttctaaattGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231184 66 -  10730278 CTTAATAAATGTTTCTAAATTGCTTAATTAAATGACTAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722457 66 - 128539186 CTTAATAAATGTTTCTAAATTGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117317 66 +    435186 cttaataaatgtttCTAAATTGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505839 66 +   9309688 CTTAATAAACGTTTCTAAATTGCTTAATTAAATGACCAGTTACTAG-CATAGAGCAAAGGAAT----AAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339121 66 -  29834108 CTTAATAAACATTTCTAAATTGGTTAATTAAATAACAAGTTACTAG-CCTAGATAAAAGGAAT----GAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794698 44 -   1015025 C----------------------TTAATTAAATAACCGATTACTAG-CCTAGAGAAAAGAAAT----AAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808624 66 -   2295209 cttaataaacgtttctaaattggttaattaaATAACCAGTTACTAG-CCTAGAGAAAAGGAAT----AAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2926760 66 +  31815103 CTTAATAAATATATCTAAATTCATTAATTAAATGACCAGTTACTTG-CATGGAACAAAAAAAT----AAAG
i micMur3.chr21             I 142 I 94
s proCoq1.NW_012140524v1      5023311 66 +  13104022 CTTAATAAACATATCTAAATTGCTTAATTAAATGACCAGTTACTTG-CATGGAACAAAGAAAT----GAAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515057 67 -  12054995 ---CATAAACATGTCTAAATTGGTTAATTAAATGGCTGGTCACTTA-CATGGAGCAAAAAAACCCCAAAAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2368028 66 - 149736546 TTAAGCATACCCATCTGAGTTAGTT-ATTAAACACCCAGCCATTAGTCACTGTGCTACAGATG----AAAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669270 66 +  45876710 CTTAATAAACATGTCTGAACTGGTTAATTAAATGATCATTTATGAG-CATGGAGCAAAAGAGC----AAAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             876337 66 -   1687904 CTTAATAAACATTTCTCAGTGGGTGAATTACAAGACCAGTTACTAC-CATGGAACGAAGGGAT----GAAG
i dasNov3.JH562883          C 0 C 0

a score=802541.000000
s hg38.chr12_GL383549v1_alt     16991  81 +    120804 ----------------------------------ACTGAAAACCtactgggt---------accaagaacacagctg---tgaacaaaaca-ag---------caagttccctgagctcataa----ag-----tttttagctctg
s panTro5.chr12              62711883  81 + 137163284 ----------------------------------ACTGAAAGCCtactgggt---------accaagaacacagctg---tgaacaaaaca-ag---------caagttccctgagctcataa----ag-----tttttagctctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838601  81 + 135337776 ----------------------------------ACTGAAAGCCtactgggt---------accaagaacacagctg---tgaacaaaaca-ag---------caagttccctgagctcataa----ag-----tttttagctctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053881  81 -  32808036 ----------------------------------ACTGAAAGCCtactgggt---------accaagaacacagctg---tgaacaaaaca-ag---------caagttccctgagctcataa----ag-----tttttagctctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237661  81 +  34552619 ----------------------------------ACTGAAAGCCtactgggt---------accaagaacacagctg---tgaacaaaaca-ag---------caagttccctgagctcataa----ag-----tttttagctctg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553507  81 - 133663169 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108952969  81 - 137757926 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330794  81 -   7948249 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231250  81 -  10730278 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722523  81 - 128539186 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117383  81 +    435186 ----------------------------------ACTGAAAGCCTActgggt---------accaagaacacagttg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505905  81 +   9309688 ----------------------------------ACTGAAAGCCTActggat---------atcaagaacacagctg---tgaacaaaata-ag---------caaattccctgagctcataa----aC-----GTTTTAGCTCTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339187  81 -  29834108 ----------------------------------ACTGAGAGCCtactgggt---------accaagtacacagctg---tgaacaagaca-ag---------taagttccttgagctcataa----ag-----tttttagctctg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794742  81 -   1015025 ----------------------------------ACTGAGAGCCtactgagt---------accaagtacacagctg---ggaacaagaca-ag---------taagttccttgagctcataa----ag-----tttttagctctg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808690  81 -   2295209 ----------------------------------ACTGAGAGCCtactgggt---------accaagtacacagctg---tgaacaagaca-ag---------taagttccttgagctcataa----ag-----tttttagctctg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5023377  95 +  13104022 ----------------------------------actgagtgcctactaagt---------gccaggagtacatctg---tgaacaagaca-gggaccttggctaaggtccctgagcccacaa----agtttacattttagCATTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515124  74 -  12054995 ----------------------------------ACTGAATGCCTACTAAGT---------ACAG----------TG---TGAACAAGACA-GG---------CAAGGT-CCTGAGCCCATAA----AG-TGACATTTTAGCACTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2368094  31 - 149736546 --------------------------------------------------------------------ACATGGCAG---TGAACAAGAGA-GG---------CAAGGTCAC----------------------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669336  87 +  45876710 ----------------------------------ACTG-GTGCCTACCATgt---------accaggaatacagtggtaatgaacaaggca-ga---------caagatcttggaccacgtaggtttac-----attttagCTCTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             876403 113 -   1687904 GCTTGGCACGTATGGGACGATGGCGCGTTCTTTCAGGGAGTGTGTTCTGGGTCCTTCTAACACCGGGAGCACAGCGG---CGGGCGAGACGCCG---------TGAAGTC----------TAA----AC-------CTCAGCTCCA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2926826  94 +  31815103 I

a score=1982446.000000
s hg38.chr12_GL383549v1_alt     17072 154 +    120804 tgTTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATGTTTAGGAA-TTAAAAGAAGGATCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
s panTro5.chr12              62711964 154 + 137163284 tgTTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATAGTTAGGAA-TTAAAAGAAGGATCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838682 154 + 135337776 tgTTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATAGTTAGGAA-TTAAAAGAAGGATCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3053962 154 -  32808036 tgTTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATGTTTAGGAA-TTAAAAGAAGGATCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237742 154 +  34552619 tgTTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATGTTTAGGAA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553588 154 - 133663169 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAAGTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108953050 154 - 137757926 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAAGTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1330875 154 -   7948249 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAAGTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231331 157 -  10730278 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGACAGCAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-AGGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722604 154 - 128539186 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--TAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117464 154 +    435186 TGTTGTTTAGCCCAAAAATATATAAGGAATTGATATTAATGGTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTAT--CAAAGGCAA-AGGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3505986 156 +   9309688 TGTTGTTCAGCCCAAAAATATATAAGGAATTGATATTAATGTTTAGAGA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGA---CAGC----ATATATTAAAGACTGTATACTAAAGGCAA-ATGAATTCAAATATAAAAAtttggctgtgtgtaacagagac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339268 156 -  29834108 tATTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAACTCTCTGA---CTAA--ATACATATTAAAGACTGTAT--TAAAGGTGA-ATTAATTCAAAGATAAAAAtttggctgtatgtaacagaggc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794823 156 -   1015025 tATTGTTCAGCCCAAAAATATATAAGGAACTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAGCTCCCTGA---CTGC--ATGTATATTAAAGACTGTAT--TAAAGGTGA-ATGAATTCAAAGATAAAAAtttggctgtgtgtaacagaggt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808771 158 -   2295209 tATTGTTCAGTCCCAAAATATGTAAGGAACTGATATTAATGTTTAGGGA-TTAAAAGAAGGGTCTGGATTATAAACTCCCTGA---CTGCATATATATATTAAAGACTGTAT--TAAAGGTGA-ATGAATTCAAAGATAAAAAtttggctgtgtgtaacagagtc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2926920 155 +  31815103 TGTTGTTCAGCCC-AAAATGTATAAGGAACTGATCTTAACATTTAGGAATTTGAAAGAAGGGCCGGGATTATAAACTCCCTCA---CAGC----GTATATTAAAGATTGTTT--TAAAGACAGCATAAATTAAAAGATAAaggtttggctgtgtgtaacagaaac
i micMur3.chr21             I 94 C 0
s proCoq1.NW_012140524v1      5023472 154 +  13104022 TGTTGTTCAGCAC-AAAATGTATAAGGAACTGATCTTAACATTTAGGGA-CTGAAAGAAGGGCCGGGATTATAAACTCCTTGA---CAGC----ATATATTAAAGATTGTTT--TAAAGACAGCATAAATTAAAAGATAAagatttggctgtgtgtgacagaagc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515198 153 -  12054995 TATTGTTTAGCCC-CAAAGGTATAAGGAACTAATCTTTACATTTAGGGA-TTG-AAGAAGGGGCAGGATTATAAGCTCCCTGA---CAAG----ATATTTGAAAGACTGTTT--TTAAGACAGCATAAATTAAAAGATAAagatttggctgtgtgtaacagaaac
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2368125 135 - 149736546 -ATTTCTTAATCCAACCAAGTAGACAGACCCCATCTCAAC----AAAGA-TTGAAAGAAGGGTCTGAACTCTAAACTCCTGGA---CAGC----ATGT----------------TAAACAACT-GTGGATACAGAGATAAAGGATTGGCTAAGTATGCCATGGGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669423 151 +  45876710 TATTATTTAGTCC-AAAATATATAGGGAACTGGTCTTAGTGTTTAGAGA-TTGAAAGAAAAGTCTGAATTGTAAACT---TGA---CAGC----ATGTATTAAAGGTTATAT--TAAAGTAGGCATGAATGAAAGGATAAAAAtttggctctatgtaacagaggt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             876516 113 -   1687904 GACGGGCTAGCCC---AGGACGCACAGGACTGA-----------GGGCA-CTGGAAA---------------------CCCGA---CAGC----CTGTCCCGGAGACGGTGC--AGATAGCGA---GAATCAAAGCAC--AGGCGCGGCTCTGCGTA--AGAGGC
i dasNov3.JH562883          C 0 I 69

a score=681798.000000
s hg38.chr12_GL383549v1_alt     17226 53 +    120804 ccaaaagagcttttgcggaaaggagatagaaaattctttctcatgtaacagtc
s panTro5.chr12              62712118 51 + 137163284 ccaaaagagcttttgcagaaaggagatagaaaattctttctcatgta--agtc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838836 51 + 135337776 ccaaaagagcttttgcagaaaggagatagaaaattctttctcatgta--agtc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3054116 53 -  32808036 ccaaaagagcttttgcagaaaggagatagaaaattctttctcatgtaacagtc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237896 53 +  34552619 ccaaaagagcttttgcagaaaggagatagaaaattctttctcgtgtaacagtc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553742 53 - 133663169 ccaaaagagcttttgcaggaaggagagagaaaattctttctcctgtagcagtc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108953204 53 - 137757926 ccaaaagagcttttgcagaaaggagagagaaaattctttctcctgtagcagtc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1331029 53 -   7948249 ccaaaagagcttttgcagaaaggagagagaaaattctttctcctgtagcagtc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231488 53 -  10730278 ccaaaagagcttttgcagaaaggagagagaaaattctttctcctgtagcagtc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722758 53 - 128539186 ccaaaagagcttttgcagaaaggagagagaaaattctttctcctgtagcagtc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117618 53 +    435186 ccaaaagagcttttgcagaaaggtgatagaaaattctttctcatgtaatagcc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3506142 53 +   9309688 ccaaaagagcttttgcagaaaggagatagaaaattctttctcctgtaacagtc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339424 53 -  29834108 ccaaaatagcttttgcagaaaggagatagaaaatgtcttctcatgtaacagtc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       794979 53 -   1015025 ccaaaatagcttttgcagaaaggagatagaaaatttcttctcatgtaatggtc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808929 53 -   2295209 ccaaaatagcttttgcagaaaggagatagaaaatttcttctcctgtaacagtc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2927075 53 +  31815103 ccaagatagcttttgcataaaggagatagaaaattctttctcatgtaactgtc
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5023626 53 +  13104022 ccaaaatagcttttgcataaaggagacagaaaattctttctcacgtaactgtc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515351 53 -  12054995 ttgaaatagtttttgcataaaagagatagaaaagactttctcatgtaactgcc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2368260 51 - 149736546 CTAAAATAGCTAAGGCATAAGGATGACAGAAACATCC--CTCATCTGACTGGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669574 52 +  45876710 cct-gatagctgttgcataaagaaaacagaaaattgtttctcatgtaactgtc
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             876629 69 -   1687904 I

a score=13312838.000000
s hg38.chr12_GL383549v1_alt     17279 1030 +    120804  
s panTro5.chr12              62712169 1030 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60838887 1029 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3054169 1032 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7237949 1031 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104553795 1054 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108953257 1053 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1331082 1058 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8231541 1048 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100722811 1035 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       117671 1043 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3506195 1047 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11339477 1052 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       795032 1030 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1808982 1034 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2927128 1084 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5023679 1066 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4515404 1056 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2368311 1034 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19669626 1007 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             876698 1009 -   1687904  
i dasNov3.JH562883          I 69 I 445

a score=462228.000000
s hg38.chr12_GL383549v1_alt     18309 33 +    120804 gttaagactAAGAGTTCTGATTTTTATAAGGAC
s panTro5.chr12              62713199 33 + 137163284 gttaagactAAGAGTTCTGATTTTTATAAGGAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60839916 33 + 135337776 gttaagactAAGAGTTCTGATTTTTATAAGGAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055201 33 -  32808036 gttaagactAAGAGTTCTGATTTTTATAAGGAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7238980 33 +  34552619 gttaagactAAGAGTTCTGATTTTTATAAGGAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104554849 33 - 133663169 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108954310 33 - 137757926 gttaaggctAAGAGTTCTGATTTTTATAAGGAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332140 33 -   7948249 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8232589 33 -  10730278 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100723846 33 - 128539186 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       118714 33 +    435186 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507242 33 +   9309688 gttaagcctAAGAGTTCTGATTTTTATAAGGAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11340529 33 -  29834108 gttaagactAAGAGTTCTGATTTTTATAAGAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796062 33 -   1015025 gttaagactAAGAGTTCTGATTTTTATAAGAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810016 33 -   2295209 gttaagactgAGAGTTCTGATTTTTATAAGAAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2928212 32 +  31815103 gttaagactAAAGGTTCTG-TCTTTATAAAGAC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5024745 32 +  13104022 gttaagactAAAGGTTCTG-TCTTTATAAGGAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4516460 32 -  12054995 gttaagactAAAGGTTCTG-TCTTTATAAGGAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2369345 25 - 149736546 GCTAA--------GTCCTGTTCTTCATAAGGAC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19670633 33 +  45876710 tttaagactAAGCATTCTGGTCTTTATAAGGAC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             877707 445 -   1687904 I

a score=6523854.000000
s hg38.chr12_GL383549v1_alt     18342 493 +    120804  
s panTro5.chr12              62713232 480 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60839949 480 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055234 480 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239013 493 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104554882 493 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108954343 493 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332173 493 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8232622 493 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100723879 493 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       118747 493 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507275 493 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11340562 486 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796095 485 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810049 486 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2928244 490 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5024777 487 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 297
s otoGar3.GL873576            4516492 468 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2369370 476 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19670666 495 +  45876710  
i canFam3.chr27             C 0 I 18
s dasNov3.JH562883             878152 430 -   1687904  
i dasNov3.JH562883          I 445 C 0

a score=30081.000000
s hg38.chr12_GL383549v1_alt     18835 3 +    120804 TAC--
s panTro5.chr12              62713712 3 + 137163284 TAC--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840429 3 + 135337776 TAC--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055714 3 -  32808036 TAC--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239506 3 +  34552619 TAC--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555375 3 - 133663169 TAC--
i rheMac8.chr11             C 0 I 3
s macFas5.chr11             108954836 3 - 137757926 TAC--
i macFas5.chr11             C 0 I 3
s macNem1.NW_012011422v1      1332666 3 -   7948249 TAC--
i macNem1.NW_012011422v1    C 0 I 3
s cerAty1.NW_011999477v1      8233115 3 -  10730278 TAC--
i cerAty1.NW_011999477v1    C 0 I 3
s chlSab2.chr11             100724372 3 - 128539186 TAC--
i chlSab2.chr11             C 0 I 3
s manLeu1.NW_012101287v1       119240 3 +    435186 TAC--
i manLeu1.NW_012101287v1    C 0 I 3
s colAng1.NW_012114364v1      3507768 3 +   9309688 TAC--
i colAng1.NW_012114364v1    C 0 I 3
s saiBol1.JH378123           11341048 3 -  29834108 TAC--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796580 3 -   1015025 TAC--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810535 3 -   2295209 tac--
i aotNan1.NW_018488218v1    C 0 I 263
s micMur3.chr21               2928734 3 +  31815103 TAC--
i micMur3.chr21             C 0 I 711
s otoGar3.GL873576            4516960 3 -  12054995 GGC--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2369846 3 - 149736546 TAC--
i mm10.chr6                 C 0 I 1472
s canFam3.chr27              19671179 3 +  45876710 tag--
i canFam3.chr27             I 18 I 11
s dasNov3.JH562883             878582 3 -   1687904 --CAG
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I

a score=27285.000000
s hg38.chr12_GL383549v1_alt     18838 20 +    120804 ATTCAGTAACGA--------AAAGACTT
s panTro5.chr12              62713715 20 + 137163284 ATGCGGTAACGA--------AAAGACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840432 20 + 135337776 ATGTGGTAACGA--------AAAGACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055717 20 -  32808036 ATGCGGTAACAA--------AAAGACTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239509 20 +  34552619 ATGCAGTAAAGA--------AAAGACTT
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341051 20 -  29834108 CTGCAATAAAGA--------AAGGACTT
i saiBol1.JH378123          C 0 I 33
s cebCap1.NW_016107911v1       796583 20 -   1015025 CTGCAATAAAGA--------AAAGActt
i cebCap1.NW_016107911v1    C 0 I 101
s otoGar3.GL873576            4516963 17 -  12054995 -TGGAATTAACA--------AGAAAG--
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19671193 28 +  45876710 ttaaaataacaagtttgactggagactc
i canFam3.chr27             I 11 I 16
s dasNov3.JH562883             878585 20 -   1687904 CAGGAGAAAAGA--------AAGGACAT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e aotNan1.NW_018488218v1      1810538 263 -   2295209 I
e colAng1.NW_012114364v1      3507771  3 +   9309688 I
e manLeu1.NW_012101287v1       119243  3 +    435186 I
e chlSab2.chr11             100724375  3 - 128539186 I
e cerAty1.NW_011999477v1      8233118  3 -  10730278 I
e macNem1.NW_012011422v1      1332669  3 -   7948249 I
e macFas5.chr11             108954839  3 - 137757926 I
e rheMac8.chr11             104555378  3 - 133663169 I

a score=-2041.000000
s hg38.chr12_GL383549v1_alt     18858 1 +    120804 -A
s panTro5.chr12              62713735 1 + 137163284 -A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840452 1 + 135337776 -A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055737 1 -  32808036 -A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239529 1 +  34552619 -A
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341104 1 -  29834108 -G
i saiBol1.JH378123          I 33 I 68
s otoGar3.GL873576            4516980 1 -  12054995 -A
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             878605 1 -   1687904 C-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e canFam3.chr27              19671221 16 +  45876710 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e aotNan1.NW_018488218v1      1810538 263 -   2295209 I
e cebCap1.NW_016107911v1       796603 101 -   1015025 I
e colAng1.NW_012114364v1      3507771 3 +   9309688 I
e manLeu1.NW_012101287v1       119243 3 +    435186 I
e chlSab2.chr11             100724375 3 - 128539186 I
e cerAty1.NW_011999477v1      8233118 3 -  10730278 I
e macNem1.NW_012011422v1      1332669 3 -   7948249 I
e macFas5.chr11             108954839 3 - 137757926 I
e rheMac8.chr11             104555378 3 - 133663169 I

a score=59426.000000
s hg38.chr12_GL383549v1_alt     18859 23 +    120804 TTTTACTTTATA---A-CTTTTATGAa
s panTro5.chr12              62713736 23 + 137163284 TTTTACTTTATA---A-CTTTTATGAa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840453 23 + 135337776 TTTTACTTTATA---A-CTTTTATGAa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055738 23 -  32808036 TTTTACTTTATA---A-CTTTTATGAa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239530 23 +  34552619 TTTTACTTTATA---A-CTTTTATGAa
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341173 23 -  29834108 TTTTACTCTATA---A-CTTTtatgaa
i saiBol1.JH378123          I 68 C 0
s cebCap1.NW_016107911v1       796704 23 -   1015025 ttttactctata---a-cttttatgaa
i cebCap1.NW_016107911v1    I 101 C 0
s otoGar3.GL873576            4516981 24 -  12054995 CTTTACTATGTA---ATCCCTTAAGAC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19671237 23 +  45876710 tgttattctata---g-tttttataaa
i canFam3.chr27             I 16 C 0
s dasNov3.JH562883             878606 26 -   1687904 GTTTAGTCTCTAGAga-ctttaaagaa
i dasNov3.JH562883          C 0 I 1021
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e aotNan1.NW_018488218v1      1810538 263 -   2295209 I
e colAng1.NW_012114364v1      3507771  3 +   9309688 I
e manLeu1.NW_012101287v1       119243  3 +    435186 I
e chlSab2.chr11             100724375  3 - 128539186 I
e cerAty1.NW_011999477v1      8233118  3 -  10730278 I
e macNem1.NW_012011422v1      1332669  3 -   7948249 I
e macFas5.chr11             108954839  3 - 137757926 I
e rheMac8.chr11             104555378  3 - 133663169 I

a score=45594.000000
s hg38.chr12_GL383549v1_alt     18882 19 +    120804 tgtatatgaatatatacac
s panTro5.chr12              62713759 19 + 137163284 tgtatatgaatatatacac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840476 19 + 135337776 tgtatatgaatatatacac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055761 19 -  32808036 tgtatatgaatatatacac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239553 19 +  34552619 tgtatattaatatatacac
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341196 19 -  29834108 tgtatatgaatatatacgc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796727 19 -   1015025 tgtatatgaatatatacac
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4517005 19 -  12054995 TTTAAAGAACTAGCTTCAC
i otoGar3.GL873576          C 0 I 1002
s canFam3.chr27              19671260 19 +  45876710 tgtatatgagtatatacgt
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e aotNan1.NW_018488218v1      1810538 263 -   2295209 I
e dasNov3.JH562883             878632 1021 -   1687904 I
e colAng1.NW_012114364v1      3507771  3 +   9309688 I
e manLeu1.NW_012101287v1       119243  3 +    435186 I
e chlSab2.chr11             100724375  3 - 128539186 I
e cerAty1.NW_011999477v1      8233118  3 -  10730278 I
e macNem1.NW_012011422v1      1332669  3 -   7948249 I
e macFas5.chr11             108954839  3 - 137757926 I
e rheMac8.chr11             104555378  3 - 133663169 I

a score=63730.000000
s hg38.chr12_GL383549v1_alt     18901 32 +    120804 acacatatatacatagacatataaacgtattt
s panTro5.chr12              62713778 32 + 137163284 acacatatatacatagacatataaatgtattt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840495 32 + 135337776 tcacatatatacatagacatataaatgtattt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055780 32 -  32808036 acacatatatacatagacatataaatgtattt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239572 32 +  34552619 acacatatatacatagacatataaatgtactt
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341215 32 -  29834108 acacatatatacacagacatataaatgtatta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796746 32 -   1015025 acacatatatacacagacatataaatgtatta
i cebCap1.NW_016107911v1    C 0 C 0
s canFam3.chr27              19671279 32 +  45876710 atatatatgcatataagcatatatatgagata
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4517024 1002 -  12054995 I
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e aotNan1.NW_018488218v1      1810538 263 -   2295209 I
e dasNov3.JH562883             878632 1021 -   1687904 I
e colAng1.NW_012114364v1      3507771  3 +   9309688 I
e manLeu1.NW_012101287v1       119243  3 +    435186 I
e chlSab2.chr11             100724375  3 - 128539186 I
e cerAty1.NW_011999477v1      8233118  3 -  10730278 I
e macNem1.NW_012011422v1      1332669  3 -   7948249 I
e macFas5.chr11             108954839  3 - 137757926 I
e rheMac8.chr11             104555378  3 - 133663169 I

a score=2300.000000
s hg38.chr12_GL383549v1_alt     18933 1 +    120804 t
s panTro5.chr12              62713810 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840527 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055812 1 -  32808036 t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239604 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341247 1 -  29834108 t
i saiBol1.JH378123          C 0 I 293
s cebCap1.NW_016107911v1       796778 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 I 26
s aotNan1.NW_018488218v1      1810801 1 -   2295209 t
i aotNan1.NW_018488218v1    I 263 C 0
s canFam3.chr27              19671311 1 +  45876710 c
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4517024 1002 -  12054995 I
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e dasNov3.JH562883             878632 1021 -   1687904 I
e colAng1.NW_012114364v1      3507771 3 +   9309688 I
e manLeu1.NW_012101287v1       119243 3 +    435186 I
e chlSab2.chr11             100724375 3 - 128539186 I
e cerAty1.NW_011999477v1      8233118 3 -  10730278 I
e macNem1.NW_012011422v1      1332669 3 -   7948249 I
e macFas5.chr11             108954839 3 - 137757926 I
e rheMac8.chr11             104555378 3 - 133663169 I

a score=3276.000000
s hg38.chr12_GL383549v1_alt     18934 1 +    120804 a
s panTro5.chr12              62713811 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840528 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055813 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239605 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341541 1 -  29834108 a
i saiBol1.JH378123          I 293 C 0
s cebCap1.NW_016107911v1       796805 1 -   1015025 a
i cebCap1.NW_016107911v1    I 26 C 0
s aotNan1.NW_018488218v1      1810802 1 -   2295209 a
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19671312 1 +  45876710 a
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4517024 1002 -  12054995 I
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e dasNov3.JH562883             878632 1021 -   1687904 I
e colAng1.NW_012114364v1      3507771 3 +   9309688 I
e manLeu1.NW_012101287v1       119243 3 +    435186 I
e chlSab2.chr11             100724375 3 - 128539186 I
e cerAty1.NW_011999477v1      8233118 3 -  10730278 I
e macNem1.NW_012011422v1      1332669 3 -   7948249 I
e macFas5.chr11             108954839 3 - 137757926 I
e rheMac8.chr11             104555378 3 - 133663169 I

a score=38217.000000
s hg38.chr12_GL383549v1_alt     18935 19 +    120804 ----t------------------------------------------------------atatgtatatatGCAAGC
s panTro5.chr12              62713812 19 + 137163284 ----t------------------------------------------------------atatgtatatatGCAAGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840529 19 + 135337776 ----t------------------------------------------------------atatgtatatatGCAAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055814 19 -  32808036 ----t------------------------------------------------------atatgtatatatGCAAGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239606 73 +  34552619 ----tatatatacacatatatatatatatacacacacacacatacacacacacacacacatatatatatatGCAAGC
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341542 19 -  29834108 ----t------------------------------------------------------atatacacatatgtaAGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796806 19 -   1015025 ----t------------------------------------------------------atatatatatatGCAAGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810803 19 -   2295209 ----t------------------------------------------------------atgtatatatatGCAAGC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518026 19 -  12054995 ----T------------------------------------------------------ATATGAATATAAGCGTGC
i otoGar3.GL873576          I 1002 C 0
s canFam3.chr27              19671313 23 +  45876710 tacat------------------------------------------------------acatatatatTTCTTAGC
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e dasNov3.JH562883             878632 1021 -   1687904 I
e colAng1.NW_012114364v1      3507771  3 +   9309688 I
e manLeu1.NW_012101287v1       119243  3 +    435186 I
e chlSab2.chr11             100724375  3 - 128539186 I
e cerAty1.NW_011999477v1      8233118  3 -  10730278 I
e macNem1.NW_012011422v1      1332669  3 -   7948249 I
e macFas5.chr11             108954839  3 - 137757926 I
e rheMac8.chr11             104555378  3 - 133663169 I

a score=2865.000000
s hg38.chr12_GL383549v1_alt     18954 1 +    120804 T
s panTro5.chr12              62713831 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840548 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055833 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239679 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11341561 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796825 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810822 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518045 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19671336 1 +  45876710 T
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             879653 1 -   1687904 T
i dasNov3.JH562883          I 1021 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I
e colAng1.NW_012114364v1      3507771 3 +   9309688 I
e manLeu1.NW_012101287v1       119243 3 +    435186 I
e chlSab2.chr11             100724375 3 - 128539186 I
e cerAty1.NW_011999477v1      8233118 3 -  10730278 I
e macNem1.NW_012011422v1      1332669 3 -   7948249 I
e macFas5.chr11             108954839 3 - 137757926 I
e rheMac8.chr11             104555378 3 - 133663169 I

a score=257278.000000
s hg38.chr12_GL383549v1_alt     18955 25 +    120804 GGGCCATTCTAGTTCTCTTTCCTCA
s panTro5.chr12              62713832 25 + 137163284 GGGCCATTCTAGTTCTCTTTCCTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840549 25 + 135337776 GGGCCATTCTAGTTCTCTTTCCTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055834 25 -  32808036 GGGCCATTCTAGTTATCTTTCCTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239680 25 +  34552619 GGGCCATTCCAGTTCTCTTTCCTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555381 25 - 133663169 GGGCCATTCTAATTCTCTTTCCTCA
i rheMac8.chr11             I 3 C 0
s macFas5.chr11             108954842 25 - 137757926 GGGCCATTCTAATTCTCTTTCCTCA
i macFas5.chr11             I 3 C 0
s macNem1.NW_012011422v1      1332672 25 -   7948249 GGGCCATTCTAATTCTCTTTCCTCA
i macNem1.NW_012011422v1    I 3 C 0
s cerAty1.NW_011999477v1      8233121 25 -  10730278 GGGCCATTCTAATTCTCTTTCCTCA
i cerAty1.NW_011999477v1    I 3 C 0
s chlSab2.chr11             100724378 25 - 128539186 GGGCCATTCTAGTTCTCTTTCCTCA
i chlSab2.chr11             I 3 C 0
s manLeu1.NW_012101287v1       119246 25 +    435186 GGGCCATTCTAATTCTCTTTCCTCA
i manLeu1.NW_012101287v1    I 3 C 0
s colAng1.NW_012114364v1      3507774 25 +   9309688 GGGCCATTCTAGTTCTCTTTCCTCA
i colAng1.NW_012114364v1    I 3 C 0
s saiBol1.JH378123           11341562 25 -  29834108 GGGTCGTTCTAGTCCTCTTTCCTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796826 25 -   1015025 GGGTCGTTCTAGTCCTCTTTCCTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810823 25 -   2295209 GGGTCGTTCTAGTCCTCTTCCCTCA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518046 25 -  12054995 CAGCCTTTCTAGGCCTCCTTCCATG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19671340 25 +  45876710 GTGTCAATCTAGTGTCCTTCTTTTA
i canFam3.chr27             I 3 I 1552
s dasNov3.JH562883             879654 24 -   1687904 GGGCTGCTCTCGGTCCCCT-CCTCA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I

a score=211028.000000
s hg38.chr12_GL383549v1_alt     18980 24 +    120804 CTGCACTATAAAGGGCTGCTCTGT
s panTro5.chr12              62713857 24 + 137163284 CTGCACTATAAAGGGATGCTCTGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840574 24 + 135337776 CTGCACTATAAAGGGATACTCTGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055859 24 -  32808036 CTGCACTGTAAAGGGTTGCTCTGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239705 24 +  34552619 CTGCACTATAAAGGGCTGCTCTGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555406 24 - 133663169 CTGTACTATAAAGAGCTGCTCTGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108954867 24 - 137757926 CTGTACTATAAAGAGCTGCTCTGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332697 24 -   7948249 CTGTACTATAAAGAGCTGCTCTGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233146 24 -  10730278 CTGTACTATAAAGAGCTGCTCTGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724403 24 - 128539186 CTGTACTATAAAGAGCTGCTCTGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119271 24 +    435186 CTGTACTATAAAGAGCTGCTCTGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507799 24 +   9309688 CTGTACTATAAAGAGCTGCTCTGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341587 24 -  29834108 CTGTACTATCAAGGGCTGCTCCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796851 24 -   1015025 CTGTACTATCAAGGGCTGCTCCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810848 24 -   2295209 CTGTACTATCAAGGGCTGCTCCAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518071 24 -  12054995 CTCTACCACTAACGGCTGATCCTT
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             879678 23 -   1687904 CTCTTCCCTCAGGGGCTGTCCTT-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e canFam3.chr27              19671365 1552 +  45876710 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I

a score=519518.000000
s hg38.chr12_GL383549v1_alt     19004 51 +    120804 AAGAATCTACCTGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
s panTro5.chr12              62713881 51 + 137163284 AAGAGTCTACCTGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840598 51 + 135337776 AAGAGTCTACCTGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055883 51 -  32808036 AAGAATCTACCTGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGCCTC-------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239729 51 +  34552619 AAGAATCTACCTGGTAAGAGGCAAGCACGAATCTTTCTGTTT-GTCAGGCTT-------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555430 51 - 133663169 AAGAGTCTACGCGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108954891 51 - 137757926 AAGAGTCTACGCGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332721 51 -   7948249 AAGAGTCTACGCGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233170 51 -  10730278 AAGAGTCTACGCGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724427 51 - 128539186 AAGAATCTACCCGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119295 51 +    435186 AAGAGTCTACGTGGTAAGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507823 51 +   9309688 AAGAATCTACCCGGTAAGAGGCAAGCCTGAATCTTTCTGTTT-GTCAGGCTC-------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341611 51 -  29834108 AAGAATCTACCTGGGAGGAAGCAAGCATTAATCTTTCTGTTT-GTCAGGCTC-------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       796875 51 -   1015025 AAGAATCTACCTGGGAGGAGGCAAGCATGAATCTTTCTTTTT-GTCAGGCTC-------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1810872 51 -   2295209 AAGAATCTACCTGGGAGGAGGCAAGCATGAATCTTTCTGTTT-GTCAGGCTC-------------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518095 46 -  12054995 AAGAATCTACCAGGGAAGAAGCAAG-----ATCTCTCCATTC-ACCAGGCTT-------------------
i otoGar3.GL873576          C 0 I 8
s canFam3.chr27              19672917 42 +  45876710 AAGAATACACTAGGGAAGAAGCAGGCATGAATCTCTCTGTTC-----------------------------
i canFam3.chr27             I 1552 C 0
s dasNov3.JH562883             879701 70 -   1687904 AAGAATTCTTCCAAAAAGACGCAAGCACG-GTGTCCCTGTTCCACCAGGCCCGCGATGTCCAGGGCCACCC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025264 297 +  13104022 I

a score=1035804.000000
s hg38.chr12_GL383549v1_alt     19055 88 +    120804 CAGA------------CTTCCCAGAATTCTCTTCCCACACTCTGCCTAAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
s panTro5.chr12              62713932 88 + 137163284 CAGA------------GTTCCCAGAATTCTCTTCCCACACTCTGCCTAAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840649 88 + 135337776 CAGA------------GTTCCCAGAATTCTCTTCCCACACTCTGCCTAAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3055934 88 -  32808036 CAGA------------CTTCCCAGAATTCTCTTCCCACACTCTGCCTAAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239780 88 +  34552619 CAGA------------CTTCCCAGAATTCTCTTCCCACACTCTGCCTAACGGGCGACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGAAAGCCTCCAGG-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555481 86 - 133663169 CAAA------------CTTCCCAGAATTCTCTTCCCACA--CTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108954942 88 - 137757926 CAAA------------CTTCCCAGAATTCTCTTCCCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332772 88 -   7948249 CAAA------------CTTCCCAGAATTCTCTTCCCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233221 88 -  10730278 CAAA------------CTTCCCAGAATTCTCTTCCCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724478 88 - 128539186 CAAA------------CTTCCCAGAATTCTCTTCCCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119346 88 +    435186 CAAA------------CTTCCCAGAATTCTCTTCTCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507874 88 +   9309688 CAAA------------CTTCCCAGAATTCTCTTCCCACACTCTGCTTCAGGGGCAACAGTGGAGCAGCTTGCAGATGTTCTAGCATAGCAAGCCTCCAGG-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341662 88 -  29834108 CATA------------TTTCCCAGAATTCTCTTCCTGCACTCTGCTCCAGGGGCAACAGTGGAGCAGCCTGCAGATGTCCTAGCATAGCAAGCCTGCACG-----
i saiBol1.JH378123          C 0 I 5
s cebCap1.NW_016107911v1       796926 88 -   1015025 CATA------------TTTCCCAGAATTCTCTTCCCGCACTCTGCTGCAGGGGCAACAGCGGAGCAGCCTGCAGATGTCCTAGCACAGCAAGCCTGCACG-----
i cebCap1.NW_016107911v1    C 0 I 5
s aotNan1.NW_018488218v1      1810923 88 -   2295209 CATA------------TTTCTCAGAATTCTCTTCCTGCACTCTGCTTCAGGGGCAACAGTGGAGCAGCCTGCAGATGTCCTAGCATAGCAAGCCCGCAGG-----
i aotNan1.NW_018488218v1    C 0 I 8
s proCoq1.NW_012140524v1      5025561 88 +  13104022 CAGG------------CTCCCCAAAATCCTCTTTCCACACTCTGCTCCAGGGGCAACACTGCAGCAGCCTGCAGATATGCCAGAATAGCAAACCTCTAGA-----
i proCoq1.NW_012140524v1    I 297 I 5
s otoGar3.GL873576            4518149 99 -  12054995 CAGGGTCACATGCCAACTTCCCAGATGCCACTTTTCACACTCAGCTCCAGGGGCAACACCAGAAGAGCCTGCAGATATCTCAGCGTAG-AAACCTCTGGC-----
i otoGar3.GL873576          I 8 I 5
s canFam3.chr27              19672959 82 +  45876710 ---A------------CTTCCCAGAATCTTCTCTTCACACTCTGCTC---AGGCAATGCCAGAGCAACCTACAGATGCCCCAGCATAGCAAGCCTCCAGG-----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             879771 92 -   1687904 CAGA------------CTTGCCGTGGTGCTTGGTCCACACTGTGCTCCAGGGCCAAGGCTAGAGTAGCCCGGAGACG-CCCAGCGCAGCAAGCCGCCAGCCGGCG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I

a score=99836.000000
s hg38.chr12_GL383549v1_alt     19143 10 +    120804 ATGAGGC------CCC
s panTro5.chr12              62714020 10 + 137163284 ATGAGGC------CCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840737 10 + 135337776 ATGAGGC------CCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056022 10 -  32808036 ATGAGGC------CCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239868 10 +  34552619 ATGAGGC------CCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555567 10 - 133663169 ATGTGGC------CCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955030 10 - 137757926 ATGTGGC------CCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332860 10 -   7948249 ATGTGGC------CCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233309 10 -  10730278 ATGTGGC------CCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724566 10 - 128539186 ATGTGGC------CCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119434 10 +    435186 ATGTGGC------CCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507962 10 +   9309688 ATGTGGC------CCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341755 10 -  29834108 ATGAGAC------CCC
i saiBol1.JH378123          I 5 C 0
s cebCap1.NW_016107911v1       797019 10 -   1015025 ATGAGTC------CCC
i cebCap1.NW_016107911v1    I 5 C 0
s proCoq1.NW_012140524v1      5025654 10 +  13104022 ATAAGGT------CCC
i proCoq1.NW_012140524v1    I 5 C 0
s otoGar3.GL873576            4518253 10 -  12054995 ATGAGGT------CCC
i otoGar3.GL873576          I 5 C 0
s canFam3.chr27              19673041 15 +  45876710 -TGAGGCAAAGTTCCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             879863 10 -   1687904 AGGGCGC------CCC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e aotNan1.NW_018488218v1      1811011  8 -   2295209 I

a score=670535.000000
s hg38.chr12_GL383549v1_alt     19153  71 +    120804 AGTCTCTT-------------CTTCCAGGGGACTCGTGGT--------------------------------------------------------------------------GTTTAGGACCTCTT-ACT-TGTCTTGGAGAAATGCTACAGCACTAC
s panTro5.chr12              62714030  71 + 137163284 AGTCTCTT-------------CTTTCAGGGGACTCGTGGT--------------------------------------------------------------------------GTTTAGGACCTCTT-ACT-TGTCTTGGAGAAATGCTACAGCACTAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840747  71 + 135337776 AGTCTCTT-------------CTTTCAGGGGACTCGTGGT--------------------------------------------------------------------------GTTTAGGACCTCTT-ACT-TGTCTTGGAGAAATGCTACAGCACTAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056032  71 -  32808036 AGTCTCTT-------------CTTTCAGGTGACTCGTGGT--------------------------------------------------------------------------GTTTAGGACCTCTT-ACT-TGTCTTGGAGAAATGCTACAGCACCGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239878  71 +  34552619 AGTCTCTT-------------CTGTCGGGGGCCTCATGGT--------------------------------------------------------------------------GTTGGGGACCTCTT-ACT-TGTCTTGGGGAAATGCTACAGCACTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555577  70 - 133663169 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAGATGCTACAGCACTA-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955040  70 - 137757926 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAGATGCTACAGCACTA-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332870  70 -   7948249 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAGATGCTACAGCACTA-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233319  71 -  10730278 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTTAACT-TGTCTTGGGGAAATGCTACAGCACTA-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724576  70 - 128539186 AGTCTCTT-------------CTTTCAGGAGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAAATGCTACAGCACTA-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119444  70 +    435186 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAAATGCTACAGCACTA-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3507972  70 +   9309688 AGTCTCTT-------------CTTTCAGGGGCCTCGTGGT--------------------------------------------------------------------------GCTCAGGACCTCTT-ACT-TGTCTTGGGGAAATGCTACAGCACTA-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341765  71 -  29834108 AGTCTCTT-------------CTTTCAGGGGCGTCACTGT--------------------------------------------------------------------------GCTTGGGACCTCTT-ATC-TGTCTTGGGGAAATCCTACAGCACTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797029  71 -   1015025 AGTTTCTT-------------CTTTCAGGGGCGTCACTGT--------------------------------------------------------------------------GCTTGGGACCTCTT-ACC-TGTCTTGGGGAAATCCTACAGCACTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811019  71 -   2295209 AGACTCTT-------------CTTTCAGGGGCGTCACGGT--------------------------------------------------------------------------GCTTGGGACCTCTT-ACC-TGTATTGGGGAAATCCTACAGCACTAT
i aotNan1.NW_018488218v1    I 8 C 0
s proCoq1.NW_012140524v1      5025664  71 +  13104022 AGTCTCTC-------------CTATCAGGGACCTCACAAT--------------------------------------------------------------------------GCTTGGAACCTCTT-ACT-TGTCTTGGGGAGATGGCACAGCACTAC
i proCoq1.NW_012140524v1    C 0 I 14
s otoGar3.GL873576            4518263 143 -  12054995 ATTCTCTT-------------CCATCAGGGACCTCACAATGCCCACCCCACTCCCCACTCTCCAAGCCCCAAATCAGCCAGCAGAGCTATTCAGTCCCACATAGGATTCTCCTAGCTCATAACCTCTT-ACTCTGGCTTGGAT---TGTCACAGCACTAC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19673056  84 +  45876710 AGTCTCCCTCACCAGAGAGAGCTCCCTGGGAGCACACGAT--------------------------------------------------------------------------GTTTAAAGCCAGTT-CCT-TGTTTTAGGGAAATATCACAGCTCCAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             879873  63 -   1687904 -ATCTCTC-------------CCTTC--GGCACCCACAGC-----------------------------------------------------------------------------CAGAGCTCCCT-GCC-T-TCCAGGGGAAACGCCCCAGGACCG-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I

a score=113221.000000
s hg38.chr12_GL383549v1_alt     19224 31 +    120804 TTACCACAGCACTGCTTACTGAAAATGTACT
s panTro5.chr12              62714101 31 + 137163284 TTACCACAGCACTGCTTACTGAAAATGTACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840818 31 + 135337776 TTACCACAGCACTGCTTACTGAAAATGTACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056103 31 -  32808036 TTACCACAGCACTGCTTACTGAAAATGTACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239949 31 +  34552619 CTACTACAGCACTGCTTACTGAAAATGTACT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555647 17 - 133663169 --------------CTTACTGAAAATGTACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955110 17 - 137757926 --------------CTTACTGAAAATGTACT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332940 17 -   7948249 --------------CTTACTGAAAATGTACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233390 17 -  10730278 --------------CTTACTGAAAATGTACT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724646 17 - 128539186 --------------CTTACTGAAAATGTACT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119514 17 +    435186 --------------CTTACTGAAAATGTACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508042 17 +   9309688 --------------CTTACTGAAAATGTACT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341836 21 -  29834108 CTAC----------TAGACTGAAAACATATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797100 21 -   1015025 CTAC----------TAGGCTGAAAACATATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811090 21 -   2295209 CTAC----------TAGACTGAAAACGTGTT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518406 14 -  12054995 --------------CTACCAGAGAA---ACT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19673140 21 +  45876710 CTAC----------TAGATTGAAAACATACT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             879936 13 -   1687904 --------------AGCACTG---ATGGGC-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e proCoq1.NW_012140524v1      5025735 14 +  13104022 I

a score=67218.000000
s hg38.chr12_GL383549v1_alt     19255 5 +    120804 AGTCC
s panTro5.chr12              62714132 5 + 137163284 AGTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840849 5 + 135337776 AGTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056134 5 -  32808036 AGTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239980 5 +  34552619 AGTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555664 5 - 133663169 AGTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955127 5 - 137757926 AGTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332957 5 -   7948249 AGTCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233407 5 -  10730278 AGTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724663 5 - 128539186 AGTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119531 5 +    435186 AGTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508059 5 +   9309688 AGTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341857 5 -  29834108 AGTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797121 5 -   1015025 AGTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811111 5 -   2295209 AGTCC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5025749 5 +  13104022 AGTCC
i proCoq1.NW_012140524v1    I 14 C 0
s otoGar3.GL873576            4518420 5 -  12054995 AGCTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19673161 5 +  45876710 AATCC
i canFam3.chr27             C 0 I 231
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e dasNov3.JH562883             879949 0 -   1687904 C

a score=195264.000000
s hg38.chr12_GL383549v1_alt     19260 17 +    120804 TATGCATTCTCTGTTTC
s panTro5.chr12              62714137 17 + 137163284 TATGCATTCTCTGTTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840854 17 + 135337776 TATGCATTCTCTGATTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056139 17 -  32808036 TATGCATTCTCTGTTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7239985 17 +  34552619 TATGCATTCTCTATTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555669 17 - 133663169 TATGCATTCTCTATTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955132 17 - 137757926 TATGCATTCTCTATTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332962 17 -   7948249 TATGCATTCTCTATTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233412 17 -  10730278 TATGCATTCTCTATTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724668 17 - 128539186 TATGCATTGTCTATTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119536 17 +    435186 TATGCATTCTCTATTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508064 17 +   9309688 TATGCATTCTCTATTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341862 17 -  29834108 TATACATTCTCTATTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797126 17 -   1015025 TATACATTCTCTATTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811116 17 -   2295209 TATACATTCTCTATTCC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5025754 17 +  13104022 TATGAATTCTCTACTTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4518425 17 -  12054995 CATGAATTCTCTACTTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19673397 17 +  45876710 TATGAATTCTCCACTTC
i canFam3.chr27             I 231 C 0
e mm10.chr6                   2369849 1472 - 149736546 I
e micMur3.chr21               2928737 711 +  31815103 I
e dasNov3.JH562883             879949  0 -   1687904 C

a score=2060725.000000
s hg38.chr12_GL383549v1_alt     19277 169 +    120804 AAAAGATTCTTGAATGTCTAATC-TTTTCCCTATA-TAAGTGGTAATgtgggggatggaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtatcttagcatctagtggtcccaactttgaggctttagctgaaatctgagata
s panTro5.chr12              62714154 169 + 137163284 AAAAGATTCTTGAATGTCTAATC-TTTTCCCTATA-TAAGTGGTAATgtgggggatggaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtatcttagcatctagtggtcccaactttgaggctttagctgaaatctgagata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60840871 169 + 135337776 AAAAGATTCTTGAATGTCTAATC-TTTTCCCTATA-TAAGTGGTAATgtgggggatggaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtatcttagcatctagtggtcccaactttgaggctttagctgaaatctgagata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056156 169 -  32808036 AAAAGATTCTTGAATGTCTAATC-TTTTCCCTATA-TAAGTGGTAATgtgggggatggaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtatcttagcatctagtggtcccaactttgaggctttagctgaaatctgagata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240002 169 +  34552619 AAAAGATTCTTGAATGTCTAATC-TTTTATCTATA-TAAGTGGTAATgtgggggatggaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggcgtaccttagcatctagtgttcccaactttgaggctttagctgaaatctgagata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555686 170 - 133663169 AAAAGATTCTTGAATGTCTGATc-ttttctctatattaactggtaatgtgggggatgcaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtaccttagcatcttgtgttctcaactttgaggctttagctgaaatctgagata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955149 170 - 137757926 AAAAGATTCTTGAATGTCTGATC-TTTTCTCTATATTAAGTGGTAATgtgggggatgcaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtaccttagcatcttgtgttctcaactttgaggctttagctgaaatctgagata
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1332979 170 -   7948249 AAAAGATTCTTGAATGTCTGATC-TTTTCTCTATATTAAGTGGTAATgtgggggatgcaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtaccttagcatctagtgttctcaactttgaggctttagctgaaatctgagata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233429 170 -  10730278 AAAAGATTCTTGAATGTCTGATC-TTTTCTCTATATTAAGTGGTAATGTGGGGGATGCAATCAGGACCACTGAGCTACATTTCAGGAAGTCCTGCAGAA----------------TTTCTTTAAAATGTGGGGGTACATTAGCATCTAGTGTTCTCAACTTTGAGGCTTTAGCTGAAATCTGAGATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724685 170 - 128539186 AAAAGATTCTTGAATGTCTAATC-TTTTCTCTATATTAAGTGGTAATGTGGGGGATGCAATTAGGACCACTGAGCTACATTTCAGGAAGTCCTGCAGAA----------------tttctttaaaatgtgggggtaccttagcatctagtgttctcaactttgaggctttagctgaaatctgagata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119553 170 +    435186 AAAAGGTTCTTGAATGTCTGATC-TTTTCTCTATATTAAGTGGTAATgtgggggatgcaatcaggaccactgagctacatttcaggaagtcctgcagaa----------------tttctttaaaatgtgggggtaccttagcatctagtgttctcaactttgaggctttagctgaaatctgagata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508081 169 +   9309688 AAAAGATTCTTGAATGTCTAATC-TTTTCTCTATATTAAGTGGTAATGTGGAGGATGCAATcaggaccactgagctacatttcagaaagtcctgcagaa----------------tttctttaaaatgtggaggtaccttagcatctagtgttctcaactttgaggctttagctgaaatctgagat-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11341879 168 -  29834108 AAAAGATTCTTGAATGTCTAATC-TTTTCTCTTTA-TAAGTGGTAATgtggggaatggaatcaggaccactcagctacatttcaggaagtgctgcagaa----------------cttcttc-aaatgtgggagtcccttagcatctagtgttcccaactttgaggctttagctgaaatctgagata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797143 168 -   1015025 AAAAGATTCTTGAATGTCTAATC-TTTTCTCTATA-TAAGTAGTAATgtgggggatggaatcaggaccactcagctacatttcaggaagtgctgcagaa----------------cttcttc-aaatgtgggagtcccttagcatctactgttcccaactttgaggctttagctgaaatctgagata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811133 168 -   2295209 AAAAGAGTCTTGAATGTCTAATC-TTTTCTCTATA-TAAGTGGTAATGTGGGGGATGGAATCAGGACCACTCAGCTACATTTCAGGAAGAGCTGCAGAA----------------CTTCTTC-AAGTGTGGGAGTCCCTTAGCATCTAGTGTTCCCAACTTTGAGGCTTTAGCTGAAATCTGAGATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2929448 154 +  31815103 AAAAGATTCTTGAATGTCTAGTCTTTTTTTCTCTG-TAAGTGGTA--GTGGGTGAAGGAATT----------Agctacctttcagtaagtcctgcagaa----------------cttctttaaaatgtgagggta-cttagtacctagtgttcctaactttgaggcttcagctgaaatctaag---
i micMur3.chr21             I 711 C 0
s proCoq1.NW_012140524v1      5025771 153 +  13104022 AAAAGATTCTTGAATGTCTAGTCTTTTTTTTTGTG-TAAgtggta--gtggctgatggaatt----------ggctacctttcagtaagtcttgcagaa----------------tttctttaaaatgtg-gggta-cttagcatctagcgttcccaacttcgaggctttagctgAAATCTAAG---
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4518442 156 -  12054995 AAAAGAGTTTTTACTTTCAGGTC-TTTTTTCTCTA-TACgtgata--gtgggtgaccgaatt----------agctacctttcagcaagtactgcacaa----------------cttctttaaaatgtgggagtc-cttagcatctagtgttcccaatttgggggctttagctgaaatctgagaaa
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19673414 168 +  45876710 AAAGTATtcttgaatttctagtc-ttttctctgcc-tgagaggta--gggagtaatagaatcaggactcctctgctatatttcagtaagtcctgcagagaagtgtctgg--gactcctctttaaaatgtcagggta-cttaccagctagtattttcaactt------------tgaaacctgagATA
i canFam3.chr27             C 0 I 4
s dasNov3.JH562883             879949 174 -   1687904 ---GGATTCCTGG-CGTCTCGTC-CCTCCTCCGCA-CAGGTGG----ACGGGGTGAGGAGCT-GGACCGCGCGGTGACAGGT-AGCAACTTCTGTGGACATTCACCCAGCAGCTCTTCCTACGCAGCGTGggggca-cttagcacctagtgtgcccaacttcggggctctcgctgaaatctgagata
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2369849 1472 - 149736546 I

a score=781673.000000
s hg38.chr12_GL383549v1_alt     19446 71 +    120804 -------agtctcattcaacatt-ctgttgctaataatagt------aataataata---attgtaat--aataagaatattaGCTAAC-T
s panTro5.chr12              62714323 71 + 137163284 -------agtctcattcaacatt-ctgttgctaataatagt------aataataata---attgtaat--aataagaatattaGCTAAC-T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841040 71 + 135337776 -------agtctcattcaacatt-ctgttgctaatattagt------aataataata---attgtaat--aataagaatattaGCTAAC-T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056325 71 -  32808036 -------agtctcattcaacatt-ctgttgctaataatagt------aataataata---attgtaat--aataagaatattaGCTAAC-T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240171 72 +  34552619 -------agtctcgttcaacatt-ctattgctaataatagt------aataataata---attgtaat--aataaGaatattagctaacat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555856 69 - 133663169 -------agtctcattcaacatt-ctattgctaatactag---------taataata---attgtaat--aataaGaatattagctaacat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955319 69 - 137757926 -------agtctcattcaacatt-ctattgctaatactag---------taataata---attgtaat--aataaGaatattagctaacat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333149 69 -   7948249 -------agtctcattcaacatt-ctattgctaatactag---------taataata---attgtaat--aataaGaatattagctaacat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233599 69 -  10730278 -------AGTCTCATTCAACatt-ctattgctaatactag---------taataata---attgtaat--aataaGaatattagctaacat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724855 69 - 128539186 -------agtttcattcaacatt-ctattgctaataatag---------taataata---attgtaat--aataagaatattaGCTACCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119723 69 +    435186 -------agtctcattcaacatt-ctattgctaatactag---------taataata---attgtaat--aataaGaatattagctaacat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508250 69 +   9309688 -------agtctcattcaacatt-ctattgctaataatag---------taataata---attgtgat--aataaGaatattagctaacat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342047 69 -  29834108 -------agtctcattcaacatt-ctattgctaataataa---------taacaata---attgtaat--aataaGaacattaactagcat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797311 72 -   1015025 -------agtctcattcaacatt-ctgttgctaataatag---------taataataattattgtaat--aataaGaatattaactaacat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811301 69 -   2295209 -------AGTCTCATTCAACATT-CTATTGCtaatattag---------taataata---attgtaat--aataaGaatattaactaacat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2929602 70 +  31815103 ---------tctcattcaacatt-ctgttgctaataataat------attaataata---atggtaat--aaaaaCagtattagctaacat
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5025924 70 +  13104022 ---------TCTCATTCAATATT-CTGTGACtaaaaataat------attaataata---atggtaat--aaaaacaaGATtagctaacat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4518598 48 -  12054995 -------tttctcattcaacatt-ctgttgcTAATAAT-----------------------------------AACAGTGTtaactaacat
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2371321 72 - 149736546 -------agtctcATTTGCCTTT-CTATCACCACTACTAAC------AGTATTAGTT---AATATTATTAAATACTAATATTAGCTAAC--
i mm10.chr6                 I 1472 C 0
s canFam3.chr27              19673586 72 +  45876710 -------GGCCTCATTCAACATTGCTGTTGCTAAATGGAAT------AAGGATGATG---AAGGTGGT--AATaataat-ttagctaacat
i canFam3.chr27             I 4 C 0
s dasNov3.JH562883             880123 84 -   1687904 atcaaaaagcctcattcaacatt-cCATGGCTACGAATAATAACAACAAAAATAATT---ATGGTAAT--AATATTTATATGAGCTAACT-
i dasNov3.JH562883          C 0 I 159

a score=1270284.000000
s hg38.chr12_GL383549v1_alt     19517 92 +    120804 TTAAAACAGtgtgctgggcagtgctctacacactttaaatttattaaatggttaaccatctaacaatcatataaagttgggtccccatttta
s panTro5.chr12              62714394 92 + 137163284 TTATAACAGtgtgctgggcattgctctacacactttaaatttattaaatggttaaccatctaacaatcatataaagttgggtccccatttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841111 92 + 135337776 TTATAACAGtgtgctgggcattgctctacacactttaaatttattaaatggttaaccatctaacaatcatataaagttgggtccccatttta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056396 92 -  32808036 TTAAAACAGtgtgctgggcattgctctacacactttacatttattaaatggttaaccatctaacaatcatataaagttgggtccccatttta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240243 92 +  34552619 ttaaaacagtgtgctgggcattgctctacacaccttaaatttattaaatgtttaaccctctaacaatcatataaagttgggtccccatttta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104555925 92 - 133663169 ttaaaacaatgtgctgggcattgctctacacactttaaacttattaaatggttaaccctctaacaatcacatagagttgggtccccatttta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955388 92 - 137757926 ttaaaacaatgtgctgggcattgctctacacactttaaacttattaaatggttaaccctctaacaatcacatagagttgggtccccatttta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333218 92 -   7948249 ttaaaacaatgtgctgggcattgctctacacactttaaacttattaaatggttaaccctctaacaatcatatagagttgggtccccatttta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233668 92 -  10730278 ttaaaacaatgtgctgggcattgctctacacactttgaacttattaaatggttaaccctctaacaatcatacagagttgggtccccatttta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100724924 92 - 128539186 TTAAAacaatgtgctgggcattgctctacatactttacatttattaaatggttaaccctctaacaatcatatagagttgggtccccatttta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119792 92 +    435186 ttaaaacaatgtgctgggcattgctctacacactttaaacttattaaatggttaaccctctaacaatcatatagagttgggtccccatttta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508319 92 +   9309688 ttaaaataatgtgctgggcattgctctacacactttaaatttattaaatggttaaccctctaacaatcacatagagttgggtccccatttta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342116 92 -  29834108 ttagaacagtgtgctgagcattgctctacccactttaaatttcttaaatggttaactttctaatagtcatataaagttgggtccccatttta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797383 92 -   1015025 ctagaacagtgtgctgggcattgctctacacactttaaatttattaaatggttaactttctaacagtcatataaagttgggtccccatctta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811370 92 -   2295209 ttagaacagtgtgctgggcattgctctacacactttgaatttattaaatggttaactttctaacagtcatataaagttgggtccccatttta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2929672 92 +  31815103 ttagaactatgtgccaggcattgctctaagcactttaaatttattggatggtcaatcctctagcaaccatataaatttgactccccatttta
i micMur3.chr21             C 0 I 1296
s proCoq1.NW_012140524v1      5025994 92 +  13104022 ttataactatgtgccaggcattgcactaagcactttaaatttattggatggtcaatcctctagcaatcatataaatttgggtccccatttta
i proCoq1.NW_012140524v1    C 0 I 1297
s otoGar3.GL873576            4518646 88 -  12054995 ttagaactatgtgtcaggcattgctttaaacactttaa----attaggtggccaattctcttgtaatcatagaaagataggtccccatttta
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2371393 71 - 149736546 ---TAAAAACATGCCAGACATCACTCTCAGAACTTCACATCTA----------------CTAACAATAATTC--AGCAGTGCccccatttta
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19673658 91 +  45876710 ttagaactatgagccaggcattgttctaagcactttaagtttactcaatatttaactctctaataaccacataaggttgtgtctccattta-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             880366 89 -   1687904 TTAAAactatgtaccaggcattgtgctaagcactttacatctcttaaatgtttaaccgtctaagagtcttataa---tgtatacccatttta
i dasNov3.JH562883          I 159 C 0

a score=84918.000000
s hg38.chr12_GL383549v1_alt     19609 6 +    120804 cagatg
s panTro5.chr12              62714486 6 + 137163284 cagatg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841203 6 + 135337776 cagatg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056488 6 -  32808036 cagatg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240335 6 +  34552619 cagatg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104556017 6 - 133663169 cagatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955480 6 - 137757926 cagatg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333310 6 -   7948249 cagatg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233760 6 -  10730278 cagatg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100725016 6 - 128539186 cagatg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119884 6 +    435186 cagatg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508411 6 +   9309688 cagatg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342208 6 -  29834108 cagata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797475 6 -   1015025 cagatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811462 6 -   2295209 cagatg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4518734 6 -  12054995 caaata
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2371464 6 - 149736546 cagatg
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19673749 6 +  45876710 cggatg
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             880455 6 -   1687904 cgaatg
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2929764 1296 +  31815103 I
e proCoq1.NW_012140524v1      5026086 1297 +  13104022 I

a score=4093144.000000
s hg38.chr12_GL383549v1_alt     19615 330 +    120804 cagaaa-ctgaagcatagaaaacctaagtaactcgcctaagttagcataactacta-a-tggcagttcggatatttaacgccaggcagcctagctgtagggtttgtactcttaactatgacactttcctgCCTCTTCCTGTTAAGAGATTTGGA-CTTTAGACT--GAGAGTGAT-AGAAAgaacttgact----ctccctttatctat-----aaaaaaaggataataaaacataccttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatattgagtagtaacttgataataaatgataataattatta------ttTTTTCCCT
s panTro5.chr12              62714492 330 + 137163284 cagaaa-ctgaagcatagaaaacctaagtaactcgcctaagttagtatagctacta-a-tggcagttcggatatttaatgccaggcagcctagctgtagggtttgtactcttaactatgacactttcctgcctcttcctgttaagagatttgga-ctttagact--gagagtgat-ggaaagaacttgatt----ctccctttatctat-----aaaaaaaggataataaaacataccttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatattgagtagtaacttgataataaatgACAATAATAATTA------TTTTTTCCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841209 329 + 135337776 cagaaa-ctgaagcatagaaaacctaagtaactcgcctaagttagtatagctacta-a-tggcagttcggatatttaatgccaggcagcctagctgtagggtttgtactcttaactatgacactttcctgcctcttcctgttaagagatttgga-ctttagact--gagagtgat-ggaaagaacttgatt----ctccctttatctat-----aaaaaaaggataataaaacataccttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatattgagtagtaacttgataataaatgACAATAATAATTA-------TTTTTCCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056494 329 -  32808036 cagaaa-ctgaagcatagaaaacctaagtaactcacctaagttagtataactacta-a-tggcagtttggatatttaatgccaggcagcctagctgtagggtttgtactcttaactatgacactttcctgcctcttcctgttaagagatttgga-ctttagact--gagagtgat-ggaaagaacttgatt----ctccctttatctat-----aaaaaaaggataataaaacataccttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatattgagtagtaac-tgataataaatgacaataattatta------ttTTTTCCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240341 330 +  34552619 cagaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactacta-a-tggcagtttggatatttaacgccaggcagcctagctgtagggtttgtactcttaactatgacactttcctgCCTCTTCCTGTTAAGAGATTTGGA-CTTTAGACT--GAGAGTGAT-GGAAAGAACTCGATT----CTCCctttacctat-----aaaatagggataataaaacataccttgtacagtgatttgaagaat-----tagataatatagatgaagattctggaaccagccctgatattgagtagtaacttgataataaatgataacaattatta------ttTTTTCCCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104556023 333 - 133663169 cggaaa-ctgaagcatagcaaacctaagtaacttgcctaagttagtataactact--a-tggcagttcagatatttaacgccaggcagcctagctgtagggtttgtacgcttaagtacgacactttcctgCCGCTTCCTGTTAAGAGATTTGGA-CTTTAGACCATGAGAGTGAT-GGAAAGAACTTGAtt---cctccctgtatctat-----aaaataagcatagtaaaacatgctttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccttgatatttagtagtaacttgataataaatgataataattatta-----ttTTTTTCCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955486 333 - 137757926 cggaaa-ctgaagcatagcaaacctaagtaacttgcctaagttagtataactact--a-tggcagttcagatatttaacgccaggcagcctagctgtagggtttgtacgcttaagtacgacactttcctgCCGCTTCCTGTTAAGAGATTTGGA-CTTTAGACCATGAGAGTGAT-GGAAAGAACTTGATT---CCTCCCTGTATCTAT-----AAAATAAGCATAGTAAAACATGCTTTGTACAGTGATTTGAAGGAT-----TAGATAATATAGATGAAGATTCTGGAACCAGCCTTGATATTTAGTAGTAACTTGATAATAAATGATAATAATTATTA-----TTTTTTTCCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333316 333 -   7948249 cggaaa-ctgaagcatagcaaacctaagtaacttgcctaagttagtataactact--a-tggcagttcagatatttaactccaggcagcctagctgtagggtttgtacgcttaagtacgacactttcctgCCTCTTCCTATTAAGAGATTTGGA-CTTTAGACCATGAGAGTGAT-GGAAAGAACTTGAtt---cctccctgtatctat-----aaaataagcataataaaacatgctttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatatttagtagtaacttgataataaatgataataattatta-----ttTTTTTCCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8233766 329 -  10730278 cggaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactact--a-tggcagttcagatatttaacgtcaggcagcctagctgtagggtttgtacgcttaagtacgacactttcctgCCTCTTCCTGTTAAGAGATTTGGA-CTTTAGACT----GAGTGAT-GGAAAGAACTTGAtt---cctccctgtatctat-----aaaataagcataataaaacatgctttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatatttagtagtaacttgataataaatgataataattatta-----ttTTTTTCCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100725022 331 - 128539186 cggaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactact--a-tggctgttcagatatttaacgccaggcagcctagctgtagggtttctacgcttaagtacgacactttcctgCCTCTTCCTGTTAAGAGATTTGGA-CTTTAGACT--GAGAGTGAC-GGAAAGAACTTGATT---CCTCCctttatctat-----aaaataagcataacaaaacataccttgtacagtgatttgaaggat-----taggtaatatagatgaagattctggaaccagccctgatatttagtagtaacttgataataaatgataATAATAATTA-----TTTTTTTCCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       119890 329 +    435186 cggaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactact--a-tggcagttcagatatttaacgccaggcagcctagctgtagggtttgcacgcttaagtacgacactTTCCTACCTCTTCCTGTTAAGAGATTTGGA-CTTTAGACT----GAGTGAT-GGAAAGAACTTGAtt---cctccctgtatctat-----aaaagaagcataataaaacatgctttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatatttagtagtaacttgataataaatgataataattatta-----ttTTTTTCCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508417 332 +   9309688 cagaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactacta-a-tggcagttcggatagttcacgccaggcagcctagctgtagggtttgtacgcttaagtacgacactttcctgcctcttcctgttaagagatttgga-ctttagact--gagagtgat-ggaacgaacttgatt---cctccctttatctat-----aaactaagcatcataaaacataccttgtacagtgatttgaaggat-----tagataatatagatgaagattctggaaccagccctgatatttagtagtaacttgataataaatgataataattatta-----ttTTTTTCCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342214 333 -  29834108 caaaaagcggaagcatagaaaaccatagtaacttgcctaagttattataactccta-a-tggcagactggatatttaacgccaggcagcctagctgtagggtttgtacccttaactatgacactTTCCGGCCTCTTCCTGTTAAAAGATTTAGA-CTTTAGACT--GTGAGTGAT-GGAAAGAACTTGATT--CCCCCCctttatctat-----aaaataaggaaaataaaacatatcttttacagtgatttagatgat-----tagataatgtagattaagagtctggaaccagccctgatatttagcagtaacttgacaataaatgataataattatta------ttCTTTCCCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797481 327 -   1015025 cagaaa-tggaagcatagaaaaccaaagtaacttacctaagttagtataactccta-a-tggcagattggatatttaacgccaggcagcctagctgtagggtttgtaaccttaactacgacactttcctgCCTCTTCCCATTAAAAGATTTAGA-CTTTAGACT--GTGAGTGAT-GGAAAGAACTTGATT--CCTCCActttatctat-----aaaataagg-aaataaaacatatcttgtacagtgatttagatgat-----tagataatgtagat----agtctggaaccagccctgatatttagcagtaacttgataataaatgataataattatta------ttCTTTCCCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811468 332 -   2295209 cagaaa-ctgaagcatagaaaacctaagtaacttgcctaagttagtataactccta-a-tggcagattggatatttaaagccaggcagcctagctgtagggtttgcacccttaactaagacactttcctgcctcttcctgttaagagatttgga-ctttagact--gtgagtgat-gtaaagaacttgatt--ccccccctttatctat-----aaaataaggaacataaaacatactttgtacagtgatttagatgat-----tagataatgtagataaagagtctggaaccagccctgatatttagcagtaacttgataataaatgataataatcatta------ttCTTTCCCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2931060 328 +  31815103 cagaaa-ctgaggcatagaaaacttaagtaacgtgcctaagttagtataactagta-actgacggatctgatattcaaagccaggcagcctacctacagagtttgtacccttaaccaatatactttcctgCCACCTCCTGTTAAGAGGTTTGGATTTTTATCCT--GAGAGTGAT-GGAAAGAActtgatt---tccccctcca-ctgt-----acaataagggtaataaaacataccttgtacagtgatttggaggag-----taaataatatcgatgaaaattctggaaccagcccta-tatgtagtaaaaacttgataataaattgtaataatt---a-----ttattTTCGC-
i micMur3.chr21             I 1296 I 11
s proCoq1.NW_012140524v1      5027383 332 +  13104022 cagaaa-ctgaggcacagaaaacttaagtaacttgggtaagttagtataactagta-actggaagatctggtattcaaagccagacagcctagctgcagagtttgtacccttaaccactatactttcctgCCACATCTTGTTAAGAGATTTGGATTTTTATCCT--GAGAGTGAT-AGAAAGAACTTGATT---TCCtccttcacctat-----aaaataataataataaaacatgcctcatacagtgatttggagtat-----taaataatatgaatgaaaattctggaatcagcccta-tatgtagtaaaaacttgataataaattgtcataattatca-----ttATTTTCCC-
i proCoq1.NW_012140524v1    I 1297 I 2
s otoGar3.GL873576            4518740 324 -  12054995 cagaaa-ctgaggcatagaaaacttaagtaacttgcctaaattagaataactagta-agtggcagatcttatattcaaagttaggcagcctatctcccaagtttgttcccttaaccactatactttcctgCCACTTC---TTAAGAGATTTGGATTTTTATTCT--AAGAGGGAT-GAAAAGAActtgatt---tcccctttgatctat-----aaaataaggataataagacataccttgcacagtgatttggaggat-----taaatgatgcaagcaaaAATTATGGAGTCAGTGCTG------AAAAATAACTTGCtaataaattataataattatca-----ttattttCCC-
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2371470 257 - 149736546 -aagaa-ctgggggataggaaatttaatgaacttgcctagtttggtacagctagtata-taatag----gat---------caggcagcctagctgcagagcctgcaaccataaccactatgTATCCCTG-------------------------CTTT-GTCT------------------------ATT---CCTCCCTTCATCCAT-----AGA-TAAGATTCATAAAGCCTACA--GGGCAGTGAGTTGGTAGAT-----GAAAT------GAGGAAGATTCCAGAAG-AGCCCTGATAC--AGAAAGGCCTTGACAGTAAACCTTAAATGTTGCCA------TAACTTC---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19673755 331 +  45876710 cagaaa-ctgaggcagagaaaacttgaagaatgtgcctaagtttgcaccactagtaaa-tggcagatctgggattcaaaggcaggcagcctagctatacagtttgtacccttaaccactGCCTTTTCCTGATTCTTCCTGTTAAGAGATTTGAA-CTTTATCCT--GAGGGTAATGGGAAAGAACTTGATT-TTTCCCACTTCACCGAT-----AAAATAAAGATAAGGAAATCTACCTTATGCAGTGATTCGGA----------AGATAATACAGATGAAGACTTTGGAACCAGCCCTGAGGAATAATAGGAACTTGATAATAAATGATAATGAGTATCA-----TTATTTTTCCC
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             880461 327 -   1687904 tggaaa-cggaggcacagagaacttaagtagcttgcctaagcttgtctaacaagaa-aggggaaagtgtgggactcagagcccggcagc------------tcttcactct--------acagtttgctgcccGTCTTTGTCAAGAGATTGGAA-CTTCATCCT--GCAGGTAAC-G--AAGACTTTGATTTTGCCCCCCTTCACCCATTTAAAAAAAAAAGAATGATAAAACCGACTTTCTACAGTGATTTGGAGGATAAAAGAAGATAACATCAATGAAGACTCTGGAGCTAGGGCTAAGCTGTAGTGGGAACTCGGGAATAAATACTAAT--TTATTAGTCAGTACTCTTCCCT
i dasNov3.JH562883          C 0 C 0

a score=250760.000000
s hg38.chr12_GL383549v1_alt     19945 21 +    120804 TTCTGTG---TGAGGTAGTTGATG
s panTro5.chr12              62714822 21 + 137163284 TTCTGTG---TGAGGTAGTTGATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841538 21 + 135337776 TTCTGTG---TGAGGTAGCTGATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056823 21 -  32808036 TTCTGTG---TGAGGTAGTTGATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240671 21 +  34552619 TTCTGTG---TGAGGTAGTTGATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104556356 21 - 133663169 TTCTGTG---TGAGGTAGTTGCTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955819 21 - 137757926 TTCTGTG---TGAGGTAGTTGCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333649 21 -   7948249 TTCTGTG---TGAGGTAGTTGCTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234095 21 -  10730278 TTCTGTG---TGAGGTAGTTGCTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100725353 21 - 128539186 TTCTGTG---TGAGGTAGTTGCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120219 21 +    435186 TTCTGTG---TGAGGTAGTTGCTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508749 21 +   9309688 TTCTGTG---TGAGGTAGTTGCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342547 21 -  29834108 TTCTGTG---TGAGGTAGTTGGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797808 21 -   1015025 TTCTGTG---TGAGGTAGTTGGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811800 21 -   2295209 TTCTGTG---TAAGGTAGTTGGTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5027717 20 +  13104022 TTTTGTG---TGAGGGAACTACA-
i proCoq1.NW_012140524v1    I 2 C 0
s otoGar3.GL873576            4519066 23 -  12054995 TTTTGTGTGATGAGGGAACTACA-
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2371727 20 - 149736546 -TCTGTG---TGCAGTGGTTGGTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19674087 21 +  45876710 TCCTATA---TGAGGTAGTTAGTA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             880788 21 -   1687904 TTCTGTA---CGAGGCAGTTGGTA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2931388 11 +  31815103 I

a score=9567107.000000
s hg38.chr12_GL383549v1_alt     19966 648 +    120804  
s panTro5.chr12              62714843 648 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60841559 648 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3056844 648 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7240692 648 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104556377 648 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108955840 648 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1333670 648 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234116 650 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100725374 648 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120240 648 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3508770 647 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11342568 648 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       797829 648 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1811821 648 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2931399 643 +  31815103  
i micMur3.chr21             I 11 C 0
s proCoq1.NW_012140524v1      5027737 629 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4519089 663 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2371747 602 - 149736546  
i mm10.chr6                 C 0 I 53
s canFam3.chr27              19674108 661 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             880809 636 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=859224.000000
s hg38.chr12_GL383549v1_alt     20614 62 +    120804 TGGCAGTTTCTCACATGCCTTAGAAAAAAATGTGGGGCTTATAT-GTTTTTCCAAATTATGAG
s panTro5.chr12              62715491 62 + 137163284 TGGCAGTTTCTCACATGCCTTAGAAAAAAATGTGGGACTTATAT-ATTTTTCCAAATTATGAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842207 62 + 135337776 TGGCAGTTTCTCACATGCCTTAGAAAAAAATGTGGGACTTATAT-ATTTTTCCAAATTATGAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057492 62 -  32808036 TGGCAATTTCTCACATGCCTTAGAAAAAAATGTGGGGCTCATAT-ATTTTTCCAAATTATGAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241340 62 +  34552619 TGGCAGTTTCTCACATGCCCTAGAAAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557025 60 - 133663169 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956488 60 - 137757926 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334318 60 -   7948249 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234766 60 -  10730278 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726022 60 - 128539186 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120888 60 +    435186 T-GCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509417 61 +   9309688 TGGCAGTTTCTCACATGCCCTAG-AAAAAATGTGGGGCTTATGT-ATTTTTCCAAATTATGAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343216 61 -  29834108 CGGCAGTTTCTCACATGCCCTAG-GAAAAATGTGGGGCTTACAT-ATTTTTCCAAATTATGAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798477 61 -   1015025 CGGCAGTTTCTCACATGCCCTAG-GAAAATTGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812469 61 -   2295209 CGGCAGTTTCTCACATGCCCTAG-GAAAAATGTGGGGCTTATAT-ATTTTTCCAAATTATGAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932042 62 +  31815103 TGGCAGTTTCTCACATGCCCTAG-GAAAAATTTGGGGGTTATATAATTTTTCCAAATTATGAG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5028366 62 +  13104022 TGGCAGTTCCTCACATGCCCTAG-GAAAAATTGGGGGCTTATATAATTTTTCCAAATTATGAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4519752 60 -  12054995 T-GCAGTTTCTCACATGCCCTAG-GAAAAAAT-GGGGCTTACATAATATTTCCAAATTATGAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19674769 62 +  45876710 TGGCAGTTTCTCACATGCCCTAG-GAAAGAATTGGGGCTTATATAATTCTTCCCAATTATGAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             881445 62 -   1687904 TGGCAATTTCTCACAGGCCCTGG-GAAAGATGTAGGGCTTACATAATTTTTCCAAATCATGAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2372349 53 - 149736546 I

a score=357426.000000
s hg38.chr12_GL383549v1_alt     20676 26 +    120804 GCACTGTGCCCAAGACAGGCAGATAG
s panTro5.chr12              62715553 26 + 137163284 GCACTGTGCCCAAGACAGGCAGATAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842269 26 + 135337776 GCACTGTGCCCAAGACAGGCAGATAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057554 26 -  32808036 GCACTGTGCCCAAGACAGGCAGATAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241402 26 +  34552619 GCACTGTGCCCAAGACAGGCAGATAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557085 26 - 133663169 GCAATGTGCCCAAGACAGGCAGATAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956548 26 - 137757926 GCAATGTGCCCAAGACAGGCAGATAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334378 26 -   7948249 GCAATGTGCCCAAGACAGGCAGATAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234826 26 -  10730278 GCAATGTGCCCAAGACAGGCAGATAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726082 26 - 128539186 GCAATGTGCCCAAGACAGGCAGATAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120948 26 +    435186 GCAATGTGCCCAAGACAGGCAGATAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509478 26 +   9309688 GCAATGTGCCCAAGACAGGCAGATAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343277 14 -  29834108 GCACTGTGCCCAAG------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798538 14 -   1015025 ACACTGTGCCCAAG------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812530 26 -   2295209 GCACTGTGCCCAAGACAGGCAGATAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932104 26 +  31815103 GCACTGTGCCCAAGACAGGCAGATAG
i micMur3.chr21             C 0 I 7
s proCoq1.NW_012140524v1      5028428 26 +  13104022 GCACTGTGCCCAAGACAGGCAGATAG
i proCoq1.NW_012140524v1    C 0 I 7
s otoGar3.GL873576            4519812 26 -  12054995 GCACTGTACTCAAGACAGGCAGATAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372402 26 - 149736546 ACCCCAGGCACAAGACAGGTAACTAT
i mm10.chr6                 I 53 C 0
s canFam3.chr27              19674831 26 +  45876710 GCATTGTGCCCATGACAAGTAAATAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             881507 26 -   1687904 ACATTGGGTCCAACACACGCAGACAG
i dasNov3.JH562883          C 0 C 0

a score=148390.000000
s hg38.chr12_GL383549v1_alt     20702 18 +    120804 AAAGGGTACATTAGACAA
s panTro5.chr12              62715579 18 + 137163284 AAAGGGTACATTAGACAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842295 18 + 135337776 AAAGGGTACATTAGACAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057580 18 -  32808036 AAAGGGTATATTAGACAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241428 18 +  34552619 AAAGGGTACATTAGACAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557111 18 - 133663169 AAAGGGTACATTAGACAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956574 18 - 137757926 AAAGGGTACATTAGACAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334404 18 -   7948249 AAAGGGTACATTAGACAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234852 18 -  10730278 AAAGGGTACATTAGACAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726108 18 - 128539186 AAAGGGTACATTAGACAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120974 18 +    435186 AAAGGGTACATTAGACAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509504 18 +   9309688 AAAGGGTATATTAGACAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343291 17 -  29834108 -AAGGGTACATTAGACAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798552 17 -   1015025 -AAGGGTACCTTAGACAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812556 18 -   2295209 AAAGGGTACATTAGACAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4519838 12 -  12054995 AAAGG---CCCTGGA---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372428 16 - 149736546 AAAGAGACTGAGAGAC--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19674857 11 +  45876710 AAAGTGCCTAG-------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             881533  9 -   1687904 AAAGGGTAG---------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2932130  7 +  31815103 I
e proCoq1.NW_012140524v1      5028454  7 +  13104022 I

a score=1292855.000000
s hg38.chr12_GL383549v1_alt     20720 107 +    120804 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TATTTTTCCACTCACAtagaaaggcagtgt------ggcat-aagggaagagccaggtt
s panTro5.chr12              62715597 107 + 137163284 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TATTTTTCCACTCACATAGAAAGGCAGTGT------GGCAT-AAGGGAAGAGCCAGGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842313 107 + 135337776 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TATTTTTCCACTCACAtagaaaggcagtgt------ggcat-aagggaagagccaggtt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057598 107 -  32808036 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TATTTTTCCACTCACAtagaaaggcagtgt------ggcat-aagggaagagccaggtt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241446 107 +  34552619 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TATTTTTCCCCTCACAtagaaaggcagtgt------ggcat-aagggaagagccaggtt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557129 105 - 133663169 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCTACTCACATAGAAAgac--tgt------ggcat-aagggaagagccaggtt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956592 105 - 137757926 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCTACTCACATAGAAAGAC--TGT------GGCAT-AAGggaagagccaggtt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334422 105 -   7948249 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCCACTCACATAGAAAGAC--TGT------GGCAT-AAGggaagagccaggtt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8234870 107 -  10730278 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCCACTCACATagaaagacagtgt------ggcat-aagggaagagccaggtt
i cerAty1.NW_011999477v1    C 0 I 299
s chlSab2.chr11             100726126 107 - 128539186 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGAAATTTCATTTT--TAGTTTTCCACTCACATAGAAAGACAGTGT------GGCAT-AAGggaagagccaggtt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       120992 107 +    435186 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCCACTCACATAGAAAGACAGTGT------GGCAT-AAGGGAAGAGCCAGGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509522 107 +   9309688 AACCAAATGTA-CCA---ATC-----ACTCAAAGCAAGTGACAAGAGAAGAGCAATTTCATTTT--TAGTTTTCCACTCACAtagaaagacaatgt------ggcat-aagggaagagccaggtt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343308 108 -  29834108 AATCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGCAGAGCAGTTTCATTTTTATATTTTTCCACTCACTtagaaaggcagtgt-------tctt-aagggaagagccaggtt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798569 108 -   1015025 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGCAGAGCAGTTTCATTTTTATATTTTTCCACTCATGTAgaaaggcagtgt-------tcat-aagggaagagccaggtt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812574 108 -   2295209 AACCAAATGTA-CCA---GTC-----ACTCAAAGCAAGTGACAAGAGCAGAGCAGTTTCATTTTTATATTTTTCCACTCACgcagaaaggcagtgt-------gcac-aaggtaagagccaggtt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932137 112 +  31815103 AACCAAATGTACCCA---GTCTTACAGCTCAAACCAAGTGACAAGAGAACAGCAGTTTCGTTTT--TGTTTTTCCACTCACgcagaaaggcaatgt------ggtgt-aagg-aagagccaggtt
i micMur3.chr21             I 7 C 0
s proCoq1.NW_012140524v1      5028461 109 +  13104022 AACCAAATGTACCCA---GTCTTACAGCTCAAACCAAGTGACAAGAGAACAGCAGTTTCA-TTT--TGTTTTTCCACTCGCACAGAAAGGCA--Gt------ggtgt-aagg-aagagacaggtt
i proCoq1.NW_012140524v1    I 7 C 0
s otoGar3.GL873576            4519850 115 -  12054995 -ACCAAATGTACCCA---GTCTTACAGCTCAGACCAAGGGACAAGAGAGCAGCAGTTTCATTTT--TGTTTTTCCACTTGCACAGAAAGGCA--GTGAGTAGGGTGT-GAGG-AAGGGCCAGGTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372444  92 - 149736546 AGCCGTAGGCACCCT---GTTTCAC-ACACCCATCATGGGGCAGGAAAACAG-------ATCTTAGAGTTTCGCTATTCACAAAGAAAGA----------------------GAAGAACCCGGCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19674868 114 +  45876710 AACCAAATGTACCCT---GTCTTATGGCTTAAACCAAGTGACAAGAGAACATAAGTTTCATTTT--TGTTTCTCCACTCACgcagaaaggcagcgt------ggtgtcagggggaaaatctggtt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             881542  90 -   1687904 AACCAAATGCC-CCTCGCGTCCCA--GCTCAAACCAAGCGACGGGGGCACAGCAGTTCCACGGG--TGTTTTCCCACGCACATGGGAGGTGGGTT------------------------------
i dasNov3.JH562883          C 0 C 0

a score=549895.000000
s hg38.chr12_GL383549v1_alt     20827 53 +    120804 tcggtc-ctgtttctgctgctcaagttccatgtcattagg-aaaaaaa-----------aaaaaaa
s panTro5.chr12              62715704 54 + 137163284 TCGGTC-CTGTTTCTGCTGCTCAAGTTCCATGTCATTAGGAAAAAAAA-----------AAAAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842420 52 + 135337776 tcggtc-ctgtttctgctgctcaagttccatgtcattagg--aaaaaa-----------aaaaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057705 52 -  32808036 tcggtc-ctgtttctgctgctcaagttccatgtcattagg--aaaaaa-----------aaaaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241553 49 +  34552619 tcggtc-ctgtttctgcctctcaagttccatgtcattagg--aaaaaa-----------aaaa---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557234 51 - 133663169 tcggtc-ctgtttctgctgctcaagttccatgtccttagg--aaaaaa-----------aaaaaa-
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             108956697 52 - 137757926 tcggtc-ctgtttctgctgctcaagttccatgtccttagg--aaaaaa-----------aaaaaaa
i macFas5.chr11             C 0 I 3
s macNem1.NW_012011422v1      1334527 52 -   7948249 tcggtc-ctgtttctgctgctcaagttccatgtccttagg--aaaaaa-----------aaaaaaa
i macNem1.NW_012011422v1    C 0 I 3
s cerAty1.NW_011999477v1      8235276 46 -  10730278 tcggtc-ctgtttctgctgctcaagttccatgtccttaaa--aaaaaa-----------a------
i cerAty1.NW_011999477v1    I 299 I 1
s chlSab2.chr11             100726233 52 - 128539186 tcggtc-ctgtttctgctgctcaagttccatgtccttagg--aaaaac-----------aaaacaa
i chlSab2.chr11             C 0 I 9
s manLeu1.NW_012101287v1       121099 52 +    435186 TCGGTC-CTGTTTCTGCTGCTGAAGTTCCATGTCCTTAGG--aaaaaa-----------aaaaaaa
i manLeu1.NW_012101287v1    C 0 I 206
s colAng1.NW_012114364v1      3509629 52 +   9309688 tcggtc-ctgtgtctgctgctcaagttccatgtccttagg--aaaaaa-----------aaaaaaa
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11343416 46 -  29834108 tcagtc-ctgtctctgcggctcaagttccttgtccttagg--aaaaag-----------a------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798677 46 -   1015025 tcggtt-ctgtttctgctgctcaagttccttgtctttagg--aaaaag-----------a------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812682 46 -   2295209 tcggtc-ctgtctctgctgctcaagttccttgtccttagg--aaaaag-----------a------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932249 51 +  31815103 ttggtc-ctgtctctgctcctggagttccatgtccttggg--ggggaa-----------aaaaaa-
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5028570 50 +  13104022 ttagtc-ctgtctgtgctcttggagttccatgtcctt-gg--gaagaa-----------aaaaaa-
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4519965 62 -  12054995 TGGGTC-CTGTCTCTGCGACTGGAGTTCCATGTCCTTGGG--GGTGGGAGGGCGAGGTCAGAAGA-
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2372536 52 - 149736546 TCCCTT-GTGTCTCTGCACCTAGAGTCCTCTGTCTCTGAG--GTAGGA-----------GAGACAG
i mm10.chr6                 C 0 I 7
s canFam3.chr27              19674982 52 +  45876710 ttagtc-ctgtctctgctactggagtctcatgtctctttg--gaaaaa-----------aagaaaa
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             881632 47 -   1687904 CTGGTCACCGCCTCTGCTGCTGGAATC----GTGATTAGG--GGGAAA-----------AAAAA--
i dasNov3.JH562883          C 0 C 0

a score=-56899.000000
s hg38.chr12_GL383549v1_alt     20880 3 +    120804 -caa
s panTro5.chr12              62715758 3 + 137163284 -CAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842472 3 + 135337776 -caa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057757 3 -  32808036 -caa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241602 2 +  34552619 --aa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557286 2 - 133663169 --aa
i rheMac8.chr11             I 1 I 1
s macFas5.chr11             108956752 2 - 137757926 --aa
i macFas5.chr11             I 3 I 1
s macNem1.NW_012011422v1      1334582 2 -   7948249 --aa
i macNem1.NW_012011422v1    I 3 I 1
s cerAty1.NW_011999477v1      8235323 2 -  10730278 --aa
i cerAty1.NW_011999477v1    I 1 I 1
s chlSab2.chr11             100726294 2 - 128539186 --aa
i chlSab2.chr11             I 9 I 1
s colAng1.NW_012114364v1      3509682 1 +   9309688 -c--
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11343462 2 -  29834108 --aa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798723 2 -   1015025 --aa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812728 2 -   2295209 --aa
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932301 2 +  31815103 -ca-
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5028621 2 +  13104022 -ca-
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4520028 2 -  12054995 -GA-
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2372595 2 - 149736546 -TA-
i mm10.chr6                 I 7 C 0
s canFam3.chr27              19675035 2 +  45876710 -ca-
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             881679 3 -   1687904 TCA-
i dasNov3.JH562883          C 0 C 0
e manLeu1.NW_012101287v1       121151 206 +    435186 I

a score=877933.000000
s hg38.chr12_GL383549v1_alt     20883 61 +    120804 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
s panTro5.chr12              62715761 61 + 137163284 CTGAATTACTTTTTGTCTTACTTTCCTCGTTTATAAATAGTAAGCTGGACTCTAAAAATCT--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842475 61 + 135337776 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057760 60 -  32808036 ctgaattac-ttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241604 61 +  34552619 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i nomLeu3.chr23             C 0 I 2
s rheMac8.chr11             104557289 61 - 133663169 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i rheMac8.chr11             I 1 I 2
s macFas5.chr11             108956755 61 - 137757926 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i macFas5.chr11             I 1 I 2
s macNem1.NW_012011422v1      1334585 61 -   7948249 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i macNem1.NW_012011422v1    I 1 I 2
s cerAty1.NW_011999477v1      8235326 61 -  10730278 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i cerAty1.NW_011999477v1    I 1 I 2
s chlSab2.chr11             100726297 61 - 128539186 ctgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i chlSab2.chr11             I 1 I 2
s manLeu1.NW_012101287v1       121357 61 +    435186 CTGAATTACTTTTTGTCTTACTTTCCTCATTTATAAATAGTAAGCTGGACTCTAAACATCT--
i manLeu1.NW_012101287v1    I 206 I 2
s colAng1.NW_012114364v1      3509683 60 +   9309688 -tgaattactttttgtcttactttcctcatttataaaTAGTAAGCTGGACTCTAAAAATCT--
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11343464 61 -  29834108 ttgaattactttttgtctcacttttctcattgataaaTAGTAAGCTGGAATCTAAAAATAA--
i saiBol1.JH378123          C 0 I 2
s cebCap1.NW_016107911v1       798725 61 -   1015025 ttgaattactttttgtctcactttcctcattgataaaTAGTAAGCTGGGCTCTAAAAATAA--
i cebCap1.NW_016107911v1    C 0 I 2
s aotNan1.NW_018488218v1      1812730 61 -   2295209 ttgaattactttttgtctcactttcctcattgataaatagtaagctggactGTAAAAATAG--
i aotNan1.NW_018488218v1    C 0 I 2
s micMur3.chr21               2932303 61 +  31815103 ttgaactcctttttgtctcacttttctcatctataaataggaaACTGGACTCTAAAAATCT--
i micMur3.chr21             C 0 I 104
s proCoq1.NW_012140524v1      5028623 61 +  13104022 ttgaactcctttttgtctcacttttctcatctataaataggaaACTGGACTCTAAAAATCT--
i proCoq1.NW_012140524v1    C 0 I 93
s otoGar3.GL873576            4520030 61 -  12054995 TTGAACTGCTTTTTGTCTCACTTTATTCAGCTATAAAGAGGAAACTGGACTCTGAAAATCT--
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2372597 59 - 149736546 CCAAACT--CTTCCATCTTACTTCCCTCATCTATGTAAAGGAAGCTTGACTCCAAATGTCT--
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19675037 60 +  45876710 -tgaactcctttttgtctcactttcctcgtctgtcaaggggaagctggactctaaaactct--
i canFam3.chr27             C 0 I 6
s dasNov3.JH562883             881682 62 -   1687904 CGGAGCTCCTTTTTGTCT-AGTTTACTCAACCGTAAATGAGAGGCCGAAGGCTAAAAGGCAGA
i dasNov3.JH562883          C 0 C 0

a score=884637.000000
s hg38.chr12_GL383549v1_alt     20944 83 +    120804 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGAGATTTGAACATGA-AAACAAAGAATGTGAA---GAATAGAGAT
s panTro5.chr12              62715822 83 + 137163284 GTTTGAATTCTTGAGAATTTAATTATTATCACTCAAATATGGGAGATTTGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842536 83 + 135337776 GTTTGAATTCTTGAGAATTTAATTATTATCACTCAAATATGGGAGATTTGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057820 83 -  32808036 GTTTGAATTCTTGGGAATTTAATTGTTATCACTCAAATATGGGAGATTTGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241667 83 +  34552619 GTTTAAATTCTTGGGAATTTAATGATTATCACTCAAATATGGGAGATATGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i nomLeu3.chr23             I 2 C 0
s rheMac8.chr11             104557352 83 - 133663169 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGAGATATGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i rheMac8.chr11             I 2 C 0
s macFas5.chr11             108956818 83 - 137757926 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGAGATATGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i macFas5.chr11             I 2 C 0
s macNem1.NW_012011422v1      1334648 83 -   7948249 GTTTGAATTCTTGGGAATTTAATTATTCTCACTCAAATATGGGAGATATGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i macNem1.NW_012011422v1    I 2 C 0
s cerAty1.NW_011999477v1      8235389 83 -  10730278 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGCGATACGAACATGA-AAACAAAGAATGTGAA---AGATAGAGAT
i cerAty1.NW_011999477v1    I 2 C 0
s chlSab2.chr11             100726360 83 - 128539186 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGAGATACGAACGTGA-AAACAAAGAATGTGAA---GGATGGAGAT
i chlSab2.chr11             I 2 C 0
s manLeu1.NW_012101287v1       121420 83 +    435186 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGACATACGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i manLeu1.NW_012101287v1    I 2 C 0
s colAng1.NW_012114364v1      3509745 83 +   9309688 GTTTGAATTCTTGGGAATTTAATTATTATCACTCAAATATGGGAGATATGAACATGA-AAACAAAGAATGTGAA---GGATAGAGAT
i colAng1.NW_012114364v1    I 2 C 0
s saiBol1.JH378123           11343527 83 -  29834108 GTTTGAATTCTTGGGAATTCAATTATTATCATTCAAATATGGGAGATATGAACACAA-TAACAAAGAATGCGAA---GGCTAGAGAT
i saiBol1.JH378123          I 2 C 0
s cebCap1.NW_016107911v1       798788 83 -   1015025 GTTTGAATTCTTGGGAATTCAATTATTATCACTCAAATATGGGAGCTATGAACACAA-TAACAAAGAATGAGAA---GGCAAGAGAT
i cebCap1.NW_016107911v1    I 2 C 0
s aotNan1.NW_018488218v1      1812793 83 -   2295209 GTTTGCATTCTTGGGAATTCAATTATTATCACTCAAATATGGGAGATATGAACACAA-TAACAAGGAATGAGAA---GGCTAGAGAT
i aotNan1.NW_018488218v1    I 2 C 0
s otoGar3.GL873576            4520093 78 -  12054995 GTTTGGATTCTTCGGAATT-----GTTATTGCTCAAATACAAGAGGTAAAAATACAA-AGAGGAAGAATGTTAG---AGTTAAGAAG
i otoGar3.GL873576          I 2 I 2
s mm10.chr6                   2372658 86 - 149736546 GCTTATAGTCTTAAATTCTTAATTATTATTACTTAAGAATGGGGAGCAGTATCTCAA-GGAGAAAGCACACAAAGATGGATTTAAAT
i mm10.chr6                 I 2 I 3
s canFam3.chr27              19675103 82 +  45876710 cTCAGTATTCTCAGAAATGTAATTATTATGAGTCAAATACAGGAGGTT--AACATGACTAAAGAACAATGTAAA---GGATAGGGCT
i canFam3.chr27             I 6 I 8
s dasNov3.JH562883             881744 82 -   1687904 GTTCGTATTACTGGTAATTGAGTTATCACCACTCGAGT-TGGGAGGTATAAATAGAA-AGAGCGAGAATGCAAG---GGCTCGAGCT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2932364 104 +  31815103 I
e proCoq1.NW_012140524v1      5028684 93 +  13104022 I

a score=161233.000000
s hg38.chr12_GL383549v1_alt     21027 14 +    120804 ----TGAAAGAC-AACTGG
s panTro5.chr12              62715905 14 + 137163284 ----TGAAAGAC-AACTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842619 14 + 135337776 ----TGAAAGAC-AACTGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057903 13 -  32808036 ----TGAAAGAC-AA-TGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241750 14 +  34552619 ----TGAAAGGC-AACTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557435 14 - 133663169 ----TGAAAGAC-AACTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956901 14 - 137757926 ----TGAAAGAC-AACTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334731 14 -   7948249 ----TGAAAGAC-AACTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235472 14 -  10730278 ----TGAAAGAC-AACTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726443 14 - 128539186 ----TGAAAGAC-AACTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121503 14 +    435186 ----TGAAAGAC-AACTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509828 14 +   9309688 ----TGAAAGAC-AACTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343610 14 -  29834108 ----GGAAAGAC-AACTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798871 14 -   1015025 ----GGAAAGAC-AACTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812876 15 -   2295209 ----GGAAAGACAAACTGG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5028777 14 +  13104022 ----GGAAAGAC-AATGGG
i proCoq1.NW_012140524v1    I 93 C 0
s otoGar3.GL873576            4520173 14 -  12054995 ----GGAAAGAC-AACTGG
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2372747 14 - 149736546 ----GGGGAGAC-AGTTGG
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19675193 14 +  45876710 ----GGCAAGAC-AACTTG
i canFam3.chr27             I 8 C 0
s dasNov3.JH562883             881826 15 -   1687904 AAGGAGAGGGAC-AGG---
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2932364 104 +  31815103 I

a score=2290435.000000
s hg38.chr12_GL383549v1_alt     21041 161 +    120804 -----AAAAGTAAGCATCGCCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
s panTro5.chr12              62715919 161 + 137163284 -----AAAAGTAAGCATCGCCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACTGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842633 161 + 135337776 -----AAAAGTAAGCATCGCCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCACGGATAGTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3057916 161 -  32808036 -----AAAAGTAAGCATCGCCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241764 161 +  34552619 -----AAAAGTAAGCATCGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCATACAGGCAACTTAAATGTTT-TCCCAGAACCCACGGATAGTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557449 161 - 133663169 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108956915 161 - 137757926 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334745 161 -   7948249 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235486 161 -  10730278 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726457 161 - 128539186 -----AAAAGTAAGCATGGTCAATCAGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121517 161 +    435186 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGACTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3509842 161 +   9309688 -----AAAAGTAAGCATGGTCAATCTGCAGATGAGCGCTTCCTTCCTCTTTGTAATTTGATAGTCTTCAGGAAACTGTCTGGTT-CCCAAGGGGAGAGGAATGAGGGTGTGTGCAGGGGAAGTCACACAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343624 162 -  29834108 -----GAAAGTAAGCATCTTCAATCTGCAGATGAGCATTTCCTTCCTCTTTGTAATTTGATAGCTTTCAGGAAACTCTCTGGTTCCCCAAGGGGAGAGGAATGACGGTGTGTGCAGGGGAAGTCACATAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       798885 162 -   1015025 -----GAAAGTAAGTATCTTCAATCTGCAGATGAGCACTTCCTTCCTCTTTGTAATTTGATAGCCTTCAGGAAACTCTCTGGTTCCCCAAGGGGAGAGGAATGACGGTGTGTGCAGGGGAAGTCACATAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1812891 158 -   2295209 -----GAAAGTAAGCATCTTCAATCTGCAGATGAGCACTTCCTTCTTCCTTGCAATTTGATAGCCTTCAGGAAA----CTGGTTCCCCAAGGGGAGAGGAATGACGGTGTGTGCAGGGGAAGTCACATAGGCAACTTAAATGTTT-TCCCAGAACCCATGGATAGTCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932468 158 +  31815103 -----AGAAGAGAGCATCCTCAATCTGCAGATAAGTGCTTCCTTCCCC-TTGTAATTTGATAGCC-CCAGGAAGC-CTCTGGTT-CCCAAGGGGAGAGGAAAGAGGGTGTGTGTAGGGGAAGTGACACAGGCCACTTAAATGTTT-TCCCAGAGCCCATGGAGAGTCC
i micMur3.chr21             I 104 C 0
s proCoq1.NW_012140524v1      5028791 158 +  13104022 -----AGAAGTGAGTATCCTCAATCTGCAGATAAGTGCTTCCTTCCCCTTTGTAATTTGATAGGC-CCAGGAAGC-CTCTGGTT-CCC-AGGGGCGAGGAATGAGGGTGTACGAAGGGGAAGTGACACAGGCCACTTAAATGTTT-TCCCAGAGTCCATGGAGAGTCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4520187 157 -  12054995 -----ACAAGTAAGCATCCTC-ATCTGCAGATCA-TGCTTCCTTCCCT-TTGTGATCTGATACCC-TCGGGAAGCTCCCTGGTC-CCCAAAGGGAGGGGAATGAGGGTGTGTGTGGGACAAGTCACACAGGCCACTTAAATGTTT-TCCCAGAGCCCACGGAGAGGCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372761 152 - 149736546 ---------GGAAG--TTCCCAATCTGCAGACAAGAGCCTCCTTAGCCTTTGTAACTGGAGAGCTGTCAGGAAACCAT-GGGCT-CCCAAAAGGAGAGGAGAATGGGTGTGTACAG---AAGTCACACAGGCAGCATGAATATTTGCCCCCAAAACTTCAGAGACTCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675207 161 +  45876710 -----AAAAGTAAGAATCTTCAAACTTCTGATAAAGGCTTCCTTCCCCTTTGTAACCTGAGAGACCTCAGGAAGCTCTCTGGCT-CCCAAGGGGAGTGGATTGAGGGTGTGTGCCACGGAAGTTACACAGGCAACTTAAATGTTT-TCCCAGAACTCATGGAGAGTCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             881841 155 -   1687904 AGACGGAAAGGCAGCGCCCTGCGTGGCTGGAGGAGGGCTTCCTGCCCTCTGGTAACCTGAGAGCGCTCAGGCAGC----GGGCT-CCCGGGGGCAGAGGCGCCCAGGTG----CAGGGGA--CCCTGCCGGCAGC-TGAGGGCTT-TCTCAGCACCCACGGGGAGTCT
i dasNov3.JH562883          C 0 I 49

a score=85063.000000
s hg38.chr12_GL383549v1_alt     21202 5 +    120804 ATGCA
s panTro5.chr12              62716080 5 + 137163284 ATGCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842794 5 + 135337776 ATGCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058077 5 -  32808036 ATGCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241925 5 +  34552619 ATGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557610 5 - 133663169 ATGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957076 5 - 137757926 ATGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334906 5 -   7948249 ATGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235647 5 -  10730278 ATGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726618 5 - 128539186 ATGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121678 5 +    435186 ATGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510003 5 +   9309688 ATGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343786 5 -  29834108 ATGCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799047 5 -   1015025 ATGCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813049 5 -   2295209 ATGCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932626 5 +  31815103 ATGCA
i micMur3.chr21             C 0 I 91
s proCoq1.NW_012140524v1      5028949 5 +  13104022 ATGCA
i proCoq1.NW_012140524v1    C 0 I 85
s otoGar3.GL873576            4520344 5 -  12054995 ATGCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372913 5 - 149736546 ACACA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675368 5 +  45876710 ATGCA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             881996 49 -   1687904 I

a score=341790.000000
s hg38.chr12_GL383549v1_alt     21207 35 +    120804 CTTCGATTTGTGCGATG----CAGTCTCTCTAGAGA--ata
s panTro5.chr12              62716085 35 + 137163284 CTTCGATTTGTGCGATG----CAGTCTCTCTAGAGA--ata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842799 35 + 135337776 CTTCGATTTGTGCGATG----CAGTCTCTCTAGAGA--ata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058082 35 -  32808036 CTTCGATTTGTGCGATG----CAGTCTCTCTAGAGA--ATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241930 37 +  34552619 CTTCGATTTGTGCGATG----CAGTCTCTCTAGAGAatata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557615 35 - 133663169 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957081 35 - 137757926 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334911 35 -   7948249 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235652 35 -  10730278 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726623 35 - 128539186 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121683 35 +    435186 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510008 35 +   9309688 GTTTGATTTGTGGGATG----CAGTCTCTCTAGAGA--ata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343791 39 -  29834108 GTTTGATTTGTGGGATGGAGCCAGTCTCTCTAGAGA--ata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799052 39 -   1015025 GTTTGATTTGTGGGATGCAGCCAGTCTCTCTAGAGA--ata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813054 39 -   2295209 GTTCGATTTGTGGGATGCAGCCAGTCTCTCTAGAGA--ATa
i aotNan1.NW_018488218v1    C 0 I 70
s otoGar3.GL873576            4520349 39 -  12054995 GCTGGGTTTGCAGGACACAGCCAGTCTCTTTTGAGA--ACG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372918 37 - 149736546 GCTGGATGTGTGGTACG--GCAGGCTTCTCTGAAGA--GTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675373 38 +  45876710 GCCCTGCTTGTGGGATGCTG-CGGTCTCTCTCACAA--ATA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2932631 91 +  31815103 I
e proCoq1.NW_012140524v1      5028954 85 +  13104022 I
e dasNov3.JH562883             881996 49 -   1687904 I

a score=58071.000000
s hg38.chr12_GL383549v1_alt     21242 6 +    120804 tatata
s panTro5.chr12              62716120 6 + 137163284 tatata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842834 6 + 135337776 tatata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058117 6 -  32808036 TATATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241967 6 +  34552619 tatata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557650 6 - 133663169 tatata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957116 6 - 137757926 TATATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334946 6 -   7948249 tatata
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235687 6 -  10730278 tatata
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726658 6 - 128539186 gatata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121718 6 +    435186 tatata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510043 6 +   9309688 tatata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343830 6 -  29834108 tatatg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799091 6 -   1015025 tatatg
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520388 6 -  12054995 TATGca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372955 6 - 149736546 TGTGTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675411 6 +  45876710 TGTATA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2932631 91 +  31815103 I
e proCoq1.NW_012140524v1      5028954 85 +  13104022 I
e aotNan1.NW_018488218v1      1813093 70 -   2295209 I
e dasNov3.JH562883             881996 49 -   1687904 I

a score=6126.000000
s hg38.chr12_GL383549v1_alt     21248 1 +    120804 t
s panTro5.chr12              62716126 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842840 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058123 1 -  32808036 G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241973 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557656 1 - 133663169 t
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957122 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334952 1 -   7948249 t
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235693 1 -  10730278 t
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726664 1 - 128539186 t
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121724 1 +    435186 t
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510049 1 +   9309688 t
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343836 1 -  29834108 t
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799097 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520394 1 -  12054995 c
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372961 1 - 149736546 T
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2932631 91 +  31815103 I
e canFam3.chr27              19675417 0 +  45876710 C
e proCoq1.NW_012140524v1      5028954 85 +  13104022 I
e aotNan1.NW_018488218v1      1813093 70 -   2295209 I
e dasNov3.JH562883             881996 49 -   1687904 I

a score=10230.000000
s hg38.chr12_GL383549v1_alt     21249 2 +    120804 at
s panTro5.chr12              62716127 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842841 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058124 2 -  32808036 AT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241974 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557657 2 - 133663169 at
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957123 1 - 137757926 A-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334953 2 -   7948249 at
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235694 2 -  10730278 at
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726665 2 - 128539186 at
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121725 2 +    435186 at
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510050 2 +   9309688 at
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343837 2 -  29834108 at
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799098 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520395 2 -  12054995 ac
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2372962 0 - 149736546 C
e micMur3.chr21               2932631 91 +  31815103 I
e canFam3.chr27              19675417 0 +  45876710 C
e proCoq1.NW_012140524v1      5028954 85 +  13104022 I
e aotNan1.NW_018488218v1      1813093 70 -   2295209 I
e dasNov3.JH562883             881996 49 -   1687904 I

a score=13923.000000
s hg38.chr12_GL383549v1_alt     21251 1 +    120804 a
s panTro5.chr12              62716129 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842843 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058126 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241976 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557659 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334955 1 -   7948249 a
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235696 1 -  10730278 a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726667 1 - 128539186 a
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       121727 1 +    435186 a
i manLeu1.NW_012101287v1    C 0 I 23
s colAng1.NW_012114364v1      3510052 1 +   9309688 a
i colAng1.NW_012114364v1    C 0 I 15
s saiBol1.JH378123           11343839 1 -  29834108 a
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799100 1 -   1015025 a
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479446 1 +   2295209 A
i aotNan1.NW_018488218v1    n 70 C 0
s micMur3.chr21              28879755 1 -  31815103 A
i micMur3.chr21             n 91 C 0
s proCoq1.NW_012140524v1      8072367 1 -  13104022 A
i proCoq1.NW_012140524v1    n 85 C 0
s otoGar3.GL873576            4520397 1 -  12054995 a
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              26198682 1 -  45876710 A
i canFam3.chr27             n 0 C 0
e mm10.chr6                   2372962 0 - 149736546 C
e dasNov3.JH562883             881996 49 -   1687904 I
e macFas5.chr11             108957124 0 - 137757926 C

a score=13923.000000
s hg38.chr12_GL383549v1_alt     21252 1 +    120804 t
s panTro5.chr12              62716130 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842844 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058127 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241977 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557660 1 - 133663169 t
i rheMac8.chr11             C 0 C 0
s macNem1.NW_012011422v1      1334956 1 -   7948249 t
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235697 1 -  10730278 t
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726668 1 - 128539186 t
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310848 1 -    435186 T
i manLeu1.NW_012101287v1    n 23 C 0
s colAng1.NW_012114364v1      5797019 1 -   9309688 T
i colAng1.NW_012114364v1    n 15 C 0
s saiBol1.JH378123           11343840 1 -  29834108 t
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799101 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 I 44
s aotNan1.NW_018488218v1       479447 1 +   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879756 1 -  31815103 T
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072368 1 -  13104022 T
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7531954 1 +  12054995 T
i otoGar3.GL873576          n 2 C 0
s canFam3.chr27              26198683 1 -  45876710 T
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2372962 0 - 149736546 C
e dasNov3.JH562883             881996 49 -   1687904 I
e macFas5.chr11             108957124 0 - 137757926 C

a score=54373.000000
s hg38.chr12_GL383549v1_alt     21253 5 +    120804 ttata
s panTro5.chr12              62716131 5 + 137163284 ttata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842845 5 + 135337776 ttata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058128 5 -  32808036 TTATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241978 5 +  34552619 ttata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557661 5 - 133663169 atata
i rheMac8.chr11             C 0 I 39
s macNem1.NW_012011422v1      1334957 5 -   7948249 atata
i macNem1.NW_012011422v1    C 0 I 31
s cerAty1.NW_011999477v1      8235698 5 -  10730278 atata
i cerAty1.NW_011999477v1    C 0 I 26
s chlSab2.chr11             100726669 5 - 128539186 atata
i chlSab2.chr11             C 0 I 23
s manLeu1.NW_012101287v1       310849 5 -    435186 TTATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797020 5 -   9309688 TTATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343841 3 -  29834108 --ata
i saiBol1.JH378123          C 0 I 26
s cebCap1.NW_016107911v1       213271 5 +   1015025 TTATA
i cebCap1.NW_016107911v1    n 44 C 0
s aotNan1.NW_018488218v1       479448 5 +   2295209 TTATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879757 5 -  31815103 TTATA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072369 5 -  13104022 TTATA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7531955 5 +  12054995 TTATA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              26198684 5 -  45876710 TTATA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2372962 0 - 149736546 C
e dasNov3.JH562883             881996 49 -   1687904 I
e macFas5.chr11             108957124 0 - 137757926 C

a score=211911.000000
s hg38.chr12_GL383549v1_alt     21258 16 +    120804 ATGTTCTCTAACTTTG
s panTro5.chr12              62716136 16 + 137163284 ATGTTCTCTAACTTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842850 16 + 135337776 ATGTTCTCTAACTTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058133 16 -  32808036 ATGTTCTCTAACTTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241983 16 +  34552619 ATCTTCTCTAACTTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102896 16 + 133663169 ATCTTCTCTAACTTTG
i rheMac8.chr11             n 39 C 0
s macFas5.chr11             108957124 13 - 137757926 ---TTCTCTCTCTCta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610676 16 +   7948249 ATCTTCTCTAACTTTG
i macNem1.NW_012011422v1    n 31 C 0
s cerAty1.NW_011999477v1      2491978 16 +  10730278 ATCTTCTCTAACTTTG
i cerAty1.NW_011999477v1    n 26 C 0
s chlSab2.chr11              27809921 16 + 128539186 ATCTTCTCTAACTTTG
i chlSab2.chr11             n 23 C 0
s manLeu1.NW_012101287v1       310854 16 -    435186 ATCTTCTCTAACTTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797025 16 -   9309688 ATCTTCTCTAACTTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487629 16 +  29834108 ATCTGCTCTAACTTTG
i saiBol1.JH378123          n 26 C 0
s cebCap1.NW_016107911v1       213276 16 +   1015025 ATCTGCTCTAACTTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479453 16 +   2295209 ATCTGCTCTAACTTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879762 16 -  31815103 ATCTTCTCTAACTTTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072374 16 -  13104022 ATCTTCTCTAACTTTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7531960 16 +  12054995 ATCTTCTCTAACTTTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              26198689 16 -  45876710 ATCTTCTCTTACTTTG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2372962  0 - 149736546 C
e dasNov3.JH562883             881996 49 -   1687904 I

a score=44878.000000
s hg38.chr12_GL383549v1_alt     21274 3 +    120804 TGT
s panTro5.chr12              62716152 3 + 137163284 TGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842866 3 + 135337776 TGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058149 3 -  32808036 TGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7241999 3 +  34552619 TGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102912 3 + 133663169 TGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957137 3 - 137757926 tat
i macFas5.chr11             C 0 I 45
s macNem1.NW_012011422v1      6610692 3 +   7948249 TGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2491994 3 +  10730278 TGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809937 3 + 128539186 TGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310870 3 -    435186 TGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797041 3 -   9309688 TGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487645 3 +  29834108 TGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213292 3 +   1015025 TGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479469 3 +   2295209 TGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879778 3 -  31815103 TGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072390 3 -  13104022 TGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7531976 3 +  12054995 GGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360546 3 + 149736546 TGT
i mm10.chr6                 n 0 C 0
s canFam3.chr27              26198705 3 -  45876710 TGC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             881996 49 -   1687904 I

a score=79040.000000
s hg38.chr12_GL383549v1_alt     21277 5 +    120804 GACCT
s panTro5.chr12              62716155 5 + 137163284 GACCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842869 5 + 135337776 GACCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058152 5 -  32808036 GACCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242002 5 +  34552619 GACCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102915 5 + 133663169 GACCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798155 5 + 137757926 GACCA
i macFas5.chr11             n 45 C 0
s macNem1.NW_012011422v1      6610695 5 +   7948249 GACCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2491997 5 +  10730278 GACCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809940 5 + 128539186 GACCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310873 5 -    435186 GACCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797044 5 -   9309688 GACCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487648 5 +  29834108 GACCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213295 5 +   1015025 GGCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479472 5 +   2295209 GACCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879781 5 -  31815103 GACCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072393 5 -  13104022 GACCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7531979 5 +  12054995 GACCA
i otoGar3.GL873576          C 0 I 35
s mm10.chr6                 147360549 5 + 149736546 GACCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198708 5 -  45876710 GACCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             802917 5 +   1687904 gatct
i dasNov3.JH562883          n 49 C 0

a score=451079.000000
s hg38.chr12_GL383549v1_alt     21282 29 +    120804 CACATATTTAAAATTCCTGTATCAATTTG
s panTro5.chr12              62716160 29 + 137163284 CACATATTTAAAATTCCTGTATCAATTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842874 29 + 135337776 CACATATTTAAAATTCCTGTATCAATTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058157 29 -  32808036 CACATATTTAAAATTCCTGTATCAATTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242007 29 +  34552619 CACATATTTAAAATTCCTGTATCAATTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102920 29 + 133663169 CACATATTTAAAATTCCTGTATCAATTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798160 29 + 137757926 CACATATTTAAAATTCCTGTATCAATTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610700 29 +   7948249 CACATATTTAAAATTCCTGTATCAATTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492002 29 +  10730278 CACATATTTAAAATTCCTGTATCAATTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809945 29 + 128539186 CACATATTTAAAATTCCTGTATCAATTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310878 29 -    435186 CACATATTTAAAATTCTTGTATCAATTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797049 29 -   9309688 CACATATTTAAAATTCCTGTATCAATTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487653 29 +  29834108 CACATATTTAAAATTCCTGTATCAATTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213300 29 +   1015025 CACATATTTAAAATTCCTGTATCAATTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479477 29 +   2295209 CACATATTTAAAATTCCTGTATCAATTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879786 29 -  31815103 CACATATTTAAAATTCCTGTATCAATTTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072398 29 -  13104022 CACATATTTAAAATTCCTGTATCAATTTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4520400 11 -  12054995 cacatactcac------------------
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                 147360554 29 + 149736546 CACATGTTTATGTTTCCTATATCCATGTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198713 29 -  45876710 CACATATTTAAAATTCCTGTATCAATTTG
i canFam3.chr27             C 0 I 4
s dasNov3.JH562883             802922 27 +   1687904 --cccatgtgAGATTCCTGCGTCAACCTG
i dasNov3.JH562883          C 0 C 0

a score=63640.000000
s hg38.chr12_GL383549v1_alt     21311 4 +    120804 ACTC
s panTro5.chr12              62716189 4 + 137163284 ACTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842903 4 + 135337776 ACTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058186 4 -  32808036 ACTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242036 4 +  34552619 ACTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102949 4 + 133663169 ACTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798189 4 + 137757926 ACTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610729 4 +   7948249 ACTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492031 4 +  10730278 ACTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809974 4 + 128539186 ACTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310907 4 -    435186 ACTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797078 4 -   9309688 ACTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487682 4 +  29834108 ACTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213329 4 +   1015025 ACTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479506 4 +   2295209 ACTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879815 4 -  31815103 ACTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072427 4 -  13104022 ACTC
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                 147360583 4 + 149736546 GCTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675417 4 +  45876710 ACTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             802949 4 +   1687904 ACTG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4520411 0 -  12054995 C

a score=28586.000000
s hg38.chr12_GL383549v1_alt     21315 2 +    120804 AC
s panTro5.chr12              62716193 2 + 137163284 AC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842907 2 + 135337776 AC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058190 2 -  32808036 AC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242040 2 +  34552619 AC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102953 2 + 133663169 AC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798193 2 + 137757926 AC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610733 2 +   7948249 AC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492035 2 +  10730278 AC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809978 2 + 128539186 AC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310911 2 -    435186 AC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797082 2 -   9309688 AC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487686 2 +  29834108 AC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213333 2 +   1015025 AC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479510 2 +   2295209 AC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879819 2 -  31815103 TC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072431 2 -  13104022 TC
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                 147360587 2 + 149736546 AC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198746 2 -  45876710 AC
i canFam3.chr27             I 4 C 0
s dasNov3.JH562883             802953 2 +   1687904 AC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4520411 0 -  12054995 C

a score=1030146.000000
s hg38.chr12_GL383549v1_alt     21317 64 +    120804 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCGGC
s panTro5.chr12              62716195 64 + 137163284 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCGGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842909 64 + 135337776 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCGGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058192 64 -  32808036 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCGGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242042 64 +  34552619 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCAGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29102955 64 + 133663169 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798195 64 + 137757926 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610735 64 +   7948249 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492037 64 +  10730278 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27809980 64 + 128539186 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310913 64 -    435186 TGCCACATTTCCTTCTGTGGGGACGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCGGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797084 64 -   9309688 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATAGCCAGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487688 64 +  29834108 TGCCACATTTCCTTCTGCGAGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCAGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213335 64 +   1015025 TGCCACATTTCTTTCTGCGAGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCTGGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479512 64 +   2295209 TGCCACATTTCCTTCTGTGGGGAAGAGGAAGCTACAGACCTCAAATGGCTTTTACATTGCCGGC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879821 64 -  31815103 TGCCACACTTCCTTCTGTGGAGAAAAGGAAGCTATAGACCTCAAATGGCTTTTACATTGTTGGC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072433 64 -  13104022 TGCCACAGTTCCTTCTGTGGAGAAAAGGAAACTACGGACCTCAAATGGCTTTTACGTTGTCGGC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7532019 64 +  12054995 TGCCACAGCTCCTTCTGTGGAGAAAAGGAAGCTACAGACCTCAAATGGCTTTTACACCATTGGC
i otoGar3.GL873576          I 35 C 0
s mm10.chr6                 147360589 58 + 149736546 TGTCAC------TCTTAGGAAAGAAAGAAAGCTTCAGACCTCAGATGGCTTCTCCATGGTCAGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198748 64 -  45876710 TGCCACATTTCCTTCTGTGTAGAAAAGGAAGTTACAGACCTCAAATGGCTTTTACATTGTCTGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             802955 64 +   1687904 AGCCACGTTTCCTCCCGGGTGGAGAAGGAAGTGGCAGTCCTCTTAGGGCTGCTGCGCCGCCTGC
i dasNov3.JH562883          C 0 n 0

a score=175681.000000
s hg38.chr12_GL383549v1_alt     21381 13 +    120804 ATGACAAGTTCCC
s panTro5.chr12              62716259 13 + 137163284 ATGACAAGTTCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842973 13 + 135337776 ATGACAAGTTCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058256 13 -  32808036 ATGACAAGTTCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242106 13 +  34552619 ATGACAAGTTCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29103019 13 + 133663169 ATGACAAGTTCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11              28798259 13 + 137757926 ATGACAAGTTCCC
i macFas5.chr11             C 0 n 0
s macNem1.NW_012011422v1      6610799 13 +   7948249 ATGACAAGTTCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492101 13 +  10730278 ATGACAAGTTCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27810044 13 + 128539186 ATGACAAGTTCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310977 13 -    435186 ATGACAAGTTCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797148 13 -   9309688 ATGACAAGTTCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487752 13 +  29834108 ATGACAAGTTCCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213399 13 +   1015025 ATGACAAGTTCCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479576 13 +   2295209 ATGACAAGTTCCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879885 13 -  31815103 TTAATACGTTCTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072497 13 -  13104022 ATAATACGTTCTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7532083 13 +  12054995 ATAATATATTCCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360647 13 + 149736546 GTGACAATTACCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198812 13 -  45876710 GTGATAAGTATAC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             803019  0 +   1687904 I

a score=31955.000000
s hg38.chr12_GL383549v1_alt     21394 3 +    120804 TGT--
s panTro5.chr12              62716272 3 + 137163284 TGT--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842986 3 + 135337776 TGT--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058269 3 -  32808036 TGT--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242119 3 +  34552619 TGT--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29103032 3 + 133663169 TGT--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957185 3 - 137757926 tgt--
i macFas5.chr11             I 45 C 0
s macNem1.NW_012011422v1      6610812 3 +   7948249 TGT--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492114 3 +  10730278 TGT--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27810057 3 + 128539186 TGT--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310990 3 -    435186 TGT--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797161 3 -   9309688 TGT--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487765 3 +  29834108 TGT--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       213412 3 +   1015025 TGT--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1       479589 3 +   2295209 TGT--
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879898 3 -  31815103 TGT--
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072510 3 -  13104022 TGT--
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            7532096 3 +  12054995 TCT--
i otoGar3.GL873576          C 0 n 0
s mm10.chr6                 147360660 3 + 149736546 TGA--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              26198825 3 -  45876710 --TAA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             803019 0 +   1687904 I

a score=235320.000000
s hg38.chr12_GL383549v1_alt     21397 21 +    120804 ACATATGGAATAGCA----GATGCC
s panTro5.chr12              62716275 21 + 137163284 ACATATGGAATAGCA----GATGCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60842989 21 + 135337776 ACATATGGAATAGCA----GATGCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058272 21 -  32808036 ACATATGGAATAGCA----GATGCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242122 21 +  34552619 ACATACGGAATAGCA----GATGCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29103035 21 + 133663169 GCATATGGAATAGCA----GATGCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957188 21 - 137757926 atatatatatataca----cacaca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      6610815 21 +   7948249 GCATATGGAATAGCA----GATGCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      2492117 21 +  10730278 GCATATGGAATAGCA----GATGCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11              27810060 21 + 128539186 GCATATGGAATAGCA----GATGCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       310993 21 -    435186 GCATATGGAATAGCA----GATGCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      5797164 21 -   9309688 GCATATGGAATAGCA----GATGCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           18487768 21 +  29834108 ACATATAGAACAGCA----GCTGCC
i saiBol1.JH378123          C 0 n 0
s cebCap1.NW_016107911v1       213415 21 +   1015025 ACATATAGAATAGTA----GATGCC
i cebCap1.NW_016107911v1    C 0 n 0
s aotNan1.NW_018488218v1       479592 21 +   2295209 ACATATAGAATAGCA----GATGCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21              28879901 21 -  31815103 ACGTATGGAATATCA----GATGCC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      8072513 21 -  13104022 ACATATGGAATATCG----GATGCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4520411 12 -  12054995 acacacaGA----------GAC---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360663 25 + 149736546 ACATATAGAATATCATTGTGATGAT
i mm10.chr6                 C 0 I 5
s canFam3.chr27              26198828 21 -  45876710 ACATATGGGATATCA----GATGCC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             803019  0 +   1687904 I

a score=13365.000000
s hg38.chr12_GL383549v1_alt     21418 1 +    120804 t
s panTro5.chr12              62716296 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843010 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058293 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242143 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11              29103056 1 + 133663169 T
i rheMac8.chr11             C 0 n 0
s macFas5.chr11             108957209 1 - 137757926 c
i macFas5.chr11             C 0 I 2
s macNem1.NW_012011422v1      6610836 1 +   7948249 T
i macNem1.NW_012011422v1    C 0 n 0
s cerAty1.NW_011999477v1      2492138 1 +  10730278 T
i cerAty1.NW_011999477v1    C 0 n 0
s chlSab2.chr11              27810081 1 + 128539186 T
i chlSab2.chr11             C 0 n 0
s manLeu1.NW_012101287v1       311014 1 -    435186 T
i manLeu1.NW_012101287v1    C 0 n 0
s colAng1.NW_012114364v1      5797185 1 -   9309688 T
i colAng1.NW_012114364v1    C 0 n 0
s saiBol1.JH378123           11343870 1 -  29834108 t
i saiBol1.JH378123          I 26 C 0
s cebCap1.NW_016107911v1       799146 1 -   1015025 t
i cebCap1.NW_016107911v1    I 44 C 0
s aotNan1.NW_018488218v1       479613 1 +   2295209 T
i aotNan1.NW_018488218v1    C 0 n 0
s micMur3.chr21              28879922 1 -  31815103 T
i micMur3.chr21             C 0 n 0
s proCoq1.NW_012140524v1      8072534 1 -  13104022 T
i proCoq1.NW_012140524v1    C 0 n 0
s mm10.chr6                 147360693 1 + 149736546 T
i mm10.chr6                 I 5 C 0
s canFam3.chr27              26198849 1 -  45876710 T
i canFam3.chr27             C 0 n 0
e otoGar3.GL873576            4520423 0 -  12054995 C
e dasNov3.JH562883             803019 0 +   1687904 I

a score=-13068.000000
s hg38.chr12_GL383549v1_alt     21419  6 +    120804 atg---------------tat
s panTro5.chr12              62716297 12 + 137163284 atg-tgtat--------atat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843011 12 + 135337776 atg-tgtat--------atat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058294 13 -  32808036 ATGGtatat--------atat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242144 20 +  34552619 ata-tatatatatattcatat
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108957212  6 - 137757926 ---------------acacac
i macFas5.chr11             I 2 C 0
s saiBol1.JH378123           11343871  6 -  29834108 ---------------atatat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799147  6 -   1015025 ---------------atatat
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520423  6 -  12054995 ---------------ATGTAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360694  6 + 149736546 ---------------GTGCAT
i mm10.chr6                 C 0 C 0
e micMur3.chr21              28879923  0 -  31815103 I
e canFam3.chr27              26198850  0 -  45876710 I
e proCoq1.NW_012140524v1      8072535  0 -  13104022 I
e aotNan1.NW_018488218v1       479614  0 +   2295209 I
e dasNov3.JH562883             803019  0 +   1687904 I
e colAng1.NW_012114364v1      5797186  0 -   9309688 I
e manLeu1.NW_012101287v1       311015  0 -    435186 I
e chlSab2.chr11              27810082  0 + 128539186 I
e cerAty1.NW_011999477v1      2492139  0 +  10730278 I
e macNem1.NW_012011422v1      6610837  0 +   7948249 I
e rheMac8.chr11              29103057  0 + 133663169 I

a score=10670.000000
s hg38.chr12_GL383549v1_alt     21425 2 +    120804 at
s panTro5.chr12              62716309 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843023 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058307 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242164 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108957218 2 - 137757926 ac
i macFas5.chr11             C 0 I 2
s manLeu1.NW_012101287v1       121751 2 +    435186 at
i manLeu1.NW_012101287v1    I 23 C 0
s colAng1.NW_012114364v1      3510068 2 +   9309688 at
i colAng1.NW_012114364v1    I 15 C 0
s saiBol1.JH378123           11343877 2 -  29834108 at
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799153 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520429 2 -  12054995 AT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360700 2 + 149736546 AT
i mm10.chr6                 C 0 C 0
e micMur3.chr21              28879923 0 -  31815103 I
e canFam3.chr27              26198850 0 -  45876710 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e aotNan1.NW_018488218v1       479614 0 +   2295209 I
e dasNov3.JH562883             803019 0 +   1687904 I
e chlSab2.chr11              27810082 0 + 128539186 I
e cerAty1.NW_011999477v1      2492139 0 +  10730278 I
e macNem1.NW_012011422v1      6610837 0 +   7948249 I
e rheMac8.chr11              29103057 0 + 133663169 I

a score=5576.000000
s hg38.chr12_GL383549v1_alt     21427 2 +    120804 at
s panTro5.chr12              62716311 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843025 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058309 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242166 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11343879 2 -  29834108 at
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799155 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4520431 2 -  12054995 GT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                 147360702 2 + 149736546 AT
i mm10.chr6                 C 0 n 0
e micMur3.chr21              28879923 0 -  31815103 I
e canFam3.chr27              26198850 0 -  45876710 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e aotNan1.NW_018488218v1       479614 0 +   2295209 I
e dasNov3.JH562883             803019 0 +   1687904 I
e colAng1.NW_012114364v1      3510070 0 +   9309688 C
e manLeu1.NW_012101287v1       121753 0 +    435186 C
e chlSab2.chr11              27810082 0 + 128539186 I
e cerAty1.NW_011999477v1      2492139 0 +  10730278 I
e macNem1.NW_012011422v1      6610837 0 +   7948249 I
e macFas5.chr11             108957220 2 - 137757926 I
e rheMac8.chr11              29103057 0 + 133663169 I

a score=53856.000000
s hg38.chr12_GL383549v1_alt     21429 8 +    120804 atatatat
s panTro5.chr12              62716313 8 + 137163284 atatatat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843027 8 + 135337776 atatatat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058311 8 -  32808036 atatatat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242168 8 +  34552619 atatgtat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557705 8 - 133663169 aTATATAT
i rheMac8.chr11             I 39 I 1
s macFas5.chr11             108957222 8 - 137757926 acaTATAT
i macFas5.chr11             I 2 I 1
s macNem1.NW_012011422v1      1334993 8 -   7948249 aTATATAT
i macNem1.NW_012011422v1    I 31 I 1
s manLeu1.NW_012101287v1       121753 8 +    435186 atatatat
i manLeu1.NW_012101287v1    C 0 I 2
s colAng1.NW_012114364v1      3510070 8 +   9309688 atatatat
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11343881 8 -  29834108 atatatat
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       799157 8 -   1015025 atatatat
i cebCap1.NW_016107911v1    C 0 I 1
s otoGar3.GL873576            4520433 8 -  12054995 ATATATAT
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                 147360704 0 + 149736546 I
e micMur3.chr21              28879923 0 -  31815103 I
e canFam3.chr27              26198850 0 -  45876710 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e aotNan1.NW_018488218v1       479614 0 +   2295209 I
e dasNov3.JH562883             803019 0 +   1687904 I
e chlSab2.chr11              27810082 0 + 128539186 I
e cerAty1.NW_011999477v1      2492139 0 +  10730278 I

a score=7098.000000
s hg38.chr12_GL383549v1_alt     21437 1 +    120804 T
s panTro5.chr12              62716321 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843035 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058319 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242176 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557714 1 - 133663169 T
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             108957231 1 - 137757926 T
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1335002 1 -   7948249 T
i macNem1.NW_012011422v1    I 1 C 0
s cerAty1.NW_011999477v1      8235729 1 -  10730278 t
i cerAty1.NW_011999477v1    I 26 C 0
s saiBol1.JH378123           11343890 1 -  29834108 T
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       799166 1 -   1015025 t
i cebCap1.NW_016107911v1    I 1 C 0
s aotNan1.NW_018488218v1      1813163 1 -   2295209 t
i aotNan1.NW_018488218v1    I 70 C 0
s dasNov3.JH562883             882045 1 -   1687904 T
i dasNov3.JH562883          I 49 C 0
e otoGar3.GL873576            4520441 0 -  12054995 C
e mm10.chr6                 147360704 0 + 149736546 I
e micMur3.chr21              28879923 0 -  31815103 I
e canFam3.chr27              26198850 0 -  45876710 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e colAng1.NW_012114364v1      3510078 2 +   9309688 I
e manLeu1.NW_012101287v1       121761 2 +    435186 I
e chlSab2.chr11              27810082 0 + 128539186 I

a score=24058.000000
s hg38.chr12_GL383549v1_alt     21438 3 +    120804 CCT
s panTro5.chr12              62716322 3 + 137163284 CCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843036 3 + 135337776 CCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058320 3 -  32808036 CCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242177 3 +  34552619 cct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557715 3 - 133663169 CCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957232 3 - 137757926 CCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335003 3 -   7948249 CCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235730 3 -  10730278 CCC
i cerAty1.NW_011999477v1    C 0 C 0
s manLeu1.NW_012101287v1       121763 3 +    435186 CCC
i manLeu1.NW_012101287v1    I 2 C 0
s colAng1.NW_012114364v1      3510080 3 +   9309688 CCC
i colAng1.NW_012114364v1    I 2 C 0
s saiBol1.JH378123           11343891 3 -  29834108 CCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799167 3 -   1015025 CCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813164 3 -   2295209 CCT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2372962 3 - 149736546 CTT
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             882046 3 -   1687904 CTT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4520441 0 -  12054995 C
e micMur3.chr21              28879923 0 -  31815103 I
e canFam3.chr27              26198850 0 -  45876710 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e chlSab2.chr11              27810082 0 + 128539186 I

a score=22800.000000
s hg38.chr12_GL383549v1_alt     21441 2 +    120804 TT
s panTro5.chr12              62716325 2 + 137163284 TT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843039 2 + 135337776 TT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058323 2 -  32808036 TT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242180 2 +  34552619 tt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557718 2 - 133663169 TT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957235 2 - 137757926 TT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335006 2 -   7948249 TT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235733 2 -  10730278 TT
i cerAty1.NW_011999477v1    C 0 C 0
s manLeu1.NW_012101287v1       121766 2 +    435186 TT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510083 2 +   9309688 TT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343894 2 -  29834108 TT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799170 2 -   1015025 TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813167 2 -   2295209 TT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2372965 2 - 149736546 TT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19675421 2 +  45876710 TC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             882049 2 -   1687904 TT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4520441 0 -  12054995 C
e micMur3.chr21              28879923 0 -  31815103 I
e proCoq1.NW_012140524v1      8072535 0 -  13104022 I
e chlSab2.chr11              27810082 0 + 128539186 I

a score=148357.000000
s hg38.chr12_GL383549v1_alt     21443 11 +    120804 TCAGTGCGTAC
s panTro5.chr12              62716327 11 + 137163284 TCAGTGCGTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843041 11 + 135337776 TCAGTGCGTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058325 11 -  32808036 TCAGTGCGTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242182 11 +  34552619 tcagtgcatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557720 11 - 133663169 TCAGTGCGTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957237 11 - 137757926 TCAGTGCGTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335008 11 -   7948249 TCAGTGCATAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235735 11 -  10730278 TCAGTGCGTAT
i cerAty1.NW_011999477v1    C 0 C 0
s manLeu1.NW_012101287v1       121768 11 +    435186 TCAGTGCGTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510085 11 +   9309688 TCAATGCATAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343896 11 -  29834108 TCAGTGCATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799172 11 -   1015025 TCAGTACATAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813169 11 -   2295209 TCAGTGCATAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932722 11 +  31815103 tcagtacatac
i micMur3.chr21             I 91 C 0
s proCoq1.NW_012140524v1      5029039 11 +  13104022 TCAGTGCATAC
i proCoq1.NW_012140524v1    I 85 C 0
s otoGar3.GL873576            4520441 10 -  12054995 -CAGTGCATAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372967 11 - 149736546 TCAGGACATGC
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19675423 11 +  45876710 TTAGTGCATAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             882051 11 -   1687904 TCGGTGCATCC
i dasNov3.JH562883          C 0 C 0
e chlSab2.chr11              27810082  0 + 128539186 I

a score=13549565.000000
s hg38.chr12_GL383549v1_alt     21454 881 +    120804  
s panTro5.chr12              62716338 884 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843052 884 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3058336 881 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7242193 885 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104557731 868 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108957248 868 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335019 883 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8235746 882 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100726697 882 - 128539186  
i chlSab2.chr11             I 23 C 0
s manLeu1.NW_012101287v1       121779 882 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510096 881 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11343907 882 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       799183 884 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1813180 884 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2932733 892 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5029050 888 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4520451 888 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2372979 852 - 149736546  
i mm10.chr6                 I 1 I 805
s canFam3.chr27              19675434 883 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             882062 888 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=554365.000000
s hg38.chr12_GL383549v1_alt     22335 46 +    120804 GTTAAGTGC---CCAAGCTTCACTGATA----C---TCTCTCTGCTAC------CTCAGAGA
s panTro5.chr12              62717222 46 + 137163284 GTTAAGTGC---CCAAGCTTCACTGATA----C---TCTCTCTGCTAC------CTCAGAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843936 46 + 135337776 GTTAAGTGC---CCAAGCTTCACTGATA----C---TCTCTCTGCTAC------CTCACAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059217 46 -  32808036 GTTAAGTGC---CCAAGCTTCACTGACA----C---TCTCTCTGCTAC------CTCAGAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243078 46 +  34552619 GTTAAGTGC---CCAAGCTTCACTGATA----C---TCTCTCTGCTAC------CTCAGAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558599 43 - 133663169 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958116 43 - 137757926 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335902 43 -   7948249 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236628 43 -  10730278 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727579 43 - 128539186 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122661 43 +    435186 ---AAGTGC---CCGAGCTTCACTGATA----C---TCTTTCTGCCAC------CTCAGAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3510977 43 +   9309688 ---AAGTGC---CCAAGCTTCACTGATA----C---TCTTTCTGCTAC------CTCAGAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11344789 48 -  29834108 ATTAAGTGC---CCAGGCTTCACTGATA--CTC---TCTCTCTGCTAC------CTCAGAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800067 48 -   1015025 GTTAAGTGC---CCAGGCTTCACTGATA--CCC---TCTCTCTGCTAC------CTCAGAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814064 50 -   2295209 ATTAAGTGC---CCAGGCTTCACTGATACTCTC---TCTCTCTGCTAC------CTTAGAGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2933625 46 +  31815103 GTCCAGTAC---CCAGGCTTCACTGACT----T---TCTCTCTGCTAC------CTCAGAGA
i micMur3.chr21             C 0 I 28
s proCoq1.NW_012140524v1      5029938 46 +  13104022 GTACAGTAC---CTAGGCTTCACTGACA----T---TCTCTCTGCTAC------CCCAGAGA
i proCoq1.NW_012140524v1    C 0 I 28
s otoGar3.GL873576            4521339 49 -  12054995 GTACAGTAC---TCCAGCTTCCCTGACC----TCTCCCTCTCTGCTAC------CTCAGAGA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19676317 42 +  45876710 GTAAAGGAA---CCGAGTTTCACTGATA----A-------TTTACTCC------CTCAGAGG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             882950 55 -   1687904 GGAAACTGCCAGCCGAGCTGCACGGGTC----T---TCTCTCGGCTACCCCAAACCCAGAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2373831 805 - 149736546 I

a score=-80643.000000
s hg38.chr12_GL383549v1_alt     22381 18 +    120804 G-TGCAGCTCC-------------------TTCAAATA
s panTro5.chr12              62717268 18 + 137163284 G-TGCAGCTCC-------------------TTCAAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60843982 18 + 135337776 G-TGCAGCTCC-------------------TTCAAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059263 18 -  32808036 G-TGCAGCTCC-------------------TTCAAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243124 17 +  34552619 G-TGCAGCTCC--------------------TCAAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558642  2 - 133663169 C------------------------------------A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958159  2 - 137757926 C------------------------------------A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335945  2 -   7948249 C------------------------------------A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236671  2 -  10730278 C------------------------------------A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727622 18 - 128539186 CATGCAGCTCC--------------------TCAAATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122704  2 +    435186 C------------------------------------A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511020 18 +   9309688 CATGCAGCTCC--------------------TCAAACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11344837 18 -  29834108 GATGCAGCTCC--------------------TCTAACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800115 18 -   1015025 GATGCAGCTCC--------------------TCTAACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814114 18 -   2295209 GATGCAGCTCC--------------------TCTAACA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4521388 20 -  12054995 ------GATCCAAC-----------GAGC-TTTAAGTA
i otoGar3.GL873576          C 0 I 8
s canFam3.chr27              19676359 20 +  45876710 -----------AACCCA------AAAAGC-TTTAAGCA
i canFam3.chr27             C 0 I 16
s dasNov3.JH562883             883005 22 -   1687904 ----------------GTTCTAGATAAGCTTACAAACA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2373831 805 - 149736546 I
e micMur3.chr21               2933671 28 +  31815103 I
e proCoq1.NW_012140524v1      5029984 28 +  13104022 I

a score=1375337.000000
s hg38.chr12_GL383549v1_alt     22399 106 +    120804 ----TACACTCCTCAAATCTGGATAAAAGCTTCGGTGGGTCCCACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATCAAAAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
s panTro5.chr12              62717286 106 + 137163284 ----TACACTCCTCAAATCTGGATAAAAGCTTCAGTGGGTTCCACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATCAAAAAAAAG-------------TACCTCAGTGCTAGAGTTGGAGTCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844000 106 + 135337776 ----TACACTCCTCAAATCTGGATAAAAGCTTCAGTGGGTTCCACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATCAAAAAAAAG-------------TACCTCAGTGCTAAAGTTGGAGTCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059281 106 -  32808036 ----TACACTCCTCAAATCTGGATAAAAGCTTCAGTGGGTTCCACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATCAAAAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243141 106 +  34552619 ----CACACTCCTCAAATCTGGATAAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATCAAAAAAAAG-------------TACCTCAGTGCTAGAGTTGGAGTCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558644 106 - 133663169 ----CACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTGGGTCAATCT--TTTCCTGTAA-GTAGTCATTTAAAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958161 106 - 137757926 ----CACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTGGGTCAATCT--TTTCCTGTAA-GTAGTCATTTAAAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1335947 106 -   7948249 ----CACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATTAAAAAAAGG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236673 106 -  10730278 ----CACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATTAAAAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727640 105 - 128539186 ----TACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCCTGTAA-GTAGTCATTAAAAAAAGG--------------ACCTCAGTGCTAGAGTTGGAGTCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122706 106 +    435186 ----CACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCCTGTGA-GTAGTCATTAAAAAAAAG-------------TACCTCGGTGCTAGAGTTAGAGTCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511038 105 +   9309688 ----TACACTCCTCAAATCTGGATTAAAGCTTCAGTGGGTTCAATTAGGTCAATCT--TTTCCTGTAA-GTAGTCATT-AAAAAAAG-------------TTCCTCGGTGCTAGAGTTGGAGTCAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11344855 105 -  29834108 ----TATACTCCTCAAATCTGGAGAAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCTTGTAA-GTAGTCATC-AGAAAAAG-------------TACCTGGGTGCTAGAGTTGGAGTCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800133 105 -   1015025 ----TACACTCCTCAAACCTGGATAAAAGCTTCAGTGGGTTCAACTAGGTCAATCT--TTTCTTGTAA-GTAGTCATC-AGAAAAAG-------------TACCTCGGTGCTAGAGTTGGAGTCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814132 105 -   2295209 ----TACACTCCTCAAATCTGGATAAAAGCCTCAGTGGGTTCAACTAGGTCAATCT--TTTCTTGTAA-GTAGCCATC-AGAAAAAG-------------TACCTCGGTAATAGAGTTGGAGACAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2933699 107 +  31815103 ----TACACTCTTCAAATCTGGATAAAAGCTTGAGTGGGTTCAACTAGGTCAATCT-ATTTCCTGTACAGGAGTCATT-GAAAAAAA-------------TACCTCGGTGCTAGGGTTAGAGTCAG
i micMur3.chr21             I 28 I 80
s proCoq1.NW_012140524v1      5030012 106 +  13104022 ----TACACTCTTCAAATCTGGATAAAAGCTTGAGTGGGTTCAACTCGGTCAATCT-ATTTCCTATAC-GGAGTCATT-GAAAAAAA-------------TACCTCAGTGCTAGGGTTAGAGTCAG
i proCoq1.NW_012140524v1    I 28 C 0
s otoGar3.GL873576            4521416 106 -  12054995 ----TACCCTCTTCAAATCTGGGTAAAAGCTTGAGTGGGTTCAAGTAGGTCAATCC-TCTTCCTGTAC-ACAGCCATT-GAAAACAG-------------AACCTCAGTCCTAGACTTAGAGTCAG
i otoGar3.GL873576          I 8 C 0
s canFam3.chr27              19676395 106 +  45876710 ----TGTGCTCCTCAAATCTCAACAGAAGCTCTAGTGATTTCACCCAGGTCAAGCT-TTCTTCTATAA-GGAGTCAGA-GAGGAAAG-------------TACCTCCGTGCTAGGGTTGAAATCAG
i canFam3.chr27             I 16 C 0
s dasNov3.JH562883             883027 107 -   1687904 TGCCTCGAATTCTCAGATTTGCATAAA------------------TAGATCAATTTTTTTTCTTGTAA-GTAGTCATAAAAAAAAAAACCAAACACCACCTATCTCAGTGGTAGAATTAGAATCAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2373831 805 - 149736546 I

a score=764977.000000
s hg38.chr12_GL383549v1_alt     22505 81 +    120804 CACCAGTCTTGAAGACATAAACAGTCTTGACAGCACCTAGAATAAACATGTGCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
s panTro5.chr12              62717392 81 + 137163284 CACCAGTCTTGAAGACATAAACAGTCTTCACAGCACCTAGAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844106 81 + 135337776 CACCAGTCTTGAAGACATAAACAGTCTTGACAGCACCTAGAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059387 81 -  32808036 CACCAGTCTTGAAGACATAAACAGTTTTGACAGCACCTAGAATAAACATGTCCTTGTCTGTATCGCA-----GAAG--------GACAACAGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243247 81 +  34552619 CACCAGTCTTGAGGACATAAACAGTTTTGACAGCACCTAGAATAAACTTGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558750 81 - 133663169 CACCCGTCTTGAAGACATAAACAGTTTTGGCACCACCTACAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958267 81 - 137757926 CACCCGTCTTGAAGACATAAACAGTTTTGGCACCACCTACAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336053 81 -   7948249 CACCCGTCTTGAAGACATAAACAGTTTTGGCACCACCTACAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236779 81 -  10730278 CACCCGTCTTGAAGACAGAAACAGTTTTGGCACCGCCTACAATAAACATGTCCTTGTCTGTATCAGA-----GAAG--------AACAACAGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727745 81 - 128539186 CACCCGACTTGAAGACATAAACAGTTTTGGCACCGCCTAGAATAAACATGTCCTTGTCTGTATCATA-----GAAA--------GACAACAGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122812 81 +    435186 CACCCGTCTTGAAGACATAAACAGTTTTGGCACCGCCTAGAATAAACACGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511143 81 +   9309688 CACCCGTCTTGAAGACATAAACAGTTTTGGCACCGCCTAGAATAAACATGTCCTTGTCTGTATCATA-----GAAG--------GACAACAGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11344960 80 -  29834108 CATCAGTCTTGAAGACAGAAACAGATTTGGCAGCACATAGAATAAACGTGTCTTTGTCTGTATCATA-----GAAG--------GACAAGA-AT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800238 76 -   1015025 CACCAGTCTTGAAGACATAAACAGATTTGGCAGCACATAGAATAAACGTGTCTT----TGTATCGTA-----GAAG--------GACAACA-AT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814237 80 -   2295209 CACCAGTCTTGAAGACATAAACAGATTTGGCAGCACATGGAATAAACGTGTCTTTGTCTGTATGGTA-----GAAG--------GACAACA-AT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5030118 79 +  13104022 ------TCTTGAAAACATGAATAGTTTGAGCAGCACCTAGCATAAGTGTGTTTTTGTCTATATTGTACAAGTAAAG--------GGCAACG-AC
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4521522 80 -  12054995 CACCGGCCTTG---ACATGAACAATTCAGACAGCACC-AGCATTAATGTG-TTTTGTCCATATTGTACATGTAAAG--------GGTACTA-AC
i otoGar3.GL873576          C 0 I 1
s canFam3.chr27              19676501 85 +  45876710 CACCAGTTTTGAAGATCTAAACAG-TTTGGCAGCACCTAGTGCGAATGTTTCTTTGTTTACTTTGTA-----GAAGTAAAGGGCAACAACA---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             883134 64 -   1687904 CACCA-----GGAGACATAAGCAGTTTTAGAAGGATCTG------------CCTTTTGCCTACCCTG-----AAAA--------AGTAAAGGGC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2373831 805 - 149736546 I
e micMur3.chr21               2933806 80 +  31815103 I

a score=179095.000000
s hg38.chr12_GL383549v1_alt     22586 16 +    120804 -ACA-TTTTAAGGGGAAA
s panTro5.chr12              62717473 16 + 137163284 -ACA-TTTTAAGGGGAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844187 16 + 135337776 -ACA-TTTTAAGGGGAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059468 16 -  32808036 -ACA-TTTTAAGGGGAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243328 16 +  34552619 -ACA-TTTTAAGGGAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558831 16 - 133663169 -ACA-TTTTAAGGGGAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958348 16 - 137757926 -ACA-TTTTAAGGGGAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336134 16 -   7948249 -ACA-TTTTAAGGGGAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236860 16 -  10730278 -ACA-TTTTAAGGGGAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727826 16 - 128539186 -ACA-TTTTAAGGGGAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122893 16 +    435186 -ACA-TTTTAAGGGGAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511224 16 +   9309688 -ACA-TTTTAAGGGGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11345040 17 -  29834108 -GCATTTTTAAAGGGAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800314 16 -   1015025 -GCA-TTTTAAGGGGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814317 16 -   2295209 -GCA-TTTTAAGGGGAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2933886 16 +  31815103 -ACT-TTTTAAGGGGCAA
i micMur3.chr21             I 80 C 0
s proCoq1.NW_012140524v1      5030198 16 +  13104022 -ACT-TTATAAGGCGCAA
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4521603 16 -  12054995 -ATT-TATAAAGAGTCAA
i otoGar3.GL873576          I 1 C 0
s canFam3.chr27              19676586 16 +  45876710 -GTG-TTTTTAGGGAGAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             883198 16 -   1687904 AACC-TCTGAGGGAGAG-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2373831 805 - 149736546 I

a score=627830.000000
s hg38.chr12_GL383549v1_alt     22602 40 +    120804 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
s panTro5.chr12              62717489 40 + 137163284 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844203 40 + 135337776 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059484 40 -  32808036 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243344 40 +  34552619 GCCCAAATCAGCCG----GAAATACCTTTGCTCTGATG---------TGAGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558847 40 - 133663169 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958364 40 - 137757926 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336150 40 -   7948249 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236876 40 -  10730278 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727842 40 - 128539186 GACCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122909 40 +    435186 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511240 40 +   9309688 GCCCAAGTCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11345057 40 -  29834108 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800330 40 -   1015025 GCCCAAATCAGCTG----GAAATATCTTTGCTCTGATG---------CGAGGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814333 40 -   2295209 GCCCAAATCAGCTG----GAAATACCTTTGCTCTGATG---------TGAGGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2933902 40 +  31815103 GCCCAGATCAGTTG----GAAATACCTTTGTTCTTATG---------TGAAGA
i micMur3.chr21             C 0 I 16
s proCoq1.NW_012140524v1      5030214 40 +  13104022 GCCCAGATCAGTTG----AAAATACCTTTGTTCTCATG---------TGAGGG
i proCoq1.NW_012140524v1    C 0 I 16
s otoGar3.GL873576            4521619 39 -  12054995 TCCCAAATCGGTTG----GAAATACCTTTGTTCTTATG----------GAGGG
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2374636 41 - 149736546 GCCCAAATCAGCTG---AAAAAAACCTTTGTTCTTATG---------TGAGGC
i mm10.chr6                 I 805 I 4
s canFam3.chr27              19676602 44 +  45876710 GCCCAAACCAGCTGGAAAGAAATATCTCTGCTCTTAGG---------TTGAGG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             883214 49 -   1687904 ACCCAAATTAGCTG----AAAATGCCTTTGTTCCTTTGCTCTTTAAATGAGGA
i dasNov3.JH562883          C 0 C 0

a score=100323.000000
s hg38.chr12_GL383549v1_alt     22642 15 +    120804 --CTTGA-ATCCTC------CCCT
s panTro5.chr12              62717529 15 + 137163284 --CTTGA-ATCCTC------CCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844243 15 + 135337776 --CTTGA-ATCCTC------CCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059524 15 -  32808036 --CTTGA-ATCCTC------CCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243384 15 +  34552619 --CTTGA-ATCCTC------CCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558887 15 - 133663169 --CTTGA-ATCCTC------CACC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958404 15 - 137757926 --CTTGA-ATCCTC------CACC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336190 15 -   7948249 --CTTGA-ATCCTC------CACC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236916 15 -  10730278 --CTTGA-ATCCTC------CACC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727882 15 - 128539186 --CTTGA-ATCCTC------CACC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122949 15 +    435186 --CTTGA-ATCCTC------CACC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511280 15 +   9309688 --CTTGA-ATCCTC------CACC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11345097 15 -  29834108 --CTTGA-ATCCTC------CCCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800370 15 -   1015025 --CTTGA-ATACTC------CCCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814373 15 -   2295209 --CTTGA-ATCCTC------CCCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4521660 14 -  12054995 --CCAGG-GTTCTT------CCC-
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2374681  8 - 149736546 --CTTGG-CCC-------------
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19676647 15 +  45876710 --TGCGATATCCTT------CCC-
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             883263 21 -   1687904 CCCCCAA-GTTCCCAGGAGACC--
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2933942 16 +  31815103 I
e proCoq1.NW_012140524v1      5030254 16 +  13104022 I

a score=2467723.000000
s hg38.chr12_GL383549v1_alt     22657 185 +    120804 AGAACAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTACTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATGAAGATACAGAACCCA-TCAAGGTTTAA-TTGCTTAGTCTTTCTGCCCTGGGT-AAAATGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
s panTro5.chr12              62717544 185 + 137163284 AGAACAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTACTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATGAAGATACAGAACCTA-TCAAGGTTTAA-TTGCTTAGTCTTTCTGCCCTGGGT-AAAATGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844258 185 + 135337776 AGAACAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTACTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATGAAGATACAGAACCTA-TCAAGGTTTAA-TTGCTTAGTCTTTCTGCCCTGGGT-AAAATGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059539 185 -  32808036 AGAACAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTACTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATGAAGATACAGAACCCA-TCAAGGTTTAA-TTGCTTAGTCTTTCTGCCCTGGGT-AAAATGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243399 186 +  34552619 AGAACAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTCGGCTTCTTTGCTCTGGATTACCAAATTTGGGAATTGCTATTAAGAATCAAGATACAGAACCCA-TCAAGGTTTAA-TTGCTTAGTCTTTCTGCCCTGGGTAAAAATATAGGTAAGATTTTCTTCTGCGTCTCT--CCCAATCTAGTCCTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104558902 187 - 133663169 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCGAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958419 187 - 137757926 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCGAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336205 187 -   7948249 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCGAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8236931 187 -  10730278 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCAAGGTTTAATTTGCATAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCCATGTCTCT--CCCAATCTAGTCCTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100727897 187 - 128539186 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGAGTTTTTGGCTTCTTTGCTCTGGATTGCCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCAAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       122964 187 +    435186 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTCAGTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCAAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTATGTCTCT--CCCAATCTAGTCCTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511295 187 +   9309688 AGAGCAC--------AGGTAAATAGATTTAATATCTTCTGACTTTTTGGCTTCTTTGCTCTGGATTACCAAATTTTGGAATTGCTATTAAGAATCAAGATACAGAACCCATTCAAGGTTTAATTTGCTTAGTCTTTCTGCCCTGGGT-AAAACGTAGGTAAGATTTTCTTCTACGTCTCT--CCCAATCTAGTCCTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11345112 187 -  29834108 AGAACGC--------AGGTAAATAGATTTGATATCTTCTGAGCTTTTGGTTTCTTTGCTCTGGGTTACCAAATTTTGGGATTGCTATTAAGAATCAAGATACAGAGCCCATGCAAGGTTTGATTTGCTTAGTCTTTCTACCCTGGGT-AAAACGTAGGTAAGATGTTCTTCTACGTCCCT--CCAAATCTACGCCTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800385 187 -   1015025 ACAACAC--------AGGTAAATAGATTTGATATCTTCTGAGCTTTTGGTTTTTTTGCTCTGGGTTACCAAATTTTGGGATTGCTATTAAGAATCAAGATACAGAGCCCATGCAAGATTTAATTTGCTTAGTCTTTCTACCCTGGGT-AAAATGTAGGTACAATGTTCTTCTACGTCTCT--CAGAATCTACTCCTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814388 187 -   2295209 AGAACAC--------AGGTAAATAGATTTGATATCTTCTGAGCTTTTGGTTTCTTTGCTCTGGGTTACCAAATTTTGGGATTGCTATTAAGAATCAAGATACAGAGCCCATGCAAGGTTTAATTTGCTTAGTCTTTCTACCCTGGGT-AAAATGTAGGTAAGATGTTCTTCTACGTCTCT--CCGAATCTACTCCTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2933958 195 +  31815103 AGAACACCTCTTCTGAGGTAAATAGATTTGATATCTTCTGAGTTTTTGACTTCGCTTCTCTGAGTTACCAAATTTCTGAGGTGATATTAAATATCAAGATATAGGATATGTTAAAAGTTTAATTTACTCAGTCTTTCTGCTGTGCAT-AAAATGCAGGTAAGATTTTCCTCCATCCTTCT--CTGAATCTGCTCCTTA
i micMur3.chr21             I 16 C 0
s proCoq1.NW_012140524v1      5030270 192 +  13104022 AGAACACC---TCTGAGGTAAATAGATTTGATGTCTTCTGAGTTTCTGGCTTCTCTGCTCTGGGTTACCAAATTTCTGAAGTGATATTAAATATCAAGATATAGGATATGTTAAAAGTTTAATTTGCTCAGTCTTTCTGCTGTGGGT-AAAATGTGGGTAAGATTTTCCTCTATGCTTCT--CTGAATCTGCTCCTTA
i proCoq1.NW_012140524v1    I 16 C 0
s otoGar3.GL873576            4521674 166 -  12054995 AGAACATCTCTTCC-AGGTAAATAAATTTGATATCTTCTGAGTTTTTGGCTTTTCGTCTCTGAGT--------------------------TATCAAGATACAAGATATGTTAGAAGTTTAA-TTGCTTGGTCTTTCTGCCTTGGGT-AAAATGTAAATAAGATTTTCCCCCTTGCCT-T--TTGAATCTACTGCATA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2374689 159 - 149736546 AGAACACCTATTTC-GGGTAAATTGATCCAATGTCTTCCGAACATTTA----TAAAGCTCTGGGTGACTGGGTTTCTGAGTCAACAGTAAGTATTGATATATAGACTATA---------------ACTTAATTTTTCACAGCAGGGT-AA------------------TGTTACCTCTCTACTCTAATCTACTCCTTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19676662 191 +  45876710 AGAGCACCTCCTCC-AGGTAAATAGATTTGATAT-TTCTAAGCTATTGGCTTCTTTGCTCTGGGTTACCAAATTTCTGAATTTGCATT-CGTATCAAGATACAGGATATG-TAGAGGTTTAGTTTGCTCGGTCTTTCTGCCCTGAGT-GAAAAGTAGATAAGATTTTCTTCTATGCCTCT--TTAGATCTACTCCGCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             883284 184 -   1687904 ACCATCC--------AGGTAAATGGATTTGATATCTTCTGAGTTTTTGGCTTCTCTACTCTAGAAGACCAAATTTGGGAACTGGCATTAAGTGTCAAGATACAAGGTCCGTTAAAGGTTTAA-TTCCTCAGTCTTT-TGCTCTGGGT-AAAAAGCGGGTAAGAT-TTCTTCCATGCCTCT--CCAAATCTACttcttt
i dasNov3.JH562883          C 0 I 488

a score=17696940.000000
s hg38.chr12_GL383549v1_alt     22842 1197 +    120804  
s panTro5.chr12              62717729 1201 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60844443 1200 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3059724 1202 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7243585 1203 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104559089 1202 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108958606 1202 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1336392 1199 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8237118 1200 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100728084 1199 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       123151 1199 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3511482 1199 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11345299 1198 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       800572 1195 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1814575 1199 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2934153 1206 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5030462 1204 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4521840 1213 -  12054995  
i otoGar3.GL873576          C 0 I 22
s mm10.chr6                   2374848 1198 - 149736546  
i mm10.chr6                 C 0 I 102
s canFam3.chr27              19676853 1186 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             883956 1297 -   1687904  
i dasNov3.JH562883          I 488 C 0

a score=162698.000000
s hg38.chr12_GL383549v1_alt     24039 21 +    120804 --------------AACC------G---------------------------------AAAG-----------AAAAAAAAAGAC
s panTro5.chr12              62718930 21 + 137163284 --------------aacc------a---------------------------------aaag-----------aaaaaaaaagac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845643 20 + 135337776 --------------AACC------A---------------------------------AAAG------------AAAAAAAAGAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3060926 21 -  32808036 --------------aacc------a---------------------------------aaag-----------aaaaaaaaagac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7244788 21 +  34552619 --------------aacc------a---------------------------------aaag-----------aaaaaaaaagac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560291 22 - 133663169 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAGAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108959808 22 - 137757926 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAGAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337591 22 -   7948249 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAGAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238318 21 -  10730278 --------------aacc------a---------------------------------aaag-----------aaaaaaaaagac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729283 22 - 128539186 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAGAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124350 22 +    435186 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAGAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512681 23 +   9309688 --------------AACC------A---------------------------------AAAG---------AAAAAAAAAAAGAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346497 22 -  29834108 --------------AACC------A---------------------------------AAAA----------AAAAAAAAAAGAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       801767 24 -   1015025 --------------AACC----aaa---------------------------------aaaa----------aaaaaaaaaaGAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1815774 19 -   2295209 --------------AACC------------------------------------------GA----------AAAAAAAAAAGAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935359 26 +  31815103 --------------AACCaaaaaaa---------------------------------aaaa----------aaaaaaaaaac--
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031666 20 +  13104022 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAAC--
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                   2376148 22 - 149736546 --------------aagg------a---------------------------------gaag----------aggaaaagaagaa
i mm10.chr6                 I 102 I 5
s canFam3.chr27              19678039 19 +  45876710 --------------AACC------A---------------------------------AAAG----------AAAAAAAAAT---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             885253 79 -   1687904 cacagagagcagacaacc------agggtgggggggggggaaggggagagaaataaataaagaaataaattaaaaaaAAAAAAGC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4523053 22 -  12054995 I

a score=3192945.000000
s hg38.chr12_GL383549v1_alt     24060 209 +    120804 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--GGATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GAATGCCCATCTCA
s panTro5.chr12              62718951 209 + 137163284 -------------------------aagCCACA-GGTAGTATTCTCATATTATATTTGCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--GGATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCGCTGTGCAAATCTAAACACTCCTATCCTTGCAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GAATGCCCATCTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845663 209 + 135337776 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--GGATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGCAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GAATGCCCATCTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3060947 209 -  32808036 -------------------------aagCCACA-GGTAGTATTCTCATATTATATTTGCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--GGATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGCAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GAATGCCCATCTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7244809 209 +  34552619 -------------------------aagCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--ACATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTACGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GAATGCCCATCTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560313 209 - 133663169 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTCCTTGCCAAAATTATTTTCCGCTAACTTAAAGCTATGTATCACTATGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108959830 209 - 137757926 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTCCTTGCCAAAATTATTTTCCGCTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337613 209 -   7948249 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTCCTTGCCAAAATTATTTTCCGCTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTACCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238339 209 -  10730278 -------------------------aagCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTGCTTGCCAAAATTATTTTCCGCTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729305 208 - 128539186 -------------------------AAGCCACA-GGTAGTATTCTCATATTTTATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATCTTTTTATGACATGGAGAC--AGATCTGCTTGCCAAAATTATTTTCCG-TAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTA----GCTAAA--GGGTGCCCATCTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124372 209 +    435186 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTGCTTGCCAAAATTATTTTCCGCTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512704 209 +   9309688 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTGCTTGCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTGTAGCATCAACCATT--CATCTTATTACTG----GCTAAA--GGGTGCCCATCTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346519 210 -  29834108 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATAGTAGAGAGAAATATCTTAATGACATGCAGAC--AGATCTGCTTGCCAAAATTATTTTCCACTAACTT-AAGCTACATATCACTGTGCAAATCTAAATACTCCTATCCTTATAGCATCAACCATTTATATCTTATTACTG----GCTAAA--GGGTGCCTACCTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       801791 205 -   1015025 -------------------------AACCCACA-GGTAGTATTCTC-----ATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTGCTTGTCAAAATTATTTTCCACTAACTT-AAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTATAGCATCAACCATTTATATCTTATTACTG----GCTAAA--GAGTGCCTACCTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1815793 210 -   2295209 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAGAC--AGATCTGCTTGCCAAAATTATTTTCCACTAAGTT-AAGCTATGTATCACTGTGCAAATCTAAACACTCCTATCCTTATAGCATCAACCATTTATATCTTATTACTG----GCTAGA--GGGTGCCTACCTCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935385 211 +  31815103 -------------------------aaGCCACA-GGTAGTATTCTCATATTATGTTTGCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAAACTGAGATCTGCTTTCCAAAAGTATTTTCCACTAACTTAAAGCTATGTGTCATTGTGCAAACCTAAAGACTCCTATCCTTGTAGAGTCAAACATT--CATCTCATAACTG----GCACAA--GGAGGCCTATCTCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031686 211 +  13104022 -------------------------AAGCCACA-GGTAGTATTCTCATATTATGTTTTCTTGAGCTGTCAGAACAAAATACTAGAGAGAAATATTTTTATGACATGGAAACTGAGATCTGCTTTCCAAAATTATTTTCCACTAACTTAAAGCTATGTGTCATTGTGCAAACCTAAGGACTCCTATCCTTGCAGAGTCAAACATT--TATCTCAGAACTG----GCACAA--GGATGCCTATCTCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523075 211 -  12054995 -------------------------AAGCCACA-GGTAGTATTCTCATATTATGTTTGTTTGAGTTGTCAGAACAAAATACTAGAGAGAAATATTTATATGACATGGAAACTGAGATCTGCTTTCCAAAATTCTTTTCCGCTAACTTAAAGCTGTGTGTCATTGTGTAAACCTAAGGACTCCTATCCTTGTAGAGTCGAGGATT--TATCTTATAACTG----GCACGA--GGATGCCCAGCTCA
i otoGar3.GL873576          I 22 C 0
s mm10.chr6                   2376175 197 - 149736546 -------------------------CAGCTATA-GAAAGTATGCTTGTATTA--TTTGTTTCAGCCATTGGTACAAAATACTAGGGAGAAATATTTTTATTACATGAAAACTGAGATCTCC---CCAAAATGATTTTCCACTAACTTAAAGC-----ATCATTGTACAAACTCAAGCACTCCTATCCTTGTAGAG-------TT--TATCTTGTGAATAGAGCGATATG--TGGAGCATCCCTC-
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19678058 211 +  45876710 -------------------------AAGCCACA-GGTAGTATTCTCATATTATATTTGTTTGAGCTGTCAGGACAAAATACTAGAAAGAAATATTTTTATGACATGGAAACTAAGATCTGCTTTCCAAAATTATTTTCCACTAACTTAAAGCTATGTATCATTGTGCAAACCTAAAGACTCCTATCCTTACAGAATTAAATATT--TATCTTACAACTG----GAGAAA--GGGCACCTATCTCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             885332 232 -   1687904 AGATTTTTAAAAAAAAGAACACACCCAGCTGCAGGGTAGTAACCTTGTATTCTATTTG----AGCTGTCAGGATGAAATCCTAGGGAGACATGTTTTTATGCCATGGAAAGTGAGGCCTGCTTGCCAAAATTATTTTTCCCTGACTGAAAGCTATG---CATTGTACAAACCTAGAGACTCCTGTCCTTGCAGAACCCAATAGC--TATCTTACAAGTG----GACAAAAGGAAGGCTCGCTCCA
i dasNov3.JH562883          C 0 I 4320

a score=275689.000000
s hg38.chr12_GL383549v1_alt     24269 24 +    120804 AATAAACAAGTGTACAAGGTAGTG
s panTro5.chr12              62719160 24 + 137163284 AATAAACAAGTGTACAAGGTAGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845872 24 + 135337776 AATAAACAAGTGTACAAGGTAGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061156 24 -  32808036 AATAAacaagtgtacaaggtagtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245018 24 +  34552619 AATAAACAAGTGTACAAGCTAGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560522 24 - 133663169 AATAAACAAGCGTACAAGGTAGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960039 24 - 137757926 AATAAACAAGCGTACAAGGTAGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337822 24 -   7948249 AATAAACAAGCGTACAAGGTAGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238548 24 -  10730278 AATAAACAAGCGTACAAGGTAGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729513 24 - 128539186 AATAAACAAGCGTACAAGGTAGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124581 24 +    435186 AATAAACAAGCGTACAAGGTAGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512913 24 +   9309688 AATAAACAAGCATACAAGGTAGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346729 24 -  29834108 AATAAACAAGCATGCAAGGTAGCG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       801996 24 -   1015025 AATAAACAAGCACGCAAGGTAGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816003 24 -   2295209 AATAAACAAGCATGCAAGGTAGTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935596 24 +  31815103 CATGAGCAAGCATACATAGTAGTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031897 24 +  13104022 CATGAGCAAGCATACATAGTGGTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523286 24 -  12054995 CACGAGCAAGCATACACAGTGGAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2376372  9 - 149736546 ------CACACATCC---------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19678269 24 +  45876710 AATGTGCAAGCATGCATAGTAGAG
i canFam3.chr27             C 0 I 119
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=96949.000000
s hg38.chr12_GL383549v1_alt     24293 10 +    120804 AGGTACAGGG
s panTro5.chr12              62719184 10 + 137163284 AGGTACAGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845896 10 + 135337776 AGGTACAGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061180 10 -  32808036 aggtacaggg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245042 10 +  34552619 AAGTACAGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560546 10 - 133663169 AGGTACAGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960063 10 - 137757926 AGGTACAGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337846 10 -   7948249 AGGTACAGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238572 10 -  10730278 AGGTACAGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729537 10 - 128539186 AGGTACAGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124605 10 +    435186 AGGTACAGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512937 10 +   9309688 AGGTACAGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346753 10 -  29834108 AGGTATGGGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802020 10 -   1015025 AGGTATGGGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816027 10 -   2295209 AGGTATGGGC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935620 10 +  31815103 ACATATGGGG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031921 10 +  13104022 ACATAGGGGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523310  5 -  12054995 AAATA-----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2376381  6 - 149736546 ----CTGGAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19678412 10 +  45876710 AGGTACAGGG
i canFam3.chr27             I 119 I 145
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=247593.000000
s hg38.chr12_GL383549v1_alt     24303 27 +    120804 TGTGAGGCACCAGAGGAGGAAGGCGCC
s panTro5.chr12              62719194 23 + 137163284 TGTGAGGCACCAGAGGAGGAAGG----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845906 23 + 135337776 TGTGAGGCACCAGAGGAGGAAGG----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061190 23 -  32808036 tatgaggcaccagAGGAGGAAGG----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245052 23 +  34552619 TGTGAGGCACCAGAGGAGGAAAG----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560556 23 - 133663169 TGTGAGGCACCAGAGGAGGAAGG----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960073 23 - 137757926 TGTGAGGCACCAGAGGAGAAAGG----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337856 23 -   7948249 TGTGAGGCACCAGGGGAGGAAGG----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238582 23 -  10730278 TGTGAGGCACCAGAGGAGGAAGG----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729547 23 - 128539186 TGGGAGGCACCAGAGGAGGAAGG----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124615 23 +    435186 TGTGAGGCACCAGAGGAGGAAGG----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512947 23 +   9309688 TGTGAGGCACCAGAGGAGGAAGG----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346763 23 -  29834108 TGGGAGACACGAGAGGAGGAAGG----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802030 23 -   1015025 TGGGAGGCACAAGAGGAGAAAGG----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816037 23 -   2295209 TGGGAGGCACGAGAGGAGGAAGG----
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935630 23 +  31815103 TGGGAGGTATCAGAGGAGGATGG----
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031931 23 +  13104022 TGCGAGGTGCCAGAGGAGGATGG----
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523315  4 -  12054995 -------------------ATGG----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2376387 23 - 149736546 TGTTCAGTGCTGGAGCAGAAAGG----
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19678422 145 +  45876710 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=2203251.000000
s hg38.chr12_GL383549v1_alt     24330 192 +    120804 CGCCT-TCAGTGGGATGGATGACATG---TGTTCAAAGAT-CTTGAGTAGCTTT----------AACTTGACGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTTCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCACCAAGTTCAGTGGGAACTG-TTGTATGGGGATTCAGTAGGCTTGTA---------TTTTTTTCTCC
s panTro5.chr12              62719217 192 + 137163284 CGCCT-TCAGTGGGATGGATGGCATG---TGTTCAAAGAT-CTTGAGTAGCTTT----------AACTTGACGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTTCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCACCAAGTTCAGTGGGAACTG-TTGTATGGGGATTCAGTAGGCTTGTA---------TTTTTTTCTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60845929 192 + 135337776 CGCCT-TCAGTGGGATGGATGGCATG---TGTTCAAAGAT-CTTGAGTAGCTTT----------AACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTTCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCACCAAGTTCAGTGGGAACTG-TTGTATGGGGATTCAGTAGGCTTGTA---------TTTTTTTCTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061213 192 -  32808036 CGCCT-TCAGTGGGATGGATGACATG---TGTTCAAAGAT-CTTGAGTAGCTTT----------AACTTGATGGCAAGGGCTACAGTCTATGCTCCAAATATATAGTACACCTCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCACCAAGTTCAGTGGGAACTG-TTGTATGGGGATTCAGTAGGCTTGTA---------TTTTTTTCTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245075 194 +  34552619 TGCCT-TCAGTGGGATGGATGACATG---TCTTCACAGATGCTTGAGTAGCTTT----------AACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATGGTACACTTCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTGTTTGTATGGGGATTCAGTAGGCTTGGA---------TTTTTTTCTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560579 195 - 133663169 CGCCT-TCGGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGGTTCAGTAGGCTTGGA----T-TTTTTTTTTTCTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960096 195 - 137757926 CGCCT-TCGGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGGTTCAGTAGGCTTGGA----T-TTTTTTTTTTCTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1337879 195 -   7948249 CGCCT-TCGGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGGTTCAGTAGGCTTGGA----T-TTTTTTTTTTATCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238605 195 -  10730278 CGCCT-TCGGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGATTCAGTAGGCTTGGA----T-TTTTTTTTTTCTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729570 194 - 128539186 CGCCT-TCGGTGGGATGGACCACATG---TCTTCATAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTGTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGATTCAGTAGGCTTGGA------TTTTTTTTTTCTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124638 199 +    435186 CGCCT-TCGGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCACTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTGGGAACTG-TTATATGGGGATTCAGTAGGCTTGGATTTTT-TTTTTTTTTTCTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3512970 193 +   9309688 TGCCT-TCGGTGGGATGGACCACGTG---TCTTCACAGAT-CTTCAGTAGCTTT-----------ACTTGATGGCAAGGGCTACAGTCTAGGCTCCAAATATATAGTACACTCCTCTC-------------TG--TGTTTGTTTGTT----AAGAAGT----GAGAATTGATCATCAAGTTCAGTAGGAACTG-TTATATGGGGATTCAGTAGGCTTGGA-------TTTTTTTTTCTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346786 191 -  29834108 CACCT-TCAGCGGCATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT----------AACTCGATGGCAAGGGCTACAGTCTAGACTCCAAATATATACTACATTTCACTC-------------TG--------TTTGTT----AAGAAGT----AAGAATTGATCATCGAGTTCAGTGGAAACTG-TTACATGAGGATTCAGTGAGCTTGGA----CTTTTTTTTTTTCTCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802053 176 -   1015025 CACCT-TCAGTGGCATGGACCACATG---TCTTCACAGAT-CTTGAGTAGCTTT----------AACTTGATGGCAAGGGCTACAGTCTAGATTCCAAATATACACTACAC----------------------------------TT----AAGAAGT----AAGAATTGATCATCGAGTTCAGTGGAAACTG-TTATATGAGGATTCAGTGGGCTTGGA----C--TTTTTTTTTCTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816060 185 -   2295209 CACCT-TCAGTGGCATGGACCACATT---TCTTCACAGAT-CTTGAGTAGCTTT----------AACTTGACGGCAAGGGCTACAGTCTAGACTCCAGATATATACTACACTTCACTC-------------TG------------TT----AAGAAGT----AAGAATTGATCATCAAGTTCAGTGGAAACTG-TTATATGAGGATTCAGTGGGCTTGGA----C--TTTTTTTTTCTCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935653 204 +  31815103 TGCCT-ACAGTGGCCTGGACCACATGTTTTCTTCACAGAT-CTTGAGAAGATTT----------AACTCAAAGGCAAGGCCTACCGTCTAGACTCCAAACACACAGTACATATCACTC----TGTGTTCGTTG---GTTGGTTTGTT----AAGAAAT----GAGAATTGATAATAGAGTTCAGTGGAAACTA-TCATATGGGGATTCAGTTGGCTTGGA----T----TTTTCCCCCCT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5031954 192 +  13104022 CGCCC-ACAGTGGGATGGACCACATG---TCTTCACAGAT-CTTGAGTAGATTT----------AACTTAAGGGCAAGGCCTACCATCTAGACTCCAAACCCACAGTACACATCACTC-------------TG---GTTTGTTTGTT----AAGAAAT----GAGAATTGATAATAGAGCTCACTGGAAACTA-CTATATGGGGATTCGGTTGGCTTGGA----T----TTTTTCCCCCT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523319 207 -  12054995 GGTCTGACTGTGGGATGGACCACAGG---TCTTCACAGAT-CTTGAGTAGATTT----------AACTTAAGGTCAAGGCCTATAGTCTAGACTTCAAACACACAGCACATGTCACTCACTCTATGTTTGATG---GTTCATTTCTT----GAGATAT----GAGAATTAATAATAGAATTTAGTGGAAACTA-TTATATGAAGATTCCATAGGCTTTGA----T---ATTTTTGCCTCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2376410 184 - 149736546 TAACA-TCAGCGGGAT--AACCCCTG---TCTTCACAG-T-CTT-AATGGGTTT----------AGCTTGA-GGCAAGACTTACAGTGTAGACTCAA----CACAACACACTTCCCTC-------------TGGGCATTTGTTTATT----CAGTTGCCTTAGGGAAATGGACAATGGAGCCAATGGAAACCA-CTGGATGGAGG----------ATGGA----TTTAtttcttttcttc
i mm10.chr6                 C 0 I 208
s canFam3.chr27              19678567 221 +  45876710 TGCTT-TCAGTGGGATTGACTATATG---TCTTCGCAGGT-CTCGAGTAGGTTTACTTTAGATTACCTTGAGAACAAGGCCTACATGCTAGACTCCAAACACATAGTACAACTCACCTTCTGTATGTATTGTG--TGCTTGTTTATTTTTAAAGACAT----GAGAATGAATAATAGAGTTCAGTGGAATATA-TGATATGAGGATTCAGTAGGTTTAAA-------TATTTTTCAATCC
i canFam3.chr27             I 145 C 0
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=752373.000000
s hg38.chr12_GL383549v1_alt     24522 63 +    120804 AAAGCTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCATGTCTCCAGATG-
s panTro5.chr12              62719409 63 + 137163284 AAAGCTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCATGTCTCCAGATG-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60846121 63 + 135337776 AAAGCTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCATGTCTCCAGATG-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061405 63 -  32808036 AAAGCTCACTGCAT-----GTTTTTTCTTGTTTTTCCTGCGACCCTTACTTAGCCATGTCTCCAGATG-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245269 63 +  34552619 AAAGCCCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCATGTCTCCAAATG-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560774 63 - 133663169 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCGTGTCTCCAAATG-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960291 63 - 137757926 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCGTGTCTCCAAATG-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338074 63 -   7948249 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCGTGTCTCCAAATG-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238800 63 -  10730278 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTCACTTAGCCGTGTCTCCAAAGG-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729764 63 - 128539186 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTCTCCTGTGACCCTTACTTAGCCGTGTCTCCAAATG-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124837 63 +    435186 AAAGTTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTCACTTAGCCGTGTCTCCAAAGG-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3513163 63 +   9309688 AAAGCTCACTGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTACTTAGCCATGTCTCCAAATG-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11346977 63 -  29834108 AAAGCTCACCGCAT-----GTTTTTTCTTGCCTTTCCTATGACCCTTACTTAGCCATGTCTCCAAAGG-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802229 63 -   1015025 AAAGCTCACCGCAT-----GTTTTTTCTTGCCTTTCCTGTGACCCTTATTTAGCCATGTCTCCAAAAT-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816245 63 -   2295209 AAAGCTCACTGCAT-----GTTTTTTCTTGCCTTTCCTATGACCCTTACTTAGCCATGTCTCCAAAAG-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935857 62 +  31815103 AAGGCTCACTGCAC--TTTTTTTTTTCTTGCCTTTCCCATGACCC----TTAGTCATGTCTCCAAAAG-
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5032146 60 +  13104022 AAAGCTCACTGCAC----ATTTTCTTCTTGCTTTTCCCATGACCC----TTAGTCATGTCTCCAAAAG-
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523526 64 -  12054995 AAAGCCCACTGCATGTTTTTTTTTTTCTTGTTTTTCCCATGACCC----TTAGCCAGGTGTCCAAAAG-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19678788 50 +  45876710 AAAACTCCCTGCAT---------------GCTTTTCCCATGATCC----TTAATCACATCTCCCAAAAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2376594 208 - 149736546 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=2402431.000000
s hg38.chr12_GL383549v1_alt     24585 181 +    120804 ATCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATCATTACTGTTG---------GACTTTGCTTCCCAGACACGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCCATTTAAATGGCTTATTGATGCAAGTAC
s panTro5.chr12              62719472 181 + 137163284 ATCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTACCATATGCTGAATCTATTATTACTGTTG---------GACTTTGCTTCCCAGACACGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCCATTTAAATGGCTTATTGATGCAACTAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60846184 181 + 135337776 ATCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTACCATATGCTGAATCTATTATTACTGTTG---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCCATTTAAATGGCTTATTGATGCAACTAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061468 181 -  32808036 ATCTCCTAGAGCAAATCTTTAAATTTTAAAATCATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTACCGTATGCTGAACCTATTATTACTGTTG---------GACTTTGCTTCCCAGACACGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCCATTTAAATGGCTTATTGATGCAAGTAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245332 181 +  34552619 ATCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTATCATATGCTGAACCTATTACTACTGTTG---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCCATTTAAATGGCTTACTGATGCAAGTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104560837 182 - 133663169 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAGTT--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATTACTACTGTTG---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960354 182 - 137757926 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAGTT--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATTACTACTGTTG---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338137 182 -   7948249 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATT-------CTTGTGAAGTT--------------------------------------------------------------TTTGTAGACATTACCATATGCTGAACCTATTACTACTGTTA---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8238863 182 -  10730278 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAGTT--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATTACTACTGTTG---------GACTTTGCTTTCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100729827 182 - 128539186 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAGTT--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATTACTACTGTTG---------GACTTTGCTTCCCAGATATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATACAAGTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       124900 182 +    435186 GTCTCCTAGAGCAAATCTTTAAATTTTAAAAACATC-------CTTGTGAAGTT--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTATGACTACTGTTG---------GACTTTGCTTTCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGATATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3513226 181 +   9309688 GTCTCCTAGAGCAAATCTTTAAGTTTTTAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTACCATATGCTGAACCTGTTACTACTGTTG---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAAGTGTCTACTTCTTCCTCTTT-TGTGGTATCTTCCCATTTAAAGGGCTTATTGATGCAAGTAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347040 181 -  29834108 GTCTCCTAGAGCAAATCCTTAAAATTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTGCCATATGCTGAACCCATTATTACTGTTA---------GACTTTGCTTCCCAGACGTGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCTATTTAAAGGGCCTATTGATGCAAGTAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802292 180 -   1015025 GTCTCCTAGAGCAAATCCTTGAAATTT-AAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACAGTGCCATATGCTGAACCCATTATTACTGTTA---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAGGTGTCTACTTCTTTCTCTTT-TGTGGTGTCTTCCTATTTAAAGGATTTATTGATGCAAGTGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816308 181 -   2295209 GTCTCCTAGAGCAAATCCTTAAAATTTAAAAACATC-------CTTGTGAAG-T--------------------------------------------------------------TATGTAGACATTGCCATATGCTGAACCCATTATTACTCTTA---------GACTTTGCTTCCCAGACATGGAGAATAAAGCAGGTGTCTACTTCTTCCTCTTT-TGTGGTGTCTTCCTATTTAAAGGGCTTATTGATACAAATAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2935919 181 +  31815103 GTCTCCTAAAGCAAAGCTTTAAATTTTAAAAACATC-------CCTGTATAG-T--------------------------------------------------------------TAAATAGACATTGCCATATGTTCAACCTATTATTACCGTTG---------GGCTTCGCTTCCCAGACGTGGAGCATAAAGCAGGTGTCTACTTTTTCCTCTCG-TGCTGTGTCTTCCCCTCTGCAGGGCTTAGTGATGCAAGGAC
i micMur3.chr21             C 0 I 93
s proCoq1.NW_012140524v1      5032206 181 +  13104022 GTCTCCTAAAGCAAATCTTTAAATTTTAAAAACATT-------CCTGTAAAG-T--------------------------------------------------------------TAAGTAAACATTGCCATATGTTCAACCTATTATTACCGTTG---------GACTTTGCTTCCCAGACGTGGAGCATAAAGCAGGTGTCTACTTCTTCCTCTTG-TGTTGTGTCTTCCTCTTTGCAGGGCTTAGTGATGCAAAGAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523590 180 -  12054995 TTCTCCTAAAGCAAATC--TAGATTTTCAAAACATT-------CCTGGGAAG-T--------------------------------------------------------------TATATGAACATTGCCACTGGCTCAACCTATTACTTCTGTTG---------GTCTTCGCTTCCCAGATGTGAAGCATACAGCAGGTGTCTACTTCTTCCTCTTGATTCCGAGTCTTCCCCTTTGCAGGGCTTATTGACATAAGGAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2376802 255 - 149736546 acttcctaaag--gttctatgtgctttcaaaacatcatcaccacctggggaG-TACTTCACATCAAAGTCACAAAAGCTAGTCAGCAGGCCTAGAAGCTCTCTCCCCAAAGCTCTGAATGTCTTCATTGCCATCCCCAAGACCCCCAAATCTCATGAAACAAATGTGACGTTTACTCTCAGATGCCGGATGCAAGGCAAGTGTCT-CCTCTCCCTCCTT-TCTGG-GTGGCCTCTATCATAGGGCTTATTGATACACAGAC
i mm10.chr6                 I 208 C 0
s canFam3.chr27              19678838 180 +  45876710 GTCTCCTGAAGCAAATCTTTAAATTTTAAAAACACT-------CTTGTGAAG-T--------------------------------------------------------------TATATAGACATTGCCATATGCTCAACCTATTATTACTGTCA---------GACTTCTCTTCCCAGACATGGAGAATAAAGCAGGTGTCTACTCCTTCCTCTTC-TGCTTTATCTTCCC-TTTATAGGGTTTATTGATGAAAGTAC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=1129252.000000
s hg38.chr12_GL383549v1_alt     24766 101 +    120804 TGCAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTACATGCCCACAGAAGAAGCACTGAAGGGATAGCAAGAATGCATCACACACTCCTCATGACTA
s panTro5.chr12              62719653 101 + 137163284 TGCAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAGCAAGAATGCATCACACGCTCCTCATGACTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60846365 101 + 135337776 TGCAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAGCAAGAATGCATCACACGCTCCTCATGACTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061649 101 -  32808036 TGCAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATTTGCCCACAGAAGAAGCACTGAAGGGATAGCAAGAATGCATCACACACTCCTCATGACTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245513 101 +  34552619 CTCAGTACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGACAGCAAGAATGCATCACACGCTCCTCATGACTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561019 101 - 133663169 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960536 101 - 137757926 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338319 101 -   7948249 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239045 101 -  10730278 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730009 101 - 128539186 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125082 101 +    435186 CACAGCACAAATGAATGCTGATGCCAGCTCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAACAAGAATGCATCACATACTCCTCATGGCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3513407 101 +   9309688 CGCAGCACAAATGAATGCTGATGCCAGCTCTGTCCATGTATATGCCCACAGAAGAAGCACTGAAGGGATAGCAAGAATGCATCACATACTCCTCATGGCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347221  98 -  29834108 CAAAGCACAAATGACTACTGATGCCAGCCCTGCCCATGTATATGCCCAC---AGAAGAACTGAAGGGCGAACAAGAATGCATCACACACTCCTCATGGTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802472 101 -   1015025 CAGAGCACAAATGACTACTGACACCAGCCCTGCCCATGTACATGCCCACAGAAGAAGAACTGAAGGGAGAGGGAGAATGCATCACAAACTCCTCATGGTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816489 101 -   2295209 CAGAGCACAAATGACTACTGATGCCAGCCCTGCCCATGTATATGCCCACAGAAGAAGCACTGAAGGGAGAGCGAGAATGCATCACACACTCCTCATGGTTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5032387 101 +  13104022 CAGAACAGCAATGACTACTGATGAGGGCCCCGCCCATGTATCCGTGCACAGGGGAAGCACTAAAGGGCAAGTGAGAACGTGCCACACACTCGTCACTGCTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523770  99 -  12054995 CAGAACACAAAAGACTACTGATACGGGGCC--ACCATGCATATTCACACAGGAGAAGCACTAAAGGGCCAGTGAGAATGTGCCACACACCTGTTACAGCTG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2377057  91 - 149736546 AAGAACATGAACAACTATTAACACTGA--CTGCTCACGTAT--------GGGACATGCACAGAATGGCCAATGAGAATGTGCTGTACACTTGCCATGACTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19679018 101 +  45876710 CAGAGCACAAATGTCTACTGACACTGCCTCCACCCCTGCATATGCCCACAAGAGAAACATTAAAGAGCTAGTAAAAATGTGCCATGTGCTTGCCCTGGCCT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2936100  93 +  31815103 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=5924771.000000
s hg38.chr12_GL383549v1_alt     24867 505 +    120804  
s panTro5.chr12              62719754 505 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60846466 503 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3061750 505 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7245614 505 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561120 509 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108960637 509 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338420 509 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239146 510 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730110 509 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125183 509 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3513508 503 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347319 504 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       802573 506 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1816590 509 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2936193 495 +  31815103  
i micMur3.chr21             I 93 I 1077
s proCoq1.NW_012140524v1      5032488 502 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4523869 407 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2377148 461 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19679119 512 +  45876710  
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=415882.000000
s hg38.chr12_GL383549v1_alt     25372 38 +    120804 aagtctacagtctgtcagatggagat-actgcaatggag-------------------
s panTro5.chr12              62720259 38 + 137163284 aagtctacagtctgtcagatggagat-actgcaatggag-------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60846969 38 + 135337776 aagtctacagtctgtcagatggagat-actgcaatggag-------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062255 38 -  32808036 aagtctacagtctgtcgggtggagat-actgcaatggag-------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246119 38 +  34552619 aagtctatagactgtcagatggagat-actgcaatggag-------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561629 38 - 133663169 aagtctatagtctgtcagatggagat-actgcaatgcag-------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961146 38 - 137757926 aagtctatagtctgtcagatggagat-actgcaatgcag-------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338929 38 -   7948249 aagtctatagtctgtcagatggagat-acagcaatgcag-------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239656 38 -  10730278 aagtctatagtctgtcagatggagat-actgcaatgcag-------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730619 38 - 128539186 aagtctatagtctgtcagatggagat-actgcaatggag-------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125692 38 +    435186 aagtctatagtctgtcagatggagat-actgcaatgcag-------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514011 38 +   9309688 aggtctatagtctgtcagatggagat-actgcaatggag-------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347823 38 -  29834108 aagtctatagtgtgtcagatggagat-actgcaatggag-------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803079 38 -   1015025 aagtctatagtgtgccagatggagat-actgcaatggag-------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817099 38 -   2295209 aagtctatagtgtgtcagatggagat-actgcaatggag-------------------
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5032990 38 +  13104022 cagtatatagcatgtcagatggacat-aatgcagtggag-------------------
i proCoq1.NW_012140524v1    C 0 I 898
s otoGar3.GL873576            4524276 38 -  12054995 cgttatatagcatgttagatggacat-aatgtaatggag-------------------
i otoGar3.GL873576          C 0 I 17
s mm10.chr6                   2377609 36 - 149736546 --GAGCACAGCACGCCAGAGGGAGCA-GATGTGCTGGAG-------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19679631 58 +  45876710 aaacacataacatgtcagacagagataaatgctgtggagaaaaaaaaacatggtcaag
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=22198.000000
s hg38.chr12_GL383549v1_alt     25410 2 +    120804 gg
s panTro5.chr12              62720297 2 + 137163284 gg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847007 2 + 135337776 gg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062293 2 -  32808036 gg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246157 2 +  34552619 gg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561667 2 - 133663169 gg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961184 2 - 137757926 gg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338967 2 -   7948249 gg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239694 2 -  10730278 gg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730657 2 - 128539186 gg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125730 2 +    435186 gg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514049 2 +   9309688 gg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347861 2 -  29834108 gg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803117 2 -   1015025 gg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817137 2 -   2295209 gg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4524331 2 -  12054995 ga
i otoGar3.GL873576          I 17 C 0
s mm10.chr6                   2377645 2 - 149736546 AG
i mm10.chr6                 C 0 I 330
s canFam3.chr27              19679689 2 +  45876710 aa
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=1270678.000000
s hg38.chr12_GL383549v1_alt     25412 119 +    120804 caatgattc-------ccagtggggaatagggaagagtttccattgtaaataaggcagtcagaaagtgccttgttgaaaaggtgacccttgagtagatagctatagaagctaaaagagctaatcag
s panTro5.chr12              62720299 119 + 137163284 caatgattc-------ccagtggggaatagggaagagtttccattgtaaataaggcagtcagaaagtgccttgttgaaaaggtgacccttgagtagatagctgtagaagctaaaagagctaatcag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847009 119 + 135337776 caatgattc-------ccagtggggaatagggaagagtttccattgtaaataaggcagtcagaaagtgccttgttgaaaaggtgacccttgagtagatagctgtagaagctaaaagagctaatcag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062295 119 -  32808036 caatgattc-------ccagtggggaatagggaagagtttccattgtaaataaggcagtcagaaagtgccttgttgaaaaagtgacccttgagtagatagctgtagaagctaaaagagctaatcag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246159 119 +  34552619 caatgattc-------ccagtggggaatagggaagagtttccattgtaaataaggcagtcagaaagtgccttgttgaaaaggtgacccttgagtagatagctgtagaagctaaaagagctaatcag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561669 119 - 133663169 caatgattc-------ccagtggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtacatagctgtagaagctaaaagagctaatcag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961186 119 - 137757926 caatgattc-------ccagtggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtacatagctgtagaagctaaaagagctaatcag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1338969 119 -   7948249 caatgattc-------ccagtggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtacatagctgtagaagctaaaagagctaatcag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239696 119 -  10730278 caatgattc-------ccagtggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtacatagctgtagaagctaaaagagctagtcag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730659 119 - 128539186 cgatgattc-------ccaatggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtacatagctgtagaagctaaaagagctaatcag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125732 119 +    435186 caatgattc-------ccagtggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacacttgagtacatagctgtagaagctaaaagagctaatcag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514051 119 +   9309688 caatgattc-------ccagtggggaagagggaagagtttccgttgtaaataagacagtcagaaagtgccttgttgaaaaggtgacccttgagtagatagctgtagaagctaaaagagctaatcag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347863 115 -  29834108 caatgattc-------cccatggggaaaagggaatagtttccattgtaaataaga----cagaaagtgccttgtggaaaaggtgacccttgagtagacagctgcagaagctaaaagagctaatcag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803119 119 -   1015025 caatgattc-------cccatggggaagagggaagagtttccattgtaaataagacagtcagaaagtgccttgttgaaaaggtgacctttgagtagatagctgcagaagctaaaagagctaatcag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817139 119 -   2295209 caatgattc-------cccgtggggaagagggaagagtttccgttgtaaataagacagtcagacagtgccttgctgaaaaggtgacccttgagtagatagctgcagaagttaaaagagctaatcag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4524333 125 -  12054995 caatgattaggtagtgtcagtgggaaaggataaataacttttatttcaaatagggcagttagaaagtgccttgtggaaaaggtaacccttgagcagagagctgcagatggtaaaaga-ctagtcag
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19679691 123 +  45876710 cagtaattacagtataccagtggacaagggggtagggtttccattttacataggatagtcagaaaatgccttgttgagaagata---tttgagcagatagctctaagaggtacaagagctgctcaa
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2377647 330 - 149736546 I
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=50726.000000
s hg38.chr12_GL383549v1_alt     25531 4 +    120804 acgg
s panTro5.chr12              62720418 4 + 137163284 atgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847128 4 + 135337776 atgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062414 4 -  32808036 atgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246278 4 +  34552619 atgg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561788 4 - 133663169 atgg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961305 4 - 137757926 atgg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339088 4 -   7948249 atgg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239815 4 -  10730278 atgg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730778 4 - 128539186 atgg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125851 4 +    435186 atgg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514170 4 +   9309688 atgg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347978 4 -  29834108 atgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803238 4 -   1015025 atgg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817258 4 -   2295209 atgg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4524458 4 -  12054995 atgg
i otoGar3.GL873576          C 0 I 231
s mm10.chr6                   2377977 4 - 149736546 ACGC
i mm10.chr6                 I 330 C 0
s canFam3.chr27              19679814 4 +  45876710 atgg
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=46019.000000
s hg38.chr12_GL383549v1_alt     25535  8 +    120804 acaCT-------------------------------CA-------------------------------g
s panTro5.chr12              62720422  8 + 137163284 acact-------------------------------ca-------------------------------g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847132  8 + 135337776 acaCT-------------------------------CA-------------------------------g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062418  8 -  32808036 acaCT-------------------------------CA-------------------------------g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246282  8 +  34552619 acacc-------------------------------ca-------------------------------g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561792  8 - 133663169 atacc-------------------------------ca-------------------------------g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961309  8 - 137757926 atacc-------------------------------ca-------------------------------g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339092  8 -   7948249 atacc-------------------------------ca-------------------------------g
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239819  8 -  10730278 atacc-------------------------------ca-------------------------------g
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730782  8 - 128539186 atacc-------------------------------ca-------------------------------g
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125855  8 +    435186 atacc-------------------------------ca-------------------------------g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514174  8 +   9309688 atacc-------------------------------ca-------------------------------g
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347982  8 -  29834108 acacc-------------------------------ca-------------------------------g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803242  8 -   1015025 acacc-------------------------------CA-------------------------------g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817262  8 -   2295209 acacc-------------------------------ca-------------------------------g
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4524693 39 -  12054995 ATACTAACCAGTCAGCATGGATGGCTGGCCTCTGCACA-------------------------------G
i otoGar3.GL873576          I 231 C 0
s mm10.chr6                   2377981 39 - 149736546 ACACT-------------------------------CACCAATCAGTGTGACTGTCTGGCCTCTGCAGTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19679818  8 +  45876710 atatc-------------------------------tg-------------------------------g
i canFam3.chr27             C 0 I 287
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=3092213.000000
s hg38.chr12_GL383549v1_alt     25543 325 +    120804 aagcagcatcctagaggcc-ccctgaagtgccaagcattactgcttg-----------------agttagtgaatagc-ggagTCACCCCCTGATGGATTTTAGGGAAATTTCAATGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAGGAGACAAAGGGATTTCACTACTCACAC--------CCTAGTTTCAGTGTGAGCCAGTTTGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGAGCCTGCATGGAGGAGTA--AT------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagactctagagaggcaagggtg-aaaatatggagaccagttaggtggccactg--------------cagcaatc
s panTro5.chr12              62720430 325 + 137163284 aagcagcatcctagAGGCC-CCCTGAAGTGCCAAGCATTACTGCCTG-----------------AGTTAGTGAATAGC-GGAGTCACCCCCTGATGGATTTTAGGGAAATTTCAATGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAAGAGATGGAGGGATTTCACTACTCACAC--------CCTAGTTTCAGTGTGAGCCAGTTTGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGAGCCTGCATGGAGGAGTA--AA------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagactctagagaggcaagggtg-aaaatatggagaccagttaggtggccactg--------------cagcaatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847140 325 + 135337776 aagcagcatcctagaggcc-ccctgaagtgccaagcattactgcttg-----------------agttagtgaatagc-ggagTCACCCCCTGATGGATTTTAGGGAAATTTCAATGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAAGAGATGGAGGGATTTCACTACTCACAC--------CCTAGTTTCAGTGTGAGCCAGTTTGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGAGCCTGCATGGAGGAGTA--AA------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagactctagagaggcaagggtg-aaaatatggagaccagttaggtggccactg--------------cagcaatc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062426 326 -  32808036 aagcagcatcctagaggcc-ccctgaagtgccaagcattactgcttg-----------------agttagtgaatagc-ggagTCACCCCCTGATGGATTTTAGGGAAATTTCAATGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAGGAGACAGAGGGATTTCACTACTCACAC--------CCTAGTTTCAGTGTGAGCCAGTTTGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGAGCCtgcatagaggagta--at------------------gtgattgggtttgatctgcctgaagtatt---------gagaatagactctagagaggcaagggtgaaaaatatggagaccagttaggtggccactg--------------cagcaatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246290 342 +  34552619 aagcagcatcctagAGGCC-GCCTGAAGTGCCAAGCATTACTGCTTGAATAGCGGTTAGTTATTAGTTAGTGAATAGC-GGAGACATCCCCTGATGGATTTTAGGGAAATTTCAATGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAGGAGACAGAGGGATTTCAATACTCACAC--------CCTAGTTCCAGTGTGAGCCAGTTTGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGAGCCTGCATGGAGGAGTA--AT------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagaccctagagaggcaagggtg-aaaatatggagaccagttaggtggccactg--------------cagcaatc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104561800 318 - 133663169 aagcagTATCCTAGAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAAGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCAGTTCGATATCAGGTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGATTGAGTTTGAtctgcctgaagtatt---------gagaatagaccctagagaagcaagggtg-aaaatatggagaccagttaggtggccacca--------------cagcaatc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961317 318 - 137757926 aagcagTATCCTAGAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAGGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCAGTTCGATATCAGGTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGATTGAGTTTGAtctgcctgaagtatt---------gagaatagaccctagagaggcaagggtg-aaaatatggagaccagttaggtggccaccg--------------cagcaatc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339100 318 -   7948249 aagcagTATCCTAGAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAGGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCAGTTTGATATCAGGTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGATTGAGTTTGATAtgcctgaagtatt---------gagaatagaccctagagaggcaagggtg-aaaatatggagaccagttaggtggccaccg--------------cagcaatc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8239827 318 -  10730278 aagCACTATCCTAGAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAGGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCAGTTCGATATCAGTTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagaccctggagaggcaagggtg-aaaatatggagaccagttaggtggccaccg--------------cagcaatc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100730790 318 - 128539186 aagcagTATCCTAGAGGTC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTAATGGATATTAGGGAAATTTCAAGGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCCGTTCGATATCAGGTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGACTGGGTTTGAtctgcctgaagtatt---------gagaatagaccctagagaggcaagggtg-aaaatatggagaccagttaggtggccaccg--------------cagcaatc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       125863 318 +    435186 aagcagTATCCTAGAGGTC-CCCCGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAGGGGAGGAAAC--TGGGAAAATA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCACAC--------CCTGGTTCCAGTGTAAGCCAGTTCGATATCAGGTCTAACAAGAAACC--AAG-------------------GCTGGACCTGCATGGAAGAGTA--AT------------------GTGATTGGGTTTGAtctgcctgaagtatt---------gagaatagaccctagagaggcaagggtg-aaaatatggagaccagttaggtggccaccg--------------cagcaatc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514182 299 +   9309688 aagcagTATCCTAGAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTGA--------AGACACTCCCTGATGGATATTAGGGAAATTTCAAGGGAAGGAAAC--TGGGAAAAGA-TATTTACCAAAGGAGACAGAAGGATTTCAATATTCACAC--------CCTGGTTCCAGTGTGAGCCAGTAAGATATCAGCTCTAACAAGAAACC--AAG-------------------GCTGGGCCTGCATGGAAGAGTA--AT------------------GTGATTGGCTTTGAtctgcctgaagtatt---------gaaaatagaccctagagaggcaagggtg-aaaatatggag---------------------------------cagcaatc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11347990 313 -  29834108 aagcagcatcctagAGGCC-CCCTGAAGTGCTAAGCATTACTGCTTG-----------------AGTTAGTAAAGAGC-AGAGACACCCCCTGATGGATTTTGGGGAAATTTAGAAAGAAGGAAAC--TGGGGAAATA-TATTTACCAGGGGAGA-----------CAATACTCATAT--------CCTAGTTCCAGTGTGAGCCAGTTCGATAACAGGTCTAACATgaaacc--agg-------------------gctgggtctgcatagaggagta--at------------------gtgattgggtttgatctgcctgaagtatt---------gagaatag-ccctagagaggcaagggtg-aaaatatggagactagttaggtggccactg--------------tggccacc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803250 343 -   1015025 aagcagcatcctagaggct-ccctgaagtgccaagcattactgcttg-----------------agttactAAAGAGC-AGAGACACCCCCTGATGGATTTGGGGGAAATTTTAAAAGAAGGAAAC--TGGGGAAAGA-TATTTACCAAAGGAGACAGAAGGATTTCAATACTCATAG--------CCTAGTTCCAGTGTGAGCCAGTTCGATATCAGGTCTAACAAGAAACC--AGGGCTGGGTGTGCATAGAggagctgggtctgcatagaggagta--at------------------gtgattgggtttgatctgcctgcagtatt---------gagaatag-ccctagggaggcaagggta-aaaatatggagactagttaggtggccactg--------------cggcaata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817270 324 -   2295209 aagcagcgtcctagAGGCC-CCCTGAAGTGCCAAGCATTACTGCTTG-----------------AGTTAGTAAAGAGC-AGAGACACCCCCTGATGGATTTTGGGGAAATTTCGAAAGAAGGAAAC--TGGGGAAAGA-TATTTACCAAAGGAGACAGAAGGATTTCAATATTCATAT--------CCTAGTTCCAGTGTGAGCCAGTTCGATATCAGGTCTAACAAgaaacc--agg-------------------gctgggtctgcatagaggagta--at------------------gtgattgggtttgatctgcctgaagtatt---------gagaatag-ccctacagaagcaagggtg-aaaatatggagactagttaggtggccactg--------------cagcaatc
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4524732 299 -  12054995 AAGCAACATCCTAGG---C-CCCCAAGGTGCCAAGCATTAGCCCTTG-----------------AGTTAGTGCATTGTGGGTAATACTCCCTGCTAGATTTCAGGG-----------GAAGGAGCC--TGAGAGGAGA-TATCTACCCAGAAGAACTGAAGGATTTTAATACTCATAC--------CC-AGTTCCAGAGTGAGCTATCTGGGTATCCGCTTTAACCAGGGCCCCTGGG-------------------GATAGCTCTGGGTGAAGGA-------------------------GTGATTGggattgttctggccaaactgtc---------gagaagggaccctccagaggcaagggta-aacatggaggtataaattagg-----------------------cagcaatc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2378020 341 - 149736546 ACACAGAATCCAAGAGGGC-CCC-AAAATGCCAAACATCAGATTTTA-----------------AGTAGGCACATAGT-AGAGACAACTCACAGCAGATTCCAGAGGAATTTGGGGTGAAGGGGAT--GAGTTACATG-TACCAACCAATAGGGAGAGAAGGCTTTGCAAA------------------AACTCCAGTGTGGGCCATCCAGCAGTGAGCTCTGTTAAGAGGCA--ACA-------------------TCTGGAATTTCAAGGAAGAGCA--ATGTCTGAACTTCTTTTCAAGTGATT---TTTTTTCTGACTGAAGTGTT---------AAGACTTGGCCCTAATGAAATGAGGATG---AGCATGGGGACCAGTTCTGAAGAAACTGTGTGGTACCAATactatcaacc
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19680113 347 +  45876710 aaacagcatcctagagacctccctgaagagtcaagcattatcccttg-----------------agttggtgcactgt-ggggagatccccttgtgaattgaaagggaacatcaggaaaagggtaccttggggaaagactctctaccaatagagatggaaggattccaatattttaacaactggtacctagttccagtatgagccaggtagagatcagccttaacaagaaatc--atg-------------------gctatgtttgagtggagtgacatcat------------------cagactcattttttttttttttaaggattctctctctctagaacagaccctagtgaagcaagagt--agaatagggagaccagttaggtggccattg--------------tactaatt
i canFam3.chr27             I 287 C 0
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I
e dasNov3.JH562883             885564 4320 -   1687904 I

a score=327226.000000
s hg38.chr12_GL383549v1_alt     25868  52 +    120804 tagtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gaggaagacc--atgtgaagcatta
s panTro5.chr12              62720755  52 + 137163284 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gaggaagacc--atgtgaagcatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847465  52 + 135337776 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gaggaagacc--atgtgaagcatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062752  52 -  32808036 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gaggaagacc--atgtgaagcatta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246632  52 +  34552619 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gagaaaggcc--atgtgaagcatta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104562118  86 - 133663169 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tagatct------------------ggtgtgagacctatctggtgaaagaccagatggtcttcacatggtgaaagacc--atgtgaagcatta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961635  86 - 137757926 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tagatct------------------ggtgtgagacctatctggtgaaagaccagatggtCTTCACATGGTGAAAGACC--ATGTGAAGCATTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339418  86 -   7948249 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tagatct------------------ggtgtgagacgtatctggtgaaagaccagatggtcttcacatggtgaaagacc--atgtgaagcatta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8240145  86 -  10730278 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tagatct------------------ggtgtgagacctatctggcgaaagaccagatggtcttcacatggtgaaagacc--atgtgaagcatca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100731108  52 - 128539186 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gagaaagacc--atgtaaagcatta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       126181  86 +    435186 tggtgaga--------------gg-------cga-------------------------------------------------------------------------------------------------------tagatct------------------ggtgtgagacctatctggtgaaagaccagatggtcttcacatggtgaaagacc--atgtgaagcatca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514481  52 +   9309688 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------tggatct------------------ggtgtgaga----------------------------------gagaaagacc--atgtgaagcatta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11348303  51 -  29834108 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------ttgatct------------------ggCATGAGA----------------------------------GAGAAAGACC--ATGTG-AGCAtgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803593  51 -   1015025 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------ttgatct------------------ggCATAAGA----------------------------------GAGAAAGACC--ATGTG-AGCAtga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817594  51 -   2295209 tggtgaga--------------gg-------tga-------------------------------------------------------------------------------------------------------ttgatct------------------ggCATGAGA----------------------------------GAGAAAGACC--ATGTG-AGCAtga
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4525031 150 -  12054995 tggtgaga--------------ga-------tgatggtagtgtgaacaatagtggcagtagtggaaatggtgcaa-----ggcataagatttgagaatgtatttttaagtcagagccaagaagatttgttggtgtattggaact------------------ggtgtgaga----------------------------------aggaaagagt--gtgtctagcatgg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2378361 106 - 149736546 tgacaggacctagaatcaccaggg-------aga-------------------------------------------------------------------------------------------------------taaacctccaaagactcacacttactgtgtggga-ctgactgttcatggactggg-------------gttccagaccgaatacgaagtagaa
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19680460 129 +  45876710 tggtgaga--------------gg-------taa------------------tggtgtctcagacaatggtggcagtgggggtatcagattggggaatatatttttaaggcagagccgagaggacttgctgatgtattggatct------------------gaggtgaga----------------------------------aa----------gtgtcaagcatga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             889884  56 -   1687904 TGGTGAGA--------------Ggaatttgctga-------------------------------------------------------------------------------------------------------tgtctca------------------gatgtg-------------------------------------gaggaaaagg--gtgtcgagcgtag
i dasNov3.JH562883          I 4320 C 0
e micMur3.chr21               2936688 1077 +  31815103 I
e proCoq1.NW_012140524v1      5033028 898 +  13104022 I

a score=87433.000000
s hg38.chr12_GL383549v1_alt     25920 6 +    120804 catgag
s panTro5.chr12              62720807 6 + 137163284 catgag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847517 6 + 135337776 catgag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062804 6 -  32808036 tatgag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246684 6 +  34552619 catgag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104562204 6 - 133663169 catgag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961721 6 - 137757926 CAtgag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339504 6 -   7948249 catgag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8240231 6 -  10730278 catgag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100731160 6 - 128539186 catgag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       126267 6 +    435186 catgag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514533 6 +   9309688 catgag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11348354 6 -  29834108 cttgag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803644 6 -   1015025 catgag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817645 6 -   2295209 catgag
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5033926 6 +  13104022 catggg
i proCoq1.NW_012140524v1    I 898 C 0
s otoGar3.GL873576            4525181 6 -  12054995 catgag
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2378467 6 - 149736546 aataag
i mm10.chr6                 C 0 I 122
s canFam3.chr27              19680589 6 +  45876710 cagaag
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             889940 6 -   1687904 catgag
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I

a score=403174.000000
s hg38.chr12_GL383549v1_alt     25926 40 +    120804 gaactgaaaga------------ttggagttgcaatca-------actgagataggaaa
s panTro5.chr12              62720813 40 + 137163284 gaactgaaaga------------ttggagttgcaatca-------actgagataggaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847523 40 + 135337776 gaactgaaaga------------ttggagttgcaatca-------actgagataggaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062810 40 -  32808036 gaactgaaaga------------ttggagttgcaatca-------actgagataggaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246690 40 +  34552619 gaactgaaaga------------ttggagttgcaatca-------actgagataggaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104562210 40 - 133663169 gaactgaaaga------------ttggagttgcaatca-------gctaaaataggaaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961727 40 - 137757926 gaactgaaaga------------ttggagttgcaatca-------gctaaaataggaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339510 40 -   7948249 gaactgaaaga------------ttggagttgcaatca-------gctaaaataggaaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8240237 40 -  10730278 gaactgaaaga------------ttggagttgcaatca-------gctaaaataggaaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100731166 40 - 128539186 gaactgaaagt------------ttggagttgcaatca-------gctaaaataggaaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       126273 40 +    435186 gaactgaaaga------------ttggagttgcaatca-------gctaaaataggaaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514539 40 +   9309688 gaactgaaaga------------ttggacttgcaatca-------gctaagataggaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11348360 39 -  29834108 gaactg-aaga------------ttggagttgcaaaca-------actgagataggaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803650 39 -   1015025 gaactg-aaga------------ttggagttgcaaaca-------actgagatagaaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817651 39 -   2295209 gaactg-aaga------------ttggagttgcaaaca-------actgagataggaaa
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5033932 40 +  13104022 gaactggaagg------------ttggggttaccatca-------actgagacagggaa
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4525187 38 -  12054995 gaactggaagc------------ttgggattacctctc-------aagaagactgga--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2378595 59 - 149736546 gaaccaaaaaaaccccttctcccttaaaatttcaagcatttgctcacagcgatgagaaa
i mm10.chr6                 I 122 I 114
s canFam3.chr27              19680595 40 +  45876710 gaactagaaga------------tctagatggccactg-------accagaataagaag
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             889946 28 -   1687904 gagctggaggg------------ttaggac----acca-------agtgag--------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I

a score=1020856.000000
s hg38.chr12_GL383549v1_alt     25966 91 +    120804 gactggaggtgaagcaggattggaaaacaagatcaaaaatttgattttagacatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
s panTro5.chr12              62720853 91 + 137163284 gactggaggtgaagaaggattggaaaacaagatcaaaaatttggttttagacatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847563 91 + 135337776 gactggaggtgaagaaggattggaaaacaagatcaaaaatttggttttagacatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062850 91 -  32808036 gactggaggtgaagaaggattggaaaacaagatcagaaatttgattttagacatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246730 90 +  34552619 gactggaggtgaagaaggattggaaaacaagatcaaaaatttgattttagaca-gttgagtttgagctgAGttaagtttattaa-------cttaaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104562250 91 - 133663169 gactggaggtgaagaaggattggaaaacaagatcaaagatttgattttaggtatgctaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961767 91 - 137757926 gactggaggtgaagaaggattggaaaacaagatcaaaaatttgattttaggtatgctaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339550 91 -   7948249 gactggaggtgaagaaggattggaaaacaagatcaaaaatttgattttaggtatgctaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8240277 91 -  10730278 gactggaggggaagaaggattggaaaacaagatcaaaaatttgattttaggtatgctaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100731206 91 - 128539186 gactggaggtgaagaaggattggataacaagatcaaaaatttgattttaggtatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       126313 91 +    435186 gactggaggtgaagaaggattggaaaacaagatcaaaaatttgattttaggtatgctaagtttcagctgAGTTAAGTTTATTGA-------CTTAAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514579 91 +   9309688 gactggaggtgaagaaggattggaaaacaagatcaaaaatttgattttagatatgttaagtttgagctgAGTTAAGTTTATTGA-------CTTAAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11348399 93 -  29834108 gactggaggtgaag-aggattgggaaacacgaccaaaaatttgattttagacatgttaagtttgagCCGAAttaagtttattga-cac---ctttaat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803689 93 -   1015025 gactggaggtgaag-aggattgggaaaaaagaccaaaaatttgattttagacatgttaagtttgagctgAAttaagtttattga-cac---ctttaat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817690 93 -   2295209 ggctagaggtgaag-gggattgggaaacaagaccaagaatttgattttagacatgttaaatttgagctgatttaagtttattga-cac---ctttaat
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5033972 88 +  13104022 gact---ggtggagtagaattggaaaacaagataaaaacttgaattttagacacattaactttgagatgAGTTAAGTTTATTGA-------CACCTGT
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4525225 83 -  12054995 -------ggtggattaggattggaaaacaagataaaaaatttgattttagaca-attaagtttgaaatgAGTGAAGTTTATAGA-------TACCTAT
i otoGar3.GL873576          C 0 I 3
s mm10.chr6                   2378768 85 - 149736546 GACCAGAGACAAAGGAGGATTAGGAGCCATGATCAAAAAATTGA------ACATGTTGAGCTTGAGATGAGTTATACCAATCAA-------CACCTAT
i mm10.chr6                 I 114 I 3
s canFam3.chr27              19680635 76 +  45876710 aactagaagt--------------agacaagatcagtaacttaattgtagacacaggaagtatgagat-----aagtttattgagcacccaCTTT---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             889974 87 -   1687904 -----gaggtagagaagggctgggg---aagatcagaaatttcatttcagacgtgtcgagtttgggatgAGTTAGGTTTACTGAGCAC---CTACTGC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2936688 1077 +  31815103 I

a score=12442706.000000
s hg38.chr12_GL383549v1_alt     26057 775 +    120804  
s panTro5.chr12              62720944 771 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60847654 771 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3062941 775 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7246820 775 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104562341 775 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108961858 775 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1339641 775 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8240368 774 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100731297 775 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       126404 775 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3514670 775 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11348492 779 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       803782 778 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1817783 776 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2937765 785 +  31815103  
i micMur3.chr21             I 1077 C 0
s proCoq1.NW_012140524v1      5034063 775 +  13104022  
i proCoq1.NW_012140524v1    I 3 C 0
s otoGar3.GL873576            4525311 783 -  12054995  
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2378856 813 - 149736546  
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19680711 768 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             890061 750 -   1687904  
i dasNov3.JH562883          C 0 I 914

a score=4251807.000000
s hg38.chr12_GL383549v1_alt     26832 301 +    120804 AGCAAGCCTCAATGTTTCAAAGTTCCAGCATCAGGACTTCTTCCTTCAGTTAATGGCTTTGAGAACTGTTAAAATTCAGATGTTTCTGAGAAGG------ATAATGTTTT--AATTAATAAAGAGATCACTGAGTGTGTT--GGAGGG-ATTTACTAAC-AGAAA-A----CTAAATGGCTCAGCATCGAAAGCTCTTTCATTTTTGGGCAGAGGGACGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCGGGTAAAGAAATGAGAGGGAAAACTGGAATGTGTACTTACTCATTCAACCATCATTTAT
s panTro5.chr12              62721715 301 + 137163284 AGCAAgcctcaatgttttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaattcagatgtttctgagaagg------ataatgtttt--aaTTAATAAAGAGATTACTGAGTGTGTT--GGGGGG-ATTTACTAAC-AGAAA-A----CTAAATGGCTCAGCATCGAAAGCTCTTTCATTTTTGGGCAGAGGGAGGGCTG-GCTTCCGGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAAATGAGAGGGAAAACTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848425 301 + 135337776 AGCAAgcctcaatgttttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaattcagatgtttctgagaagg------ataatgtttt--aaTTAATAAAGAGATTACTGAGTGTGTT--GGGGGG-ATTTACTAAC-AGAAA-A----CTAAATGGCTCAGCATCGAAAGCTCTTTCATTTTTGGGCAGAGGGAGGGCTG-GCTTCCGGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAAATGAGAGGGAAAACTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3063716 300 -  32808036 AGCAAgcctcaatgttttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaattcagatgtttctgagaagg------ataatgtttt--aaTTAATAAAGAGATCACTGAGTGTGTT--GG-GGG-ATTTACTAAC-AGAAA-A----CTAAATGGCTCAGCATCGAAAGCTCTTTCATTTTTGGGCAGAGGGAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCGGGTAAAGAAATGAGAGGGAAAACTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247595 301 +  34552619 AGCAAGCTTCAATGTTTTAAAGTTCCAGCATCAGGACTTCTTCCTTCAGTTAATGGCTTTAAGACCTGTTAAAACTCAGATGTTTCTGAGAAGG------ATAATGTTTT--AATTAACAAGGAGATCACTGAGCGTGTT--GGGGGG-ATTTACTAAC-AGAAA-A----CTAAACAGCTCAGCATCGAAAGCTCTTTCATTTTTGGGCAGAGGGAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCGGGTAAAGAAATGAGAGGGAAAACTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563116 301 - 133663169 AGCAAgcctcaatgctttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaacacacatgtttctgagaagg------ataatgtttt--aaTTAAAAAGGCGATCACTGAACGTGTT--GGGGGG-ATTTACTAAC-ACAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962633 301 - 137757926 AGCAAGCCTCAATGCTTTAAAGTTCCAGCATCAGGACTTCTTCCTTCAGTTAATGGCTTTGAGACCTGTTAAAACACACATGTTTCTGAGAAGG------ATAATGTTTT--AATTAAAAAGGCGATCACTGAACGTGTT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340416 301 -   7948249 AGCAAgcctcaatgctttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaacacacatgtttctgagaagg------ataatgtttt--aaTTAAAAAGGCGATCACTGAACGTGTT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241142 301 -  10730278 AGCAAgcctcaatgctttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaactcagatgtttctgagaagg------ataatgtttt--aaTTAAAAAGGCGATCACTGAGCGTGTT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732072 301 - 128539186 AGCAAGCCTCAATGCTTTAAAGTTCCAGCATCAGGACTTCTTCCTTCAGTTAATGGCTTTGAGACCTGTTAAAACTCAGATGTTTCTGAGAAGG------ATAATGTTTT--AATTAAAAAGGCGATCACTGAGTGTGTT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GTTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCGTTTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127179 301 +    435186 AGCAAgcctcaatgctttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaactcagatgtttctgagaagg------ataatgtttt--aaTTAAAAAGGCGATCACTGAGCGTGTT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCGTCGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCATTGT---TCAGGTAAAGAGATGAGAGGGAAAATTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515445 301 +   9309688 AACAAgcctcaatgctttaaagttccagcatcaggacttcttccttcagttaatggctttgagacctgttaaaactcagatgtttctgagaagg------ataatgtttt--aaTTAAAAAGGTGATCACTGAGCGTATT--GGGGGG-ATTTACTAAC-AAAAA-A----CCAAATGGCTCAGCATTGAAAGCTCTTTCATTTTTGGGCAGAGCAAGGGCTG-GCTTCCAGTA----------------GTTTATAAACCAGGGTACCACTGT---TCGGGTAAAGAGATGAGAGGGCAAGTTGGAATGTGTACTTACTCATTCAACCATCATTTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349271 302 -  29834108 AGCAAGCCTCAATGTTTTAAAGTTCCAGCATCAGGACTTCTTCCTTCAGCTAATGGCTTTGAGACCTGTTAAAATTCAGATGTTTCTGAGAAGG------ATAATGTTTT--AATTAATAAGGAGATCACTGAGTGTGTT--GGGGGG-ATATACTAACAAAAAA-A----TCAAATGGCTCAGCATGGGAAGCTCTTTCATTGTTTGACAGAGGAAGGACTG-GCTTCCAGTG----------------GCGTAGAAACCAGGGTACCATTGT---TTAGGTAAAGAGATGAGATGGAAATCTGGAATGTGTACTTACCCATTTGACCATCATTAGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804560 302 -   1015025 AGCAAgcctcaatgttttaaagttccagcatcaggatttcttcctttagctaatggctttgagacctgttaaaacccagatgtttctgagaagg------ataatgtttt--aaTTAATAAGGAGATCACTGAGTGTGTT--GGGGGG-ATTTACTAACAAAAAA-A----TCAAATGGCTCAGCATGGAAAGCTCTTTCATTGTTTGGCAGAGGAAGGGCTG-GCTTCCAGTG----------------GTGTAGAAACCAGGGTACCATTGT---TTAGGTAAAGAGATGAGACGGAAATCCGGAATGTGTACTTACCCATTTGACCATCATTAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818559 302 -   2295209 AGCAAgcttcaatgttttaaagttccagcatcaggacttcttcctttagctaatggctttgagacctgttaaaactcagatgtttctgagaagg------ataatgtttt--aaTTAATAAGGAGATCACTGAGCGTGTT--GGGGGG-ATTTACTAACAAAAAA-A----TTAAATGGCTCAGCATGGAAAGCTCTTTCATTGTTTGGCAGAGGAAGGGCTG-GCTTCCAGTG----------------GTGTAGAAACCAGGGTACCATTGT---TTAGGTAAAGAGATGAGATGGAAATCGGGAATGTGTACTTACCCATTTGACCATCATTAAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2938550 306 +  31815103 AGCAAGCCTCAACGGTTTCAAGTTCCAGCGTCAGGACTTCTTCCTTCAGCTAATGGCTATGAGACCTGTTAAAACTCAGATGTTTCGGAGAAGG------ATAATATTTT--AATTAATCAGAAGATCACGGAGTGTGTT-GAGGGGG-ATTTACTAAC-AAAAA-AAAACCC-AATGGCTCAGCATGGGAAGTGCTTTCATTGTTTGGCAGAGGAAAGCCTGTGCCTCCAGTG----------------GTTTAGAAACCAGGGTACCATTGT---TTGGGTAAAGAAATGAAGGAGGAAACTGGAATATGTACTTACCCATTCCACCAGCATTTAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5034838 300 +  13104022 AGCAAGCCTCAACGGTTTCAGGTTCCAGCGTCAGGACTTCTTCTTTCAGCTAATGGCTATGAGACCCGTTAAAACTCAGATGTTTTGGAGGAGG------ATAATATTTT--AATTAATCAGAAGATCACGGAGCGTGTT---GGGGG-ATTTGCTAAC-AAAAA-A----CC-AGTGGCTCAGCATGGGAAGGGCCTTCATTGTTTGGCAGAGGAAAGCCTGTCCTTCCAGTG----------------GTTTAGAAACCAGGGTACCATTGT---TTGGGTAAAGAAACGAGGGAGGAAACTGGAATATGTACTTACCCATTCCACCAGCATTTAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4526094 301 -  12054995 AGCAAGCCTCAACGGTTTCAAGTTCCAGCCTCA-GACTTCTTCCTGCAGCTAATGGCTTTGAGACCTGTTAAAACTCAGATGTTTCTGAGAAGG------ATAATAGTTT--AATTAATCAGAAGATCACTGAGCATGTTGGGGGGGG-ATTTATGAAC-AAAAA-C----CC-AATGGCTCAGCATGGGAAGTGCTTTCATTGTTTGGCAGAGGAAAGACTGTGCTGCCGGTG----------------GTTTAGAAACCAGGGTACCATTGT---TTGGGTAAAGAAATGAGGGAGGAAAC-GGAATGTGTACTTACCCATTCAACCAGCGTTTAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2379669 265 - 149736546 TGTGAGCTTCAATGTTGCGAAGCTCCTGCACTGGGAC----TCCTTCAGCTAATGTCTCTGAGACCTGTTAAAGCTCAGAGGCTTTTGAGGACA------CAAACAT----------------ACAACTCTGGG-GCATG--AGGGGT-GGTTACCAAT-AAGAA-T----CCTAGTTGCTCAGCCCGGAAACTCCTT------TTGGGCGAAGGAAAGACTG-GCTTCCAGTG----------------GTTTAGAAACCAGGCTGTCACTGTTGGTCGGGTTG------GACAGGGGTA--------GTATACTCATCCACTTAACCAGTATTTAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19681479 301 +  45876710 AGCAAGACTAAACATTTTCAAGTTCCAGTGTCAGGACTTCCCCCTTCA------AGCTTTGAGACCTGATAAGACTCAGATGTTTCTGAGAAGGGCATACATACTGTTTTAAAATTAACCAGGAGGTCACTGAGCATGTT--AGAGGGTTTTTACCAAC-ACAAATA----CCCAATGGCACAGCATGGGAAGCTCTTTCACTGTTTGCCAGAG----GTCTG-GCTTCCAGTG----------------GTTTCGAAAGGCAGGTACCATCAT---TTGGGTAAAGAAATGAAGAAGGAAACTGGATTGTGCACTCACCCATTCAACCAGAACTTGT
i canFam3.chr27             C 0 I 685
s dasNov3.JH562883             891725 315 -   1687904 AGCAAGGCTTAAAGTTTTAAAGTTCTAATATTGGAACTTCCTCCTTTACCTAATGGTTCTGAGATCTATTAAAACTCAGATGATTCTGAGAAAA------GCAATGTTTTACAATTGATCAGGAAACCAATGAGCATGGTAGGAGGGG-ATTTAACAAG-AAAAA-C----ACAA--GGCACGAAATGGGAAGGTCTTCCATCATTTGGCAGAG----AGCCA-GTTTCCATTGCTGCCTTCGACATCATTTTTAGAAAGGAAGCTACCAATGT---TTGGGCAAAGAAATGACAAAAGAAACTGGAATGGGTCCTGATCCACTCAACTAACACTTGT
i dasNov3.JH562883          I 914 C 0

a score=51262.000000
s hg38.chr12_GL383549v1_alt     27133 3 +    120804 TGt
s panTro5.chr12              62722016 3 + 137163284 TGt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848726 3 + 135337776 TGt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064016 3 -  32808036 TGt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247896 3 +  34552619 TGt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563417 3 - 133663169 TGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962934 3 - 137757926 TGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340717 3 -   7948249 TGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241443 3 -  10730278 TGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732373 3 - 128539186 TGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127480 3 +    435186 TGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515746 3 +   9309688 TGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349573 3 -  29834108 TGt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804862 3 -   1015025 TGt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818861 3 -   2295209 TGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2938856 3 +  31815103 TGT
i micMur3.chr21             C 0 I 203
s proCoq1.NW_012140524v1      5035138 3 +  13104022 TGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4526395 3 -  12054995 CGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2379934 3 - 149736546 TGT
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             892040 3 -   1687904 TGT
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19681780 685 +  45876710 I

a score=29499.000000
s hg38.chr12_GL383549v1_alt     27136 6 +    120804 gtaaaa
s panTro5.chr12              62722019 6 + 137163284 gtaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848729 6 + 135337776 gtaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064019 6 -  32808036 gtaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247899 6 +  34552619 gtaaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563420 5 - 133663169 GT-AAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962937 5 - 137757926 GT-AAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340720 5 -   7948249 GT-AAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241446 5 -  10730278 GT-AAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732376 5 - 128539186 GT-AAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127483 5 +    435186 GT-AAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515749 5 +   9309688 GT-AAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349576 6 -  29834108 gtaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804865 6 -   1015025 gtaaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818864 6 -   2295209 GTAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5035141 6 +  13104022 CCaaaa
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4526398 6 -  12054995 CCaaaa
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2379937 5 - 149736546 -CAAAA
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             892043 6 -   1687904 CCAAAA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I

a score=34616.000000
s hg38.chr12_GL383549v1_alt     27142 5 +    120804 atagt
s panTro5.chr12              62722025 5 + 137163284 atagt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848735 5 + 135337776 atagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064025 5 -  32808036 atagt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247905 5 +  34552619 atagt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563425 5 - 133663169 ATTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962942 5 - 137757926 ATTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340725 5 -   7948249 ATTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241451 5 -  10730278 ATTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732381 5 - 128539186 ATTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127488 5 +    435186 ATTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515754 5 +   9309688 ATTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349582 5 -  29834108 atagt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804871 5 -   1015025 atagt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818870 5 -   2295209 ATAGT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5035147 5 +  13104022 atagt
i proCoq1.NW_012140524v1    C 0 I 301
s mm10.chr6                   2379942 5 - 149736546 GTGGT
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             892049 5 -   1687904 ATAGT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4526404 0 -  12054995 C
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I

a score=23880.000000
s hg38.chr12_GL383549v1_alt     27147 2 +    120804 ga
s panTro5.chr12              62722030 2 + 137163284 ga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848740 2 + 135337776 ga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064030 2 -  32808036 ga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247910 2 +  34552619 ga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563430 2 - 133663169 GA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962947 2 - 137757926 GA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340730 2 -   7948249 GA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241456 2 -  10730278 GA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732386 2 - 128539186 GA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127493 2 +    435186 GA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515759 2 +   9309688 GA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349587 2 -  29834108 ga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804876 2 -   1015025 ga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818875 2 -   2295209 GA
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2379947 2 - 149736546 AA
i mm10.chr6                 C 0 I 515
s dasNov3.JH562883             892054 2 -   1687904 GA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4526404 0 -  12054995 C
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=22920.000000
s hg38.chr12_GL383549v1_alt     27149 2 +    120804 ct
s panTro5.chr12              62722032 2 + 137163284 ct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848742 2 + 135337776 ct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064032 2 -  32808036 ct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247912 2 +  34552619 ct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563432 2 - 133663169 Ct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962949 2 - 137757926 Ct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340732 2 -   7948249 Ct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241458 2 -  10730278 Ct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732388 2 - 128539186 Ct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127495 2 +    435186 Ct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515761 2 +   9309688 Ct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349589 2 -  29834108 ct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804878 2 -   1015025 ct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818877 2 -   2295209 CT
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             892056 2 -   1687904 CT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4526404 0 -  12054995 C
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=3065109.000000
s hg38.chr12_GL383549v1_alt     27151 343 +    120804 gatacggtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccac--------------acctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcctgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttgtcagttcccccctttctctctcctgccaccaggtaagatatgccttgctttctcctcaccttgcaccatgactataagtttcctgaggactccccagccatgcagaactgtgagccaattaaacctctttcctttataaattacccagtctcaggcagttccttataccag-tgtgagagcaaactaat
s panTro5.chr12              62722034 357 + 137163284 gatacggtttggctttttgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcctgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttgtcagttcccccctttctctcccctgccaccatgtaagatatgccttgctttcccctcaccttgcaccatgactgtaagtttcctgagggctccccagccatgcagaactgtgagccaattaaacctctttcctttataaattacccagtctcaggcagttccttataccag-tgtgagagcaaactaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60848744 357 + 135337776 gatacggtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcctgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttgtcagttcccccctttctctcccctgccaccatgtaagatatgccttgctttcccctcaccttgcaccatgactgtaagtttcctgagggctccccagccatgcagaactgtgagccaattaaacctctttcctttataaattacccagtctcaggcagttccttataccag-tgtgagagcaaactaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064034 357 -  32808036 gatacggtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcctgatggtgagtgagttctcacaaggtctgatggtttaaaagtgtttgtcagttcccccctttctctctcctgccaccatgtaagatatgccttgctttcccctcaccttgcaccatgactgtaagtttcctggggactccccagccatgcagaactgtgagccaattaaacctctttcctttataaattacccagtctcaggtagttccttataccag-tgtgagagcaaactaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7247914 357 +  34552619 gatatggtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattagatcatgaggtggttttccccatgctgttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttgacagttcccgcctttctctctcctaccaccatgtaagatatgccttgctttcccctcaccttgcaccatgactataagtttcctgaggactccccagccatgcagaactgtaagtcaattaaacctctttcctttataaattacccagtctcaggcagttccttataccag-tgtgagagcaaactaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563434 356 - 133663169 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccctgctttctctctcctgccaccatgtaagacatgccttgcttt-ccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtaagtcaattaaacctctttccctcataaattacctagtctcaggcagttccttataccag-tgtaagagccaactaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108962951 356 - 137757926 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccctgctttctctctcctgccaccatgtaagacatgccttgcttt-ccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtaagtcaattaaacctctttccctcataaattacctagtctcaggcagttccttataccag-tgtaagagccaactaat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1340734 356 -   7948249 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccctgctttctctctcctgccaccatgtaagacatgccttgcttt-ccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtaagtcaattaaacctctttccctcataaattacctagtctcaggcagttccttataccag-tgtaagagccaactaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241460 358 -  10730278 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaatgcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctcttctcttgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccctgctttctctctcctgccaccatgtaagacatgccttgctttcccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtaagtcaattaaacctctttccctcataaattacctagtctcaggcagttccttataccagttttgagagccaactaat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732390 357 - 128539186 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaattcccacatgtcaagggagggacctggtgggaggtgattggatcataaggtggttttccccatgctgttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccccgctttctctctcctgccaccatgtaagacatgccttgctttcccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtgagccaattaaacctctttccctcataaattacctagtctcaggcagttccttataccag-tgtgagagccaactaTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127497 358 +    435186 gatacagtttggctttgtgtccccacccaaatctcatcttgaattgtaatgcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccctatgctcttctcatgatggtgagtgagttctcacaagatctgatggtttaaaagtgtttggcagttccctgctttctctctcctgccaccatgtaagacatgccttgctttcccctcaccttccaccatgattgtaagtttcctgaggcctccccagtcatgcagaactgtaagtcaattaaacctctttccctcataaattacctagtctcaggcagttccttataccagttgtgagagccaactaat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3515763 357 +   9309688 gatacggtttggctttgcgtccccacccaaatctcatcttgaatggtaattcccacatgtcaagggagggacctggtgggaggtgattggatcatgaggtggttttccccatgctgttctcacgatggtgagtgagttctcacaagatctgatggtttaaaagtgttcggcggttccccgctttctctctcctgccaccatgtaagacatttcttgctttcccctcaccttccaccatgattgtaagtttcctggggcctccccagtcatgcagaactgtgagtcaattacacctctttccctcataaattacctagtctcaggcagttccttataccag-tgtgagcgccaagtaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349591 356 -  29834108 aatacagtttggctttgtgtccccacccaaatctcatctagaattgtaattcccacgtgtcaagggagtgatctggtgggaggtgactggatcatggggtgg-atcccccatgctgttctcatgatagtgagcgagttcttacaagatgtgatggtttaaaagtgtttgacagttcccccttttctctctcctgacaccgtgtaagacatgtcttgctttcccctcacttttcaccatgattctaagtttcctgaggcctccccagccatgcggaactatgagtcaattaaacctcttttttaaataaattacccagtctctggcagttcctcatagcgg-tatgagagcagactaat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       804880 356 -   1015025 aatacagtttggctttgtgtccccacccaaatctcatttagaattgtaattcccatgtgtcaagagggcgatctggtgggaggtgactggatcatgggatgg-ttcccccgtgctgttctcacgatagtaagtgagttcttacaagatgtgatggtttaaaagtgtttgacagttcccccctttctctctcgtgacaccgtggaagacatgtcttgctttcccctcacttttcaccatgattctaagtttcctgaggcctccccagccatgcggaactatgagtcaatgaaacctcttttttaaataaattacccagtctctggcagttcctcatagcgg-tgtgagagcagactaat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1818879 356 -   2295209 AGtacagttcggctttatgtccccacccaaatctcatctagaattgtaatttccacgtgtcaagggagcgatctggtgggaggtgactggatcatggggtgg-ttcccccgtgctgttctcataatagcgagtgagttcttacaagatgtgatggtttaaaagtgtttgacactttccccctttctctctcctgacaccgtgtaagacatgtcttgctttcccctcacttttcaccatgattttaagtttcctgaggcctccctagccatgcagaactatgagtcaattaagcctcttttcttaacaaattacgcagactctggcagttcttcatagcgg-tgtgagagcagactaat
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4526404   0 -  12054995 C
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I
e dasNov3.JH562883             892058   0 -   1687904 C

a score=90220.000000
s hg38.chr12_GL383549v1_alt     27494 9 +    120804 acagtgaca
s panTro5.chr12              62722391 9 + 137163284 acagtgaca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849101 9 + 135337776 acagtgaca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064391 9 -  32808036 acagtgaca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248271 9 +  34552619 acagtgaca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563790 9 - 133663169 acGGTGACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963307 9 - 137757926 acGGTGACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341090 9 -   7948249 acGGTGACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241818 9 -  10730278 acaGTGACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732747 9 - 128539186 ATGGTGACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127855 9 +    435186 acaGTGACG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516120 9 +   9309688 acGGTGACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349947 9 -  29834108 acagtgaca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805236 9 -   1015025 acagtgaca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819235 9 -   2295209 acaGTGACA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4526404 9 -  12054995 acagtaaca
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I
e dasNov3.JH562883             892058 0 -   1687904 C

a score=1768374.000000
s hg38.chr12_GL383549v1_alt     27503 184 +    120804 taactataaaaattgggacctggaagaaagagttgagagatgctataagtgaagtacatttttcatcttttatattgcagagtcaacgatattgtat-aaaactgacaaatcagtgaaaatgaaaacaatgactAGAATGACTAAAAACAGAAATTGCTGGGGGGttttgtttttttgtttttct
s panTro5.chr12              62722400 184 + 137163284 taactataaaaattgggacctggaagaaagagttgagagatgctataagtgaagtacatttttcatcttttatattgcagagtcaacgatattgtat-aaaactgacaaatcagtaaaaatgaaaacaatgactAGAATGACTGAAAACAGGAATTGCTGGGGGGttttgtttttttgtttttct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849110 183 + 135337776 taactataaaaattgggacctggaagaaagagttgagagatgctataagtgaagtacatttttcatcttttatattgcagagtcaacgatattgtat-aaaactgacaaatcagtaaaaatgaaaacaatgactAGAATGACTGAAAACAGGAGTTGCTGGGGGGttttg-ttttttgtttttct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064400 185 -  32808036 taactataaaagttgggacctggaagaaagagttgagagatgctataagtgaagtacatttttcatcttttatattgcagagtcaacgatattgtttaaaaactgacaaatcagtaaaaatgaaaacaatgactAGAATGACTAAAAACAGGAATTGCTGGGGGGttttgtttttttgtttttct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248280 184 +  34552619 taacaataaaaattgggacctggaagaaagagttgagagatgctgtaagtgaagtacatttttcatcttttatactgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaaatgaaaacaatgactAGAATGACTAAAAACAGGAATTGTTGGGGGGttttgtttttttgtttttct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563799 184 - 133663169 TAACTATAAAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGtttttgtgtttttgtttttct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963316 184 - 137757926 TAACTATAAAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattttat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGTTTTTGTGTTTTTGTTTTtct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341099 184 -   7948249 TAACTATAAAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGtttttgtgtttttgtttttct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8241827 184 -  10730278 TAACTATAGAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGtttttgtgtttttgtttttct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732756 184 - 128539186 TAACTATAAAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGTTTTTGTGTTTTTGTTTTtct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       127864 184 +    435186 TAACTATAGAAACTCAGACCTggaagaaagagttgagagatgctgtgagtgaagtgcatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAACAGGAATTGTTGGGGGtttttgtgtttttgtttttct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516129 184 +   9309688 TAACTATAAAAACTTGGACCTggaagaaagagttgagagatgctgtaagtgaagtacatttttcatcttttatattgcagagtcaaagatattgtat-aaaactgacaaatcagtaaaAATGAAAACAATGACTAGAAGGACTAAAAAGAGGAATTGTTGGGGGTTTTTGTGTTTTTGTTTTtct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11349956 182 -  29834108 taactattaaaattgggacctggaaggaagagttgagagatgctgtaagtgaagtacatccctcatcttttatgctgcagagtcaaagatattgtat-aaaactgataaattagtaaaaatgaagACAATGACTAGAATGACTAAAAACA-GAATACTTGGGCTTTTCCAT-TTGCTATTTTtct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805245 183 -   1015025 taactattaaaattgggacctggaaggaagagtcgagagatgctgtaagtgaagtacatccctcatcttttatactgcagagtcaaggaaattgtat-aaaactgataaattagtaaaaatgaagACAATGACTAGAATGACTAAAAACAGGAATTGTTGGGGTTTTCCAT-TTGTTATTTTtct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819244 183 -   2295209 TAACTattaaaattgggacctggaaggaagagttgagagatgctgtaagtgaagtacattactcatcttttatactgcagagtcaaagatactgtat-aaaactgataaattagtaaaaatgaagACAATGACTAGAATGACTAAAAACAGGAATTGTTGGGGTTTTTCAT-TTGTTATTTTtct
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4526413 154 -  12054995 taactataaaaatggggaccttaaaggaagagctggaagaaggtataagtgaaacaaattccttatcttttgtaaggaagagtcaaagatattgcat-aaaaccgatcagttgataaataggaagacaccgacctgagcaactaaaaatagaaat------------------------------
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             892058 170 -   1687904 TAACTATAAAAATTGGGTCTTG--AGACagagatgggagacggtatatctaaaataaattccttatcttttacaatgcaaagttcaagatattatat-caagccaaaaagtcaataaataggaagacaactaccagaagaactaaaaacaggaattgtttaatg------------tgcttttct
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=923620.000000
s hg38.chr12_GL383549v1_alt     27687 102 +    120804 ccctctgttgcccagactggagcacggtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
s panTro5.chr12              62722584 102 + 137163284 ccctctgttgcccagactggagcacggtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849293 102 + 135337776 ccctctgttgcccagactggagcacgatggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064585 102 -  32808036 ccctctgttgcccagactggagcacggtggtgcaatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248464 102 +  34552619 ccctctgttgcccagactggagcacggtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtttcaacctcccaaagtgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104563983 102 - 133663169 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963500 102 - 137757926 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341283 102 -   7948249 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagcgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242011 102 -  10730278 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100732940 102 - 128539186 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgcagcctcgaactcctggcctcaagtaatccttctgtctcaacctcccaaagtgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128048 102 +    435186 ccctctgttgcccagactggagcacagtggtgcgatcatggttcactgtagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516313  95 +   9309688 ccctctgttgcccagactggaacaca-------gatcatggttccctgcagcctcgaactcctggcctcaagtgatccttctgtctcaacctcccaaaatgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350138 102 -  29834108 ccttctgttgcccagactggagtgcagtggtgcgatcatggttcactgaagcctcaaactcctggcctcaagtgatccttctgtctcaacttcccaaagtgt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805428 102 -   1015025 ccctctgttgcccagactggagtgtggtggtgcgatcatggttcactgcagcctcaaactcctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819427 102 -   2295209 ccctctgttgcccagactggagtgcgatggtgcgatcatggttcactgcagcctcaaacttctggcctcaagtgatccttctgtctcaacctcccaaagtgt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4526567  11 -  12054995 --------------------------------------cagttc-----------------------------------------------------ggtgt
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I
e dasNov3.JH562883             892228   0 -   1687904 C

a score=708850.000000
s hg38.chr12_GL383549v1_alt     27789 83 +    120804 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGTTTTGGGAGCACATGGAAATCAGG
s panTro5.chr12              62722686 83 + 137163284 tgggattgtaagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGTTTTGGGAGCACATGGAAATCAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849395 83 + 135337776 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGTTTTGGGAGCACATGGAAATCAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064687 80 -  32808036 tgggattataagcatgaggcacTGTTTCCTGTCTT---AACAGGAATTGTTTAAGGTGGTTTTGGGAGCACATGGAAATCAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248566 83 +  34552619 tgggattataagcatgaggcactgTTTCCTGTCTTAAAAACAGGAATTATTTAAGGTGGTTTTGGGTGCACATGGAAATCAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564085 83 - 133663169 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963602 83 - 137757926 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341385 83 -   7948249 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242113 83 -  10730278 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733042 83 - 128539186 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128150 83 +    435186 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGGTTTGGGAGCACATGGAAATAAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516408 83 +   9309688 tgggattataagcatgaggcacTGTTTCCTGTCTTAAAAACAGGAATTGTTTAAGGTGGTTTTGGGAGCACATGGAAATAAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350240 83 -  29834108 tggaattataagcatgaggcactgttcccTTTCTTAAAAACAGGAATTGTTTAAGGTAGTTTTGGGAGCCCATGGAAATAAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805530 83 -   1015025 tggaattataagcatgaggcacTGTTCCCTTTCTTAAAAACAGGAATTGTTTAAGGTAGTTTTGGGAGCACATGGAAACAAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819529 83 -   2295209 tggaattataagcatgaggcacTGTTCCCTTTCTTAAAAACAGGAACTGTTTAAGGTAGTTTGGGGAGCACATGGAAATAAGA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4526578 24 -  12054995 ttgga-----------------------------------------------------------gggggacatgggaataagg
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             892228 12 -   1687904 tgggataagaag-----------------------------------------------------------------------
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2379949 515 - 149736546 I
e micMur3.chr21               2938859 203 +  31815103 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=585687.000000
s hg38.chr12_GL383549v1_alt     27872 53 +    120804 AGGGGGTTAAGGAAGGATGGATAAAATATCTTGCATGTTATGCTCTTCTGTAC
s panTro5.chr12              62722769 53 + 137163284 AGGGGGTTAAGGAAAGATGGATAAAATATCTTGCATGTTATGCTCTTCTGTAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849478 53 + 135337776 AGGGGGTTAAGGAAAGATGGATAAAATATCTTGCATGTTATGCTCTTCTGTAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064767 53 -  32808036 AGGGGGTTAAGGAAGGATGGATAAAATATCTTGCATATTATGCTCTTCTGTAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248649 53 +  34552619 AGGGGGTTAAGGAAGGATGGATAAAATATCTTGCATGTTATGCTCTTCTGTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564168 53 - 133663169 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTGCATGCTATGCTCTTCTGTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963685 53 - 137757926 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTGCATGCTATGCTCTTCTGTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341468 53 -   7948249 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTGCATGCTATGCTCTTCTGTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242196 53 -  10730278 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTGCATACTATGCTCTTCTGTAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733125 53 - 128539186 AGGGGGTTAAGGAAGGATAGATAAAACAGCTTGCATGCTGTGCTCTTCTGTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128233 53 +    435186 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTTCATACTATGCTCTTCTGTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516491 53 +   9309688 AGGGGGTTAAGGAAGGATGGATAAAATAGCTTGCATGCTATGCTCTTCTGTAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350323 53 -  29834108 AGGGGGTTAAGGAAGTATGGATAGAATATCTTGCATTTTATGCTCTTCTATAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805613 53 -   1015025 AGGGGGTTAAGGAAGCATGGATAGAATATCTTGCATTTTATGCTCTTCTATAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819612 53 -   2295209 AGGGGGTTAAGGAAGCATGGATAGAATATCTTGCATTTTATGCTCTTCTATAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939062 53 +  31815103 agggagttaaggaagtgtaggtaaaatatcttgcactttacactcttctgtac
i micMur3.chr21             I 203 C 0
s otoGar3.GL873576            4526602 53 -  12054995 aaggggttaaggaagtgtacataaaatatcttgtactttttactcttctgtac
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             892240 37 -   1687904 agggaatgaaggaagtgggg---------------taccatactcttct-tac
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2379949 515 - 149736546 I
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=72053.000000
s hg38.chr12_GL383549v1_alt     27925 6 +    120804 TGCTTG
s panTro5.chr12              62722822 6 + 137163284 TACTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849531 6 + 135337776 TACTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064820 6 -  32808036 TACTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248702 6 +  34552619 TACTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564221 6 - 133663169 TACTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963738 6 - 137757926 TACTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341521 6 -   7948249 TACTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242249 6 -  10730278 TACTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733178 6 - 128539186 TACTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128286 6 +    435186 TACTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516544 6 +   9309688 TACTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350376 6 -  29834108 TGCTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805666 6 -   1015025 TGATTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819665 6 -   2295209 TGCTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939115 6 +  31815103 tgcttg
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4526655 6 -  12054995 tgtgtg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2380464 6 - 149736546 TGCTTA
i mm10.chr6                 I 515 C 0
s dasNov3.JH562883             892277 6 -   1687904 cacttg
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19681780 685 +  45876710 I
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=322284.000000
s hg38.chr12_GL383549v1_alt     27931 43 +    120804 CCTTTT-TTAAAAAAAATGTACGT--ATGTATATTTCATGTAAAAG
s panTro5.chr12              62722828 41 + 137163284 CCTTTT-T--AAAAAAAAGTACGT--ATGTATATTTCATGTAAAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849537 40 + 135337776 CCTTTT-T---AAAAAAAGGACGT--ATGTATATTTCATGTAAAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064826 41 -  32808036 CCTTTT-T--TTAAAAATGCACGT--ATATATATTTTATGTAAAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248708 42 +  34552619 CCTTTT-T-TAAAAAAATGCACGT--ATATATATTTCATGTAAAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564227 41 - 133663169 CCTTTT-A--AAAAAAATGCACAT--ATATATATTTCATGTAAAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963744 41 - 137757926 CCTTTT-A--AAAAAAATGCACAT--ATATATATTTCATGTAAAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341527 40 -   7948249 CCTTTT----AAAAAAATGCACAT--ATATATATTTCATGGAAAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242255 42 -  10730278 CCTTTTAA--AAAAAAATGCACAC--ATATATATTGCATGTAAAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733184 42 - 128539186 CCTTTTAA--AAAAAAATGCACAT--ATATATATTTCATGTAAAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128292 41 +    435186 CCTTTT-A--AAAAAAATGCACAT--ATATATATTTCATGTAAAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516550 40 +   9309688 CCTTT--A--AAAAAGATGCACAT--ATATATATTTCGTGTAAAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350382 41 -  29834108 CCTTTT-A--AAAGAAATGCATGT--ACATATATTTCATGTAAAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805672 40 -   1015025 CCTTTT----AAAGAAATGCACGT--ACCTATATTTCATGTTAAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819671 41 -   2295209 CCTTTT-A--AAAGAAATGCATGT--ACATATATTTCATGTAAAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939121 43 +  31815103 cttttt-a--aaaaaagtgtatgtaCATATATATTGCATTTAAAAT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4526661 40 -  12054995 CCTTT------AAAAAATGCATGTGCGTTTATATTGCATTTAGATT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2380470 37 - 149736546 CCTTTA-A-----GAAGTGCATGT--GTGTATATTGTATTAACAA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19682465 35 +  45876710 ctttct-c--taaaataaatacat--a-----attttcttaaaaa-
i canFam3.chr27             I 685 C 0
s dasNov3.JH562883             892283 40 -   1687904 -ctgtt-t--attttaaaccatgt--acagatacttcatttaaaaa
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5035152 301 +  13104022 I

a score=2864803.000000
s hg38.chr12_GL383549v1_alt     27974 244 +    120804 TTTGAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAggctgtgggaataaatggtgaataagacacacttgttttctgctatcatagaagcttaAGAACTGAACACT--CTGAAGCAGAGGAA--------GTGTTA-AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGAAGTAGG--ATAAAA-----------AGAG--------GGAAACTTGGAGCTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTCTGATTAAGTT
s panTro5.chr12              62722869 243 + 137163284 TTTGAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAggctgtgggaataaatggtgaataagacacacttgttttctgctatcatagaagcttaAGAACTGAACACT--CTGAAGCAGAGGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGAAGTAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGCTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTTAATTAAATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849577 243 + 135337776 TTTGAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAggctgtgggaataaatggtgaataagacacacttgttttctgctatcatagaagcttaAGAACTGAACACT--CTGAAGCAGAGGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGAAGTAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGCTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTTGATTAAATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3064867 250 -  32808036 TTTGAACTGA-----ATAAGTA-TATTAATA---TTTTATTTATGTTAATAAGGCTGtgggaataaatggtgaataag--acacttgttttctgctatcatagaagcttaAGAACTGAACACT--CTGAAGCAGAGGAATCTGCTTCAGATTA-AAAAAAA---TCTGAGTTAAGGTACAACAAAGGAAAAACTGAAGTAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGCTTGTTCCTGCTAGCGCCTCATCCCTCTGACTTTGATTAAATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248750 243 +  34552619 TTTGAACTGA-----ATAAGTA-CATTAATA---TTTTATTtatgttaacaaggctgtgggaataaatggtgaataagacacacttgttttctgccatcatagaagcttaAGAACTGAACACT--CTGAAGCAGAGGAA--------GTGTTA-AAAAATA---TCTGAGGTAAGATA-AACAAAGGAAAAACTGAAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGCTTGTTCCTGCTAGCGCCTCATCCCCCTGTCTTGTATTAAATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564268 243 - 133663169 TTTAAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAggctgtgggaacaaatggtgaataagacacacttgttttctgctatcagagaAGTTTAAGAACTGAGCACT--CTGAAGAAGATGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCATCCTTCTGTCTTGGATTAAATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108963785 243 - 137757926 TTTAAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAGGCTGTGGGAACAAATGGTGAATAAGACACACTTGTTTTCTGCTATCAGAGAAGTTTAAGAACTGAGCACT--CTGAAGAAGATGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTGGATTAAATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341567 243 -   7948249 TTTAAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAGGCTGTGGGAACAAATGGTGAATAAGACACACTTGTTTTCTGCTATCAGAGAAGTTTAAGAACTGAGCACT--CTGAAGAAGATGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCAGCCCTCTGTCTTGGATTAAATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242297 243 -  10730278 TTTAAACTGA-----ATAGGTA-CATTAATA---TTTTATTTATGTTAACAAGGCTGTGGGAACAAATGGTGAATAAGACACACTTGTTTTCTGCTATCAGAGAAATTTAAGAACTGAGCACT--CTGAAGAAGATGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTGGATTAAATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733226 244 - 128539186 TTTAAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAGGCTGTGGGAACAAATGGTGAATAAGACATACTTGTTTTCTGCTATCAGAGAAGTTTAAGAACTGAGCACT--CTGAAGAAGAGGAA--------GTGTTA-AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTACTGCCTCATCCCTCTGTCTTGGATTAAATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128333 243 +    435186 TTTAAACTGA-----ATAAGTA-CGTTAATA---TTTTATTTATGTTAACAAggctatgggaacaaatggtgaataagacacacttgttttctgctatcagagaAATTTAAGAACTGAGCACT--CTGAAGAAGATGAA--------GTGTT--AAAAAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTGGATTAAATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516590 243 +   9309688 TTTAAACTGA-----ATAAGTA-CATTAATA---TTTTATTTATGTTAACAAGGCTGTGGGAATAAATGGTGAATAAGACACACTTGTTTTCTGCTGTCAGAGAAGCTTAAGAACTGAGCACT--CTGAAGAAGAGGAA--------GTGTT--AAAGAAA---TCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--ATAAAA-----------AGAG--------GGAAACTTGGAGTTTGTTCCTGCTAGTGCCTCATCCCTCTGTCTTGGATTAAATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350423 253 -  29834108 TTTAAGCTGAATAAGATAAGTA-CATTAAAA---TTCTATTTATATTAACAAGGCTGCGCAAATACATGGTGAATAAGACACTCTTGTTTTCTGCTGTCATAGAAGCTTAAGAACTGAATACC--CTGAAGCAGAGGAA--------GCATTTAAAAAAAAAAATCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--TTAAAA-----------AGGG--------GGAAACCTGGAGCTTTTTCCTGCTAGCACCTCATCCCTCTGTCTTGGATTAAATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805712 252 -   1015025 TTTAAGCTGAATAAGATAAGTA-CATTAAAA---TTTTATTTATATTAACAAGTCTGTGGGAATAAATGGTGAATAAGACACACTTGTTTTCTGCTGTCATAGAAGCTTAAGAACTGAATACC--CTGAAGCAGAGGAA--------GCATTT-AAAAAAAAATTCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--CTAAAA-----------AGGG--------GGAAACTTGGAGCTTTTTCCTGCTGGCACCTCATCCTTCTGTCTTGGATTAAATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819712 252 -   2295209 TTTAAGCTGAGTAAGATAAGTA-CATTAAAA---TTTTATTTATATTAACAAGACTGtgggaataaatggtgaataaggcacacttgttttctgctatcatagaagcttaAGAACTGAATACC--CTGAAGCAGAGGAA--------GCATTT-AAAAAAGAATTCTGAGGTAAGGTACAACAAAGGAAAAACTGGAATAGA--CTAAAA-----------AGTG--------GGAAACTTGGAGCTTTTTCCCACTAGCACCTCATCCCTCTGTCTTGGATTAAATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939164 244 +  31815103 TTTAAACTGA-----ATAAATG-CATTATAA---TTTTATTTGTATGAACAAggctgtggagatacatggggaataagacactcttgttccctactgtcacagagGCTTAAGCACTGAACACC--CTGAAACAGAGGAA--------GGGTAAAAAAAAAG---TCTGAGTTAAGGCACAACAAAGAGAAAACTGGCATAGA--ATAAAA-----------AGGG---------GAAACTTAGATCTCATTCCTGTTATGGCCTCCTTTCTCTACCTTGGATGACATT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5035453 243 +  13104022 TTTAAACTGA-----ATAAATA-CATTACAA---TTTTATTTGTATTAACAAggctgtgaagataaatggtgaataagacactcttgttccctgctgtcatggaAACTTAAGCACTGAACACCCTCTGAAACAGAGGAA--------GGGT----AAAAAG---TCCGAGTTAAGGCATAACAAAGGAAAAACTGGTATAGA--ACAAAA-----------AGGG--------AAAAACTTAGATCTCATTCCTGTTACCACCTCCTTTCTCTGCCTTGGATGACATT
i proCoq1.NW_012140524v1    I 301 C 0
s otoGar3.GL873576            4526701 211 -  12054995 --------------------------TTTGA---TCATATTTGTATTAACACAGCTGTGGACAGAAATGGTGAATGAGACATTCTTGTTCC----------AGAAGCTTAAGTACTGAACACC--CCGAAGCAGAGGAA--------GGGT----AAAACA---GCCGAGGGAAGGCACAACCAAGGAAAAACTGGAATAGA--ATGAAA-----------GAGG--------GGAGACTCAGATCTCCTTCCTGCTATTGCTGCATTTCTCTGTCTTAGATTACATT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2380507 195 - 149736546 TTTAACATGA-----AAATGGAGCCTGAAAA---TTGTGTTTATATAA------------GAGCATAAGGTTAA------ACGATTGTTCCCTGTTGTCAAGGAAGCTTAA-AATAGAATATT--GAGAAGCAGA-GAA--------GAGT---AAAAGAA------------------------GGAGAAACTAGAATTGACTCTAAGA-----------ACAGTGTAGGGCAGGAATGTAGATCCATTTTGTGACAGCAGC---AGCTTCTG--------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19682500 228 +  45876710 Ctaaaataaa-----aaattta-atttaatatattCCTGTTTATATGAACAAGCCTCTGAGGACA--------------------TATTCCCTGCTGTCATAGAAGCTTTTG-ACTGAATACT--CCAAAGGAGAGAAA--------GAC----TGAGAAA---TCTG-----ACATATAATAAAGGAAAAATTGAAGTAGA--ATTTTATTTTCCTTTGTGAAG--------GGAAAC-TACATCTCTTTTCTCCTAGTGCCTCATTCTTCTGCCTTGGATTAAATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             892323 214 -   1687904 tttaaattaa-----ataaata-tattaaaa---tt-tatttaGATGAAc-------tggggataagtggtgaataagacatacatattccctgctgttataaaagcttaTGAGCTCAACA----CTGAAGCAGAGGAA--------GAG----GGGAAAA---TTGG-----AAGTACAATAAAAAA------------GG--AAAAAG-----------AGAG--------GAAAACCCAGATATTTTTCTTGGTAGTCCCTTATTCCTCTATCTTTGATTAAATT
i dasNov3.JH562883          C 0 I 425

a score=6861611.000000
s hg38.chr12_GL383549v1_alt     28218 484 +    120804  
s panTro5.chr12              62723112 484 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60849820 484 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3065117 484 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7248993 483 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564511 483 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964028 483 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1341810 483 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8242540 483 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733470 483 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       128576 483 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3516833 483 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11350676 482 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       805964 483 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1819964 472 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939408 451 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5035696 481 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4526912 475 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2380702 450 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19682728 473 +  45876710  
i canFam3.chr27             C 0 I 233
s dasNov3.JH562883             892962 496 -   1687904  
i dasNov3.JH562883          I 425 C 0

a score=1536271.000000
s hg38.chr12_GL383549v1_alt     28702 122 +    120804 AATAACTCTGGCAACTCTTTCTTCACATAATTAGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCATATTGAAGGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACGTTAAAACTC---AAT
s panTro5.chr12              62723596 124 + 137163284 AATAACTCTGGCAACTCTTTCTTCACATAATTAGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCATATTGAAGGATTCCTGAAATGGTAAGTTCCTTAG--AAAAAAAAACGTTAAAACTC---AAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850304 123 + 135337776 AATAACTCTGGCAACTCTTTCTTCACATAATTAGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCATATTGAAGGATTCCTGAAATGGTAAGTTCCTTAG---AAAAAAAACGTTAAAACTC---AAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3065601 122 -  32808036 AATAACTCTGGCAACTCTTTCTTCACATAATTAGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCATATTGAAGGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACGTTAAAACTC---AAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7249476 122 +  34552619 AATAACTCTGGCAACTCTTTCTTCACATAATTAGTTTCAGTG-TATCAGGAC-TTTTTTTCTTAGCCCATATTGAAGGATTCATGAAATGGTTAGTTCCTTAG----AAAAAAATGTTAAAACTC---AAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104564994 118 - 133663169 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTCTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATCAAAACTC---AGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964511 118 - 137757926 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTCTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATCAAAACTC---AGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342293 118 -   7948249 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTCTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATCAAAACTC---AGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243023 118 -  10730278 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TGTCAAGAC-TTTTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATTAAAACTC---AGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100733953 118 - 128539186 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATTAAAACTC---AGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       129059 118 +    435186 AATAACTCTGGTAAC----TCTTCACATAATTGGTTTCAGTG-TGTCAAGAC-TTCTTTTCTTAGCCCATGTTGAATGATTCCTGAAATGGTTAGTTCCTTAG----AAAAAAACATTAAAACTC---AGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517316 123 +   9309688 AATAACTCTGGTAACTCTTTCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCCCAAATTGAATGAGTCCTGAAATGGTTAGTTCCCTAG---AAAAAAAACATTAAAACTC---AAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11351158 121 -  29834108 AATAACTGCGGTAACTTTTTCTGCACATGATTAGTTTCAGTG-TATCAAGAC-TTTTTTTCTTAGCTTATATTGAAGGATTCCTGAAATGGTTAATTCCTTAG-----AAAAAGCCTTAAAACAC---AAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       806447 121 -   1015025 AATAACAGCGGTAACTTTTTCTGCACATAATTAGTTTCAGTG-TATCAAGAA-TTTTTTTCTTAGCTTATATTGAAGGATTCCTGAAATGGTTAGTTCCTTAG-----AAAAAGCTTTAAAACAC---AGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1820436 122 -   2295209 AATAACTGTGGTAACTTTTTCTGCACATAATTAGTTTCAGTGTTATCAAGAC-TTTTTTTCTTAGCTTATATTGAAGGATTCCTGAAATGGTTAGTTCCTTAG-----AAAAAGCTTTAAAACAC---AAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939859 121 +  31815103 AATAGCTCTGGTAACTCTTTCTTCACATAATTGGTTTCAGTG-TACCAAGAT-TTTCTTTCCTAACCTATATCGAAGGATTCTTGATATGGTTAATTCCCTGG-----GAAAACCTTTGAAACTC---AGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5036177 121 +  13104022 AATAGCTCTGGTAAGTCTTTCTTCACACAACTGGTTTCAGTG-TACCAAGAC-TTTCTTTCCTAACCTATATTGAAGGATTCTTGATATGGTTAATTCCCTAG-----GAAAACCTTTGAAACTC---AGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4527387 121 -  12054995 aatagctctgataattctTTCTTCACATAATTGGTTTCAGTG-TATCAAGAC-TTTCTTTCCTAGCCTATGTTGAAGGATTCTTGATATGGTTAATTCCCCAG-----AAAATCCTTTGAAAGTC---AGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2381152 121 - 149736546 AATA-CTCTGACAAC----TCTTCACATAATTGATGACTGTG-TCTCCAGAT-TTTCTTTTCTTTCTC---CCCACGGAGCCTTACTTTGGTTAACTACCAAAAGAAAAAAAGCCTTTACAAGTTAGAAGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683434 117 +  45876710 aaTAGCTCTGTTAACTTTTTCTTCACATAATTGGTTTCAGCG-TATGAAAATGTTTTTTTCTTAGGGTAC-CTGAAGGATTCCTGATTTGGCTAGTT----AG-----AAAAACCTTTCCAATGT---AGT
i canFam3.chr27             I 233 C 0
s dasNov3.JH562883             893458 111 -   1687904 AATAGCTCTGGAAAGACTTTCTTCTCATAATTTGTTTCA----T------AC-TTTCTTTCCTAGGATACATTGAA-GAGTCCTGATTTGGGTAATTCCCTAG-----AAAATCCTTTGCAACTC---AAT
i dasNov3.JH562883          C 0 I 879

a score=2721934.000000
s hg38.chr12_GL383549v1_alt     28824 204 +    120804 GGCTCAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGACAGTAACACTAGTTTACAATTGCACTCATGCATTCATGGTCTGcaatc-aacaaaatttaattcgtgt---ctattgtgtgacaaaattacaataggtgt--agatactaggatgaaataacaagtccttgctcttaagaa
s panTro5.chr12              62723720 204 + 137163284 GGCTCAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGACAGTAACACTAGTTTACAATTGCACTCATGCATTCATGGTCTGcaatc-aacaaaatttaattcgtgt---ctactgtgtgacaaaattacaataggtgt--agatactaggatgaaataacaagtccttgctcttaagaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850427 204 + 135337776 GGCTCAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGACAGTAACACTAGTTTACAATTGCACTCATGCATTCATGGTCTGcaatc-aacaaaatttaattcgtgt---ctactgtgtgacaaaattacaataggtgt--agatactaggatgaaataacaagtccttgctcttaagaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3065723 204 -  32808036 GGCTCAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGACAGTAACACTAGTTTACAATTGCACTCATGCATTCATGGTCTGcaatc-aacaaaatttaattcgtgt---ctactgtgcgacaaaattacaataggtgt--agatactaggatgaaataacaagtccttgctcttaagaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7249598 206 +  34552619 GGCTCAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGATAGTAACACTAGTTTACAATTGCACTCATGCATTCATGGTCTGcaatc-aacaaaatttaatttgtgt---ctactgtgtgccaaaattacaataggtgtagagatactaggatgaaataacaagtccttgctcttaagaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565112 209 - 133663169 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTAATACTAGTTTACATTTGCACTCATGCATTCATGGACTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtgtagagatagtaggatgaaataacaagtccttgctcttaagaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964629 209 - 137757926 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTAATACTAGTTTACATTTGCACTCATGCATTCATGGACTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtgtagagatagtaggatgaaataacaagtccttgctcttaagaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342411 209 -   7948249 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGACTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtgtagagatagtaggatgaaataacaagtccttgctcttaagaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243141 209 -  10730278 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGTCTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtatagagatagtaggatgaaataacaagtccttgctcttaagaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100734071 209 - 128539186 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTGACACTAGTTTACGTTTGCACTCATGCATTCATGGTCTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtgtagagatagtaggatgaaataacaagtccttgctcttaagaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       129177 209 +    435186 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTAACAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGTCTAcattc-aacaaaatttaattcgtgtctactactgtgtgctaaaattacaacaggtgtagagatagtaggatgaaataacaagtacttgctcttaagaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517439 209 +   9309688 GGCCGAAAGTCACTACCAACCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAGGCTTTTTACTGACAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGTCTAcattc-aacaaaatttaattcgtgtctactactgtgtgccaaaattacaataggtgtagagataataggatgaaataacaagtccttgcttttaagaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11351279 205 -  29834108 GGCTCAAAGTCGCTACCAA-CCAGGAGAACCAGCATAATTTTACAATTAAGGCTCAAGCATTTTACTAATAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGTCTAcattc-aacaaaattaaattagtgt---ttattgtgtgcccaaattacaataggcataaagatgctagcatgaaataacaagtccttgctcttaagaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       806568 205 -   1015025 GGCTCAAAGTCACTACCAA-CCAGGAGAACCAGCATAATTTTACAATTAGGACTCAGGCATTTTACGGATAGTAACACTAGTTTACATTTGCACTCATGCATTCATGGTCTAcattc-aacgaaatttaattagcat---ctattgtgtgcccaaattacaataggcataaagatgctaggatgaaataacaagtccttgctcttaagaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1820558 205 -   2295209 GGCTCAAAGTCACTACCAA-CCAGGAGAACCAGCATAATTTTACAATTAAGACTCAAGCATTTAACTGATAGTAACACTAGTTTACATTTGTACTCATGCATTCATGGTCTAcattc-aatgaaatttaattagtgt---ctattgtgtgcccaaattgccataggcataaagatgctaggatgaaataacaagtccttgctcttaagaa
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2939980 206 +  31815103 GACCCATAGTCACTACCAATCCAGGAGAATCAGCATAATTTTACAGTTAGAACTCAGGCTTTTTATGGATAATAACACTAGCTTACATTTGCACTCATGCGTTCATGCTCTGcgttc-aacaaaatttaattagtgt---ctattgtgtgccaaaattgtaataggtataaggatactaggatgaaacgaccagtccttgctgttaagga
i micMur3.chr21             C 0 I 41
s proCoq1.NW_012140524v1      5036298 206 +  13104022 GACCTATAGTCACTACCAATCTAGGAGAATCAGCATAATTTTACAATCAGAACTCAGGCTTTTTACGGATAATAACACTAGCTTACGTTTGCACTCATGCGTTCATGCTCTGcgttc-aacaaaatttaattagtgt---ctattgtgtgccaaaactgtaataggtataagagtactaggatgaaacaaccagtccttgctgttaagga
i proCoq1.NW_012140524v1    C 0 I 41
s otoGar3.GL873576            4527508 203 -  12054995 GGCCCATAGTCACTACCAATCCAGGAGAATCAGCATAATTTTACAATTAGAACTCAAGGTTTTTATGGATAATGACACTAGTTTACATTTGCACTCATGCATTCATGCTCTGcattc-aacaaaatttaattagtgt---ctattgtgtgccaaaattataatagggataaggatactaggaggaaaca---aatccttgctcctcaggc
i otoGar3.GL873576          C 0 I 12
s mm10.chr6                   2381273 179 - 149736546 AGCTGCTGGTCAATATCTACCCAGGATGATCAGCATAATTTCGCAATGAAA---CAGGCTTGTCACTGATAACAACA-----TTACATCC-CACTCACACATCCATGCCATGAATTCAAATATGATTTAATTAGTGT------------GCCAAAATTATA----------AGGCACTAGGAAGAAAGGATACTTCCTCGATCTTAAGGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683551 198 +  45876710 GGCCTACAGTCATTACAAACTCAGGATAATCATCCTAATTTTGCAATTAGAACTCAGGCTTTCTGCTGATAATAACAC-----TGCATTTGCACTCAAACATTCATGCTCTGcattc-aacaaaatttaatttgtgc---ctatcatgtgccaaaagtttaataggcttaaggattg-aaaatgaaataacaagtc--tattcttaggaa
i canFam3.chr27             C 0 I 13
e dasNov3.JH562883             893569 879 -   1687904 I

a score=96632.000000
s hg38.chr12_GL383549v1_alt     29028 10 +    120804 CTT--------GTGAATT
s panTro5.chr12              62723924 10 + 137163284 ctt--------gtgaatt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850631 10 + 135337776 ctt--------gtgaatt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3065927 10 -  32808036 ctt--------gtgaatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7249804 10 +  34552619 CTT--------GTGAATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565321 10 - 133663169 ctt--------gtgaatt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964838 10 - 137757926 ctt--------gtgaatt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342620 10 -   7948249 ctt--------gtgaatt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243350 10 -  10730278 ctt--------gtgaatt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100734280 10 - 128539186 CTT--------GTGAATT
i chlSab2.chr11             C 0 I 12
s manLeu1.NW_012101287v1       129386 10 +    435186 ctt--------gtgaatt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517648 10 +   9309688 ctt--------gtgaatt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11351484 10 -  29834108 ctt--------gtgaatt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       806773 10 -   1015025 ctt--------gtgaatt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1820763 10 -   2295209 ctt--------gtgaatt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4527723 10 -  12054995 gtT--------AAAAATT
i otoGar3.GL873576          I 12 C 0
s mm10.chr6                   2381452  6 - 149736546 -----------GCGCAT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683762 18 +  45876710 CTTATAAAAAAATAAATT
i canFam3.chr27             I 13 C 0
e micMur3.chr21               2940186 41 +  31815103 I
e proCoq1.NW_012140524v1      5036504 41 +  13104022 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=1766.000000
s hg38.chr12_GL383549v1_alt     29038 1 +    120804 -G
s panTro5.chr12              62723934 1 + 137163284 -g
i panTro5.chr12             C 0 I 11
s panPan2.chr12              60850641 1 + 135337776 -g
i panPan2.chr12             C 0 I 11
s gorGor5.CYUI01000003v1      3065937 1 -  32808036 -g
i gorGor5.CYUI01000003v1    C 0 I 11
s nomLeu3.chr23               7249814 1 +  34552619 -G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565331 1 - 133663169 -g
i rheMac8.chr11             C 0 I 11
s macFas5.chr11             108964848 1 - 137757926 -g
i macFas5.chr11             C 0 I 2
s macNem1.NW_012011422v1      1342630 1 -   7948249 -g
i macNem1.NW_012011422v1    C 0 I 11
s cerAty1.NW_011999477v1      8243360 1 -  10730278 -g
i cerAty1.NW_011999477v1    C 0 I 11
s manLeu1.NW_012101287v1       129396 1 +    435186 -g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517658 1 +   9309688 -g
i colAng1.NW_012114364v1    C 0 I 11
s saiBol1.JH378123           11351494 1 -  29834108 -g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       806783 1 -   1015025 -g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1820773 1 -   2295209 -g
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4527733 1 -  12054995 -A
i otoGar3.GL873576          C 0 I 12
s canFam3.chr27              19683780 1 +  45876710 T-
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2381458 0 - 149736546 C
e micMur3.chr21               2940186 41 +  31815103 I
e proCoq1.NW_012140524v1      5036504 41 +  13104022 I
e dasNov3.JH562883             893569 879 -   1687904 I
e chlSab2.chr11             100734290 12 - 128539186 I

a score=-5925.000000
s hg38.chr12_GL383549v1_alt     29039  8 +    120804 ---TGAACT---TG
s nomLeu3.chr23               7249815 11 +  34552619 ---CATAGTCTACT
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108964851  6 - 137757926 -----tagt---ct
i macFas5.chr11             I 2 I 3
s manLeu1.NW_012101287v1       129397  8 +    435186 ---catagt---cg
i manLeu1.NW_012101287v1    C 0 I 3
s saiBol1.JH378123           11351495  8 -  29834108 ---tatagt---ct
i saiBol1.JH378123          C 0 I 3
s cebCap1.NW_016107911v1       806784  8 -   1015025 ---tatagt---ct
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1820774  8 -   2295209 ---tatagt---ct
i aotNan1.NW_018488218v1    C 0 I 3
s otoGar3.GL873576            4527746  6 -  12054995 ---TTTAGT-----
i otoGar3.GL873576          I 12 C 0
s mm10.chr6                   2381458  5 - 149736546 ------AGC---CT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683781 11 +  45876710 TGGAACACT---TG
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2940186 41 +  31815103 I
e proCoq1.NW_012140524v1      5036504 41 +  13104022 I
e dasNov3.JH562883             893569 879 -   1687904 I
e colAng1.NW_012114364v1      3517659 11 +   9309688 I
e chlSab2.chr11             100734290 12 - 128539186 I
e cerAty1.NW_011999477v1      8243361 11 -  10730278 I
e macNem1.NW_012011422v1      1342631 11 -   7948249 I
e rheMac8.chr11             104565332 11 - 133663169 I
e gorGor5.CYUI01000003v1      3065938 11 -  32808036 I
e panPan2.chr12              60850642 11 + 135337776 I
e panTro5.chr12              62723935 11 + 137163284 I

a score=996624.000000
s hg38.chr12_GL383549v1_alt     29047  86 +    120804 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCCTTAATAAAGC--tgtaat-a-ga-ataatatttttgtttctttcctattaagtaag---cttatc
s panTro5.chr12              62723946  86 + 137163284 ----------------------------taaaatcaaaataaagcataaTA---AATGCCTTAATAAAGC--tgtaat-a-ga-ataatatttttgtttctttcctattaagtaag---cttatc
i panTro5.chr12             I 11 C 0
s panPan2.chr12              60850653  86 + 135337776 ----------------------------taaaatcaaaataaagcataaTA---AATGCCTTAATAAAGC--tgtaat-a-ga-ataatatttttgtttctttcctattaagtaag---cttatc
i panPan2.chr12             I 11 C 0
s gorGor5.CYUI01000003v1      3065949  86 -  32808036 ----------------------------taaaatcaaaataaagcataaTA---AATGCCTTAATAAAGC--tgtaat-a-ga-ataatatttttgtttctttcccattaagtaag---cttatc
i gorGor5.CYUI01000003v1    I 11 C 0
s nomLeu3.chr23               7249826  86 +  34552619 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCCTTAATAAAGC--tgtaat-a-ga-ataatatttttgtttctttcctattaagtaag---cttatc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565343  84 - 133663169 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAATAAAGC--TGTAAT-A-GA-ATAATA-TTTT-TTTCTTTCCTATTAAGTAAG---CTTATC
i rheMac8.chr11             I 11 C 0
s macFas5.chr11             108964860  84 - 137757926 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAATAAAGC--TGTAAT-A-GA-ATAATA-TTTT-TTTCTTTCCTATTAAGTAAG---CTTATC
i macFas5.chr11             I 3 C 0
s macNem1.NW_012011422v1      1342642  84 -   7948249 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAATAAAGC--tgtaat-a-ga-ataata-tttt-tttctttcctattaagtaag---cttatc
i macNem1.NW_012011422v1    I 11 C 0
s cerAty1.NW_011999477v1      8243372  85 -  10730278 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAATAAAGC--TGTAAT-A-GA-ATAGTATTTTT-TTTCTTTCCTATTAAGTAAG---CTTATC
i cerAty1.NW_011999477v1    I 11 C 0
s chlSab2.chr11             100734302  86 - 128539186 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAATAAAGC--TGTAAT-A-GA-ATAATATTTTTGTTTCTTTCCTATTAAGTAAG---CTTATC
i chlSab2.chr11             I 12 C 0
s manLeu1.NW_012101287v1       129408  85 +    435186 ----------------------------taaaatcaaaataaagcataata---aatgcttcaataaagc--tgtaat-a-ga-atagtatTTTT-TTTCTTTCCTATTAAGTAAG---CTTATC
i manLeu1.NW_012101287v1    I 3 C 0
s colAng1.NW_012114364v1      3517670  86 +   9309688 ----------------------------TAAAATCAAAATAAAGCATAATA---AATGCTTCAACAAAGC--TGTAAT-A-GA-ATAATATTTTTGTTTCTTTCCTATTAAGTGAG---CTTATC
i colAng1.NW_012114364v1    I 11 C 0
s saiBol1.JH378123           11351506  86 -  29834108 ----------------------------TAAAATAAAAATAAAGCATAATA---AACGCATTAATAAAGC--TGTGAT-A-GA-ATGATATTTTTGTATCTTTCCTATTAAGAAAG---CTTATC
i saiBol1.JH378123          I 3 I 3574
s cebCap1.NW_016107911v1       806795  86 -   1015025 ----------------------------taaaataaaaataaagcataaTA---AATGCCTTAATAAAGC--TGTGAT-G-GA-ATAATATTTTTGTATCTTTCCTATTCAGTAAG---CTTATC
i cebCap1.NW_016107911v1    I 3 I 8
s aotNan1.NW_018488218v1      1820785  86 -   2295209 ----------------------------TAAAATAAAAATAAAGCATAATA---AATGCCTTAATAAAGC--TGTGAT-G-GA-ATAATATTTTTGCATCTTTCCTATTAAGTAAG---ATTATC
i aotNan1.NW_018488218v1    I 3 I 10032
s micMur3.chr21               2940227  83 +  31815103 ----------------------------tgaaatcaaaataaagcataata---aatgctttagtAAATT--TGTAAT-A-GAGATAGTATTTTTGTATCTTTCCTGATAagt-------ttatc
i micMur3.chr21             I 41 C 0
s proCoq1.NW_012140524v1      5036545  83 +  13104022 ----------------------------taaaatcaaaataaagcataata---aatgctttaatAAATT--TGTAAT-A-GAGATAATATTTTTGTATCTTTCCTAATAAGT-------TTGTC
i proCoq1.NW_012140524v1    I 41 C 0
s otoGar3.GL873576            4527752  86 -  12054995 ----------------------------TAAAAACAAAATAAAGTATAATAAATAATGCTTTAATAAATG--TGTAAT-A-GAGATAAAACTTTTTTATCTTTCATAATAagt-------ttatc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2381463  82 - 149736546 --------------------------------ATCAAAATAAAGTCTAATG---TGTGCTTTAATAAGGCATTTTAAT-ATGA-GTGATG------TTCCTTTGCCATCTAGTGAGAATCTTACC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683792 115 +  45876710 TAGTGATGAGCACCAGGGGTTGTGTGGAAGAGAAAAAAATAAACTTTAATA---AGCTCTTTAATAAAAT--TGTAATGA-GA-ATACTATTATTGCCTCTGTCCTCATACGTAGG---TCCATC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             893569 879 -   1687904 I

a score=510624.000000
s hg38.chr12_GL383549v1_alt     29133 55 +    120804 agcatagtttcccatcaatctttatgtattaggaagaggagaatgat-agatgcta
s panTro5.chr12              62724032 55 + 137163284 agcatagtttcccatcaatctttacgtattaggaagaggagaatgat-agatgcta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850739 55 + 135337776 agcatagtttcccatcaatctttacgtattaggaagaggagaatgat-agatgcta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3066035 55 -  32808036 agcatagtttcccatcaatctttacatattaggaagaggagaaagat-agatgcta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7249912 55 +  34552619 agcattgtttcccatcaatctttatgaattaggaagaggagaatgat-agatgcta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565427 55 - 133663169 AGCATTGTTTCCCATCAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964944 55 - 137757926 AGCATTGTTTCCCATCAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342726 55 -   7948249 agcattgtttcccatcaatctttatgaattaggaagaggagaatgat-agatgcta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243457 55 -  10730278 AGCATTGTTTCCCATCAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100734388 55 - 128539186 AGCATTGTTTCCCATCAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       129493 55 +    435186 AGCATTGTTTCCCATCAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517756 55 +   9309688 AGCAATGTTTCCCATTAATCTTTATGAATTAGGAAGAGGAGAATGAT-AGATGCTA
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               2940310 55 +  31815103 tgcttggtttcccatcaacctttatggattaggaaaaggagaaggac-agatgcca
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5036628 55 +  13104022 TGCTTTGTTTCCTATCAACCTTGATGGATTAGGGAGAGGAGGAAGAT-AGGTGCCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4527838 54 -  12054995 tgctttgtttcccatcaatctttatgaattgggggaaag-gaaggat-agatgccg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2381545 47 - 149736546 -GCACTGTTTCCCATTGACCTTTGTGGATTAGGAGAAA-------AT-GGACCCCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19683907 55 +  45876710 TGC-TTATTCCccatcaacctttacagaatagggagaggagaagtatgagatgcca
i canFam3.chr27             C 0 I 10814
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881  8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=1193658.000000
s hg38.chr12_GL383549v1_alt     29188 140 +    120804 ctgaaggggattaaagggtgctt-ctttgaaatacgccactttggtataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
s panTro5.chr12              62724087 140 + 137163284 ctgaaggggattaaagggtgctt-ctttgaaatatgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850794 140 + 135337776 ctgaaggggattaaagggtgctt-ctttgaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3066090 140 -  32808036 ctgaaggggattaaagggtgctt-ctttgaaatatgccactttggcataaggattattctgggctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7249967 154 +  34552619 ctgaaggggattaaggggtgctt-cttcgaaatatgccactttggcataaggattattctgagctggacttagttgagaaa--aactgatgcaggaaaagttttcaaccctccc-ctttcaagttctcaaccctcccctaaaagcaggggacaaattt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565482 140 - 133663169 CCgaaggtgattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108964999 140 - 137757926 CCgaaggtgattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342781 140 -   7948249 ccgaaggtgattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243512 140 -  10730278 CCgaaggtgattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100734443 140 - 128539186 CCgaaggggattaaagagtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       129548 140 +    435186 CCgaaggtgattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aactgatgcaggaaaagctttcaaccctccc-ctttcag--------------tataaaagcaggggacaaattt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517811 140 +   9309688 CCgaaggggattaaagggtgctt-cttcaaaatacgccactttggcataaggattattctgagctggagttagttgagaaa--aaccgatgcaggaaaagctttcaatcctccc-ctttcag--------------tataaaagcaggggacacattt
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               2940365 142 +  31815103 ctgaaggggatcagaggatgcca-ccccaaaatataccactttggcataaggattatcctgagctgaagttaactgagaag-tagcagatgcaggcaaagctctcagccttccccctttcag--------------tctaaaagcagaggacaaattt
i micMur3.chr21             C 0 I 5542
s proCoq1.NW_012140524v1      5036683 142 +  13104022 Ctgaagggtatcagaggatgcca-ccccaaaatataccactttggcataaggattattatgacctgaagttaactgagaaa-tagcagatgcaggaaaagctctcggccttccccctttcag--------------tctaaaagcagaggacaaattt
i proCoq1.NW_012140524v1    C 0 I 9106
s otoGar3.GL873576            4527892 143 -  12054995 ctgaaggacatcaaaggataccaccccccaaatataccattttggcataaggattgttcagagctaaaattgattgcgaaa-tagcaagtttaggaaaaactctcagccttccctcttttag--------------tctataagcagaagacaaattt
i otoGar3.GL873576          C 0 I 25
s mm10.chr6                   2381592 135 - 149736546 CTCaaggggatcatagtacgcca-accc---atatattactttagcacaagaattattctaatctg--gtcagctggacaaacaacagattcaaatgaagctcttagcttccca-ctttcag--------------cctgaaa--atggcacaggttt
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19683962 10814 +  45876710 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881   8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=3786610.000000
s hg38.chr12_GL383549v1_alt     29328 591 +    120804  
s panTro5.chr12              62724227 594 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60850934 594 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3066230 594 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7250121 592 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104565622 591 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108965139 591 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1342921 592 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8243652 591 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100734583 591 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       129688 591 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3517951 591 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4528060 582 -  12054995  
i otoGar3.GL873576          I 25 I 4813
s mm10.chr6                   2381727 484 - 149736546  
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881   8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=311017.000000
s hg38.chr12_GL383549v1_alt     29919 55 +    120804 tcatctgttttgcgttgatataaaggaatacctaagacaggataatttgtaagga
s panTro5.chr12              62724821 55 + 137163284 tcatctgttttgcgttgatataaaggaatacctaagacaggataatttataagga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60851528 55 + 135337776 tcatctgttttgcgttgatataaaggaatacctaagacaggataatttataagga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3066824 55 -  32808036 tcatctgttttgcgttgatataaaggaatacctaagacaggataatttataagga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7250713 55 +  34552619 tggtctgttttgtgctgatataaaggaatacctaagacaggataatttataagga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104566213 55 - 133663169 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108965730 55 - 137757926 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1343513 55 -   7948249 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8244243 55 -  10730278 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100735174 55 - 128539186 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       130279 55 +    435186 tcgtctgttttgcattgatataaaggaatatctaagacagggtaatttataagaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3518542 55 +   9309688 tcgtctgttttgcgttgatataaaggaatatctaagacagggtaatttataagaa
i colAng1.NW_012114364v1    C 0 C 0
s mm10.chr6                   2382211 42 - 149736546 ------CCTTCGTTGAGACACATAGAAACAT-TGGGATAGG------TGTGAAGA
i mm10.chr6                 C 0 I 368
e otoGar3.GL873576            4528642 4813 -  12054995 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881  8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=2679766.000000
s hg38.chr12_GL383549v1_alt     29974 479 +    120804 aaaggggtttatttggttcatggttctgcaggttgtacaagaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggcttaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggctccttttaacaatcaaatattttggtaactaataaggtgagaattcattcattactatgagggcagcaccaacttgttcatgaaggaccagcccccattgcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacagttattcaaaccatatccatgaggtacatagaaatatcactataggtataaacacatcagagataaagatagcctggagatgttccatgcctctagtagaagccagcattcagcctgatatactgccaataatttatatcgtaattattctttctc
s panTro5.chr12              62724876 479 + 137163284 aaaggggtttatttggttcatggttctgcaggttgtacaagaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggttccttttaacaatcaaatattgtggtaactaataaggtgagaattcattcattactatgagggcagcaccaacttgtttatgaaggaccagcccccattgcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacagttattcaaaccatatccatgaggtacatagaaatatcactataggtatgaacacatcagagataaagatagcctggagatgttccatgcctctagtagaagccagcattcagcctgatagactgccaataatttatatggtaattattctttctc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60851583 479 + 135337776 aaaggggtttatttggttcatggttctgcaggttgtacaagaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggctccttttaacaatcaaatattgtggtaactaataaggtgagaattcattcattactatgagggcagcaccaacttgtttatgaaggaccagcccccattgcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccatatccatgaggtacatagaaatatcactataggtataaacacatcagagataaagatagcctggagatgttccatgcctctagtagaagccagcattcAGcctgatatactgccaataatttatatggtaattattctttctc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3066879 479 -  32808036 aaaggggtttatttcgttcatggttctgcaggttgtacaagaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacacggcaagtggaagaaagcaagagagacaggaggaggtgcaaggctccttttaacaatcaaatattgtggtaactaataaggtgagaattcattcattactatgagggcagcaccaacttgttcatgaaggaccagcccccattgcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacagttattcaaaccatatccatgaggtacatagaaatatcactataggtataaacacatcagagataaagatagcctggagacgttccatgcctctagtagaagccagcattcAGcctgatatactgccaataatttatattgtaattattctttctc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7250768 478 +  34552619 aaaggggtttatttggttcacggttctgtaggttgtataagaa-----------------gcttccagtgggggctttggggaaggcaggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagacagacaggaggaggtgcaaggctctttttaacaatcaaatattgtggtaactaataggatgagaattcattcatcactatgagggcagcaccaacctgttcatgaaggacaagcccccattgcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacaactattcaaaccatatccctgaggtacatagaaatatcagtataggtctaaagacatcaaagataaagatagcctggagatgttccatgcctctagtagaagccagcattcagcctgatatactgccaataatttatattgcaattattcttcctc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104566268 465 - 133663169 aaagaggtttatttggttcatggttttgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggttccttttaacaatcaaatactgaggtaactattagagtgagaattcattcattaccatgagggcagcgtcaacttgttcatgagagaccagcccccatggcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccataTCCATGAGGTACATAGAA--------------ATAAAGATGTCAGAGATAAAGGTAGCCTGGAGATGTTCCATGCCTCTAGTAGAAGCCAGTATTCAGTctgatatattgccaataatttatatcgtaattattctttctc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108965785 465 - 137757926 aaagaggtttatttggttcatggttttgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggttccttttaacaatcaaatactgaggtaactattagagtgagaattcattcattaccatgagggcagcgtcaacttgttcatgagagaccagcccccatggcccaagcacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccataTCCATGAGGTACATAGAA--------------ATAAAGACGTCAGAGATAAAGGTAGCCTGGAGATGTTCCATGCCTCTAGTAGAAGCCAGTATTCAGTctgatatattgccaataatttatatcgtaattattctttctc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1343568 465 -   7948249 aaagaggtttatttggttcatggttttgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggtgcaaggttccttttaacaatcaaatactgaggtaactattagagtgagaattcattcattaccatgagggcagcatcaacttgttcatgagagaccagcccccatggcccaaacacctcctactaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccataTCCATGAGGTACATAGAA--------------ATAAAGACGTCAGAGATAAAGGTAGCCTGGAGATGTTCCATGCCTCTAGTAGAAGCCAGTATTCAGTctgatatattgccaataatttatatcgtaattattctttctc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8244298 479 -  10730278 aaagaggtttatttggttcatggttctgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacacggcaagtggaagaaagcaagagagacaggaggcggcgcaaggttccttttaacaatcaaatactgcggtaactattagagtgagaattcattcattaccatgagggcagcatcaacttgttcatgagggaccagtccccacggcccaaacacctcctacaaggccctacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccatatccatgagatacatagaaatatcagtataggtataaagacatcagagataaaagtagcctggagatgttccatgcctctagtagaagccagcattcAGTctgatatattgccaataatttatattgtaattattctttctc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100735229 477 - 128539186 aaagaggtttatttggttcatggttctgcaggttgtacaggaagcatgatgccagcatctgctaccagt--g----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaggcgcaaggttccttttaacaatcaaatactgcggtaactattagagtgagaattcattcattaccatgagggcagcatcaacttgttcatgagggaccagcccccatggcccaaacacctcctacaaggccctacctccaacaatggggatgaaatttcaacctgagatttggaggggacaattattcaaaccataTCCATGAGGTACATAGAAATATCAGTATAGGTATAAAGACATCAGAGATAAAGGTAGCCTGGAGATGTTCCATGCCTCTAGTAGAAGCCAGCATTCAGTctgatatattgccaataatttatattgtaattattctttctc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       130334 479 +    435186 aaagaggtttatttggttcatggttctgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacacggcaagtggaagaaagcaagagagacaggaggcggcgcaaggttccttttaacaatcaaatactgcggtaactattagagtgagaattcattcattaccatgagggcagcatcaacttgttcatgagggaccagcccccacggcccaaacacctcctacaaggccctacctccaacaatggggatgaaatttcaacatgagatttggaggggacaattattcaaaccatatccatgaggtacatagaaatatcagtataggtataaagacatcagagataaaagtagcctggagatgttccatgcctctagtagaagccagcattcAGTctgatatattgacaataatttatattgtaattattctttctc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3518597 467 +   9309688 aaagaggtgtatttggttcatggttctgcaggttgtacaggaagcatgatgccagcatctgcttccagtggg----------------ggctttggggaaggctgaggggagccagtatcacatggcaagtggaagaaagcaagagagacaggaggaagtgcaaggttccttttaacaatcaaatactgctgtaactattagagtgagaattcattcattaccatgagggcagcatcaacttgttcatgagggaccagcccccatggcccagacacctccttctaggccccacctccaacaatggggatgaaatttcaacatgagatttggaggggacagttattcaaaccataTCCATGAGGTACATAGAAAT------------ATAAAGACATCAGAGATAAAGGTAGCCTGGAGATGTTCCATGCCTCTAGTAGAAGCCAGCATTCAGTctgatatattgccaataatttatattgtaattattctttctc
i colAng1.NW_012114364v1    C 0 C 0
e otoGar3.GL873576            4528642 4813 -  12054995 I
e mm10.chr6                   2382253 368 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881   8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=2134711.000000
s hg38.chr12_GL383549v1_alt     30453 368 +    120804 aaaaggactataggcatttatcatcatgactgtgcattgaagaaatgaaagtaaccagatttagtggaaattattggacactgattgtgaact--------cacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagagtaggcagtaatggagtttgggtgatcaatgtaattttggaccagagctgtctcactatagaccaatggagctccaatactatctcatgttta--ttttcaaattccagaaggtatcattgaaatatacatactcaacaactggcagactccctatattggttttttgacctatggaataagaactattgtgataagaaagaacaagtggaaatcccccaaatctcctcca
s panTro5.chr12              62725355 368 + 137163284 aaaaggactacaggcatttatcatcgtgactgtgcattgaagaaatgaaagtaaccagatttagtggaaattattggacactgattgtgaact--------cacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagagtaggcagtaatggagtttgggtgatcaatgtaattttggaccagagctgtctcactatagaccaatggagctccaatactatctcatgttta--ttttcaaattccagaaggtatcattgaaatatacatactcaacaactggcagactccctatattggttttttgacctatggaataagagctattgtgataagaaagaccaagaggaaagccccaaaatctcctcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60852062 368 + 135337776 aaaaggactacaggcatttatcatcgtgactgtgcattgaagaaatgaaagtaaccagatttagtggaaattattggacactgattgtgaact--------cacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagagtaggcagtaatggagtttgggtgatcaatgtaattttggaccagagctgtctcactatagaccaatggagctccaatactatctcatgttta--ttttcaaattccagaaggtatcattgaaatatacatactcaacaactggcagactccctatattggttttttgacctatggaataagagctattgtgataagaaagaccaagaggaaagccccaaaatctcctcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3067358 368 -  32808036 aaaaggactacaggcatttatcatcgtgactgtgcattgaagaaatgaaagtaaccagatttagtggaaattattggacactgattgtgaact--------cacactgattcctaagactcaaa-----gtcactgtaactcaacagtcagagtaggcagtaatggagtttgggtgatcaatgtaattttggaccagagctgtctcactatagaccaatggagctccaatactatctcatgttta--ttttcaaattctagaaggtatcattgaaatatacatactcaacaactggcagactccctatattggttttttgacctatgtaataagagctattgtgataagaaagaccaagtggaaagccccaaaatctcctcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7251246 368 +  34552619 gaaaggactacaggcatgtatcactgtgactgtgcattgaagaaatgaaagtaaccaggtttagtggaaattattggacactgattgtgaact--------cacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagagtaggcagtaatggaggttgagtgatcaatgcaatttaggaccagagctgtctcactatagaccaatggagctccaatactatctcatgttta--ttttcaaattccagaaggtattattgatatatacatactcaacaactggcagactccctatattggttttttgacctatggaataagagctattatgataagaaagaccaagtggaaagccccaaaatttcctcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104566733 366 - 133663169 aaaaggactacagacatttataattgtgactgtgcattgaagaagtgaaagtaaccagatttggtggaaattattgatcactgattgtgaact--------gacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagattagacagtaatggaggttaggtgatcaatgtaattttggaccagagctgtctcactgtag--taaaggagctccaacactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacgtattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108966250 366 - 137757926 aaaaggactacagacatttataattgtgactgtgcattgaagaagtgaaagtaaccagatttggtggaaattattgatcactgattgtgaatt--------gacactaattcctgagactcaga-----gtcactgtagctcaacagtcagattagacagtaatggaggttaggtgatcaatgtaattttggaccagagctgtctcactgtag--taaaggagctccaacactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacgtattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1344033 366 -   7948249 aaaaggactacagacatttataattgtgactgtgcattgaagaagtgaaagtaaccagatttggtggaaattattgatcactgattgtaaact--------gacactaattcctgagactcaaa-----gtcactgtagctcaacagtcagattagacagtaatggaggttaggtgatcaatgtaattttggaccagagctgtctcactgtag--taaaggagctccaacactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacgtattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8244777 366 -  10730278 aaaaggactacagacatttataattgtgactgtgcattgaagaagtgaaagtaaccagatgtggtggaaattattgaacactgattgtgaact--------gacactaattcctgagactcaaa-----gtcactgtagctcaatagtcagattaggcagtaatggaggttaggtgatcaatgtaattttggaccagagctatctcactgtag--taaaggagctccaatactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacatattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100735706 366 - 128539186 aaaaggactacagacatttataattgtgactgtgcgttgaagaagtgaaagtaaccagatttggtggaaattattgaacactgattgtgaact--------gacactaattcctgagactcaaa-----gtcactgtagctcaatagtcagattaggcagtaatggaggttaggtgatcaatgtaattttggaccagagctatctcactgtag--taaaggagctccaatactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacatattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       130813 366 +    435186 aaaaggactacagacatttataattgtgactgtgcactgaagaagtgaaagtaaccagatttggtggaaattattgaacactgattgtgaact--------gacactaattcctgagactcaaa-----gtcactgtagctcaatagtcagattaggcggtaatggaggttaggtgatcaatgtaattttggaccagagctatctcactgtag--taaaggagctccaatactatctcatgttta--ttttcaaattacagaaggtatcattgaaatatacatattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagtggaaagccccagaatttcctcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3519064 366 +   9309688 agaaggactacagacatttataattgtgactgtgcattgaagaagtgaaagtaattagatttggtggaaattattgaacactgattgtgaact--------gacactaattcctgagactcaaa-----gtcactgtagatcaatagtcagattaggcagtaatggaggttaggtgatcaatgtaattttggaccagagctgtctcactgtag--taaaggagctccaatactatctcatgttta--ttttcaaattacagaaggtatcattgaaatacacatattcaacaactggcagactccctatattggttttctgacctattgaataagagctattatgataagaaagaccaagaggaaagtcccagaatttcctcca
i colAng1.NW_012114364v1    C 0 C 0
s mm10.chr6                   2382621 361 - 149736546 AAAAAGACTTCACCTTTCTATCAGAGGAACTGAGCACTCAA-----------AATAAGATTTAGGAGAAATTATTAAATGCTTGCCCAGAGCTTTTCTATAGACA---GCTCACAAGACAAAGACAACCATCAGTGTGGTTCTCCATTCTGAACAACAGCTGGTAAAGTCAAA--GATC--TGTCACTTTGG-CTGAGGTTGCCTCCATGTGTACCACCACAGGGCCTACATGATCTCATATTTATTTTTTTTAATT-CAGCAAATGTAGTTGCCACATACATATTTGACA--TAGCTGAGCCTTCATATTAGCTTTCTCATCTATGAAACAGGCATGGCCATGGGAATGAAGGTCAAATGGAAAGACTTATCATGTCCTCCA
i mm10.chr6                 I 368 I 13
e otoGar3.GL873576            4528642 4813 -  12054995 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881   8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=201245.000000
s hg38.chr12_GL383549v1_alt     30821 35 +    120804 cctaccaaaatattaaacccaaagtaatacaacag
s panTro5.chr12              62725723 35 + 137163284 cctaccaaaatattaaacccaaattaatacaacag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60852430 35 + 135337776 cctaccaaaatattaaacccaaagtaatacaacag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3067726 35 -  32808036 cctaccaaaatattaaacccaaagtaatacaacag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7251614 35 +  34552619 cctaccaaaatattaaacccaaagtaatacaacag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567099 35 - 133663169 cctaccaaaatattaaacccaaagtaatacaacag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108966616 35 - 137757926 cctaccaaaatattaaacccaaagtaatacaacag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1344399 34 -   7948249 cctaccaaaatattaaa-ccacagtaatacaacag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245143 35 -  10730278 cccaccaaaatattaaacccaaagtaatataacag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736072 35 - 128539186 cctaccaaaatattaaacccaaagtaatacaacag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131179 35 +    435186 cccaccaaaatattaaacccaaagtaatataacag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3519430 35 +   9309688 cctaccaaaatattaaacccaaagtaatacaacag
i colAng1.NW_012114364v1    C 0 C 0
e otoGar3.GL873576            4528642 4813 -  12054995 I
e mm10.chr6                   2382982 13 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881  8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=248738.000000
s hg38.chr12_GL383549v1_alt     30856 43 +    120804 tcctgaaaggactatagagattaatgacataatcaaggaatta
s panTro5.chr12              62725758 43 + 137163284 tcctgaaaggactatagagattaatgacataatcaaggaatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60852465 43 + 135337776 tcctgaaaggactatagagattaatgacataatcaaggaatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3067761 43 -  32808036 tcctgaaaggactatagagattaatgacataatcaaggaatta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7251649 43 +  34552619 tcctgaaaggattatagagattaatgacattatcaaggaattc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567134 43 - 133663169 tcctgaaaggactttagagattaatgacattatcaaggaattg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108966651 43 - 137757926 tcctgaaaggactttagagattaatgacattatcaaggaattg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1344433 43 -   7948249 tcctgaaaggactttagagattaatgacattatcaaggaattg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245178 43 -  10730278 tcctgaaaggactttagagattaatgacattatcaaggaattg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736107 43 - 128539186 tcctgaaaggactttagagattaatgacattatcaaggaattg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131214 43 +    435186 tcctgaaaggactttagagattaatgacattatcaaggaattg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3519465 43 +   9309688 tcctgaaaggactgtagagattaatgacattatcaagaaactg
i colAng1.NW_012114364v1    C 0 C 0
s mm10.chr6                   2382995 43 - 149736546 TTTGGGGAgaggggtggagactcacaccaccatcaagaggtga
i mm10.chr6                 I 13 C 0
e otoGar3.GL873576            4528642 4813 -  12054995 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e cebCap1.NW_016107911v1       806881  8 -   1015025 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=3554842.000000
s hg38.chr12_GL383549v1_alt     30899 542 +    120804  
s panTro5.chr12              62725801 542 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60852508 541 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3067804 542 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7251692 538 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567177 539 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108966694 539 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1344476 539 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245221 539 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736150 540 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131257 539 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3519508 540 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       806889 533 -   1015025  
i cebCap1.NW_016107911v1    I 8 C 0
s mm10.chr6                   2383038 646 - 149736546  
i mm10.chr6                 C 0 I 866
e otoGar3.GL873576            4528642 4813 -  12054995 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=310353.000000
s hg38.chr12_GL383549v1_alt     31441 47 +    120804 ATACACACCAGATTTACCCTTCTACCACAAGCAGTTGTAAAACTGGA
s panTro5.chr12              62726343 47 + 137163284 ATACACACCAGATTTACCCTTCTACCACAAGCAGATGTAAAACTGGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853049 47 + 135337776 ATACACACCAGATTTACCCTTCTACCACAAGCAGATGTAAAACTGGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068346 47 -  32808036 ATACACACCAGATTTACCCTTCTACCACAAGCAGTTGTAAAACTGGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252230 47 +  34552619 ATAAACACCATATTTACCCTTCTACCACAAGCAGTTATAAAACTGGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567716 47 - 133663169 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967233 47 - 137757926 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345015 47 -   7948249 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245760 47 -  10730278 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736690 47 - 128539186 ATAAACACCAGATTTATCCTTCTACCGCAAGCAGTTATAAAACTGGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131796 47 +    435186 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520048 47 +   9309688 ATAAACACCAGATTTATCCTTCTACCACAAGCAGTTATAAAACTGGG
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       807422 47 -   1015025 ACAAATACCAGATTAACCTTTCTACCACAAGCAGTTGTAAAACTGGA
i cebCap1.NW_016107911v1    C 0 I 2628
e otoGar3.GL873576            4528642 4813 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I
e saiBol1.JH378123           11351592 3574 -  29834108 I

a score=29707.000000
s hg38.chr12_GL383549v1_alt     31488 5 +    120804 cacca
s panTro5.chr12              62726390 5 + 137163284 cacca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853096 5 + 135337776 cacca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068393 5 -  32808036 cacca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252277 5 +  34552619 catga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567763 5 - 133663169 TGcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967280 5 - 137757926 TGcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345062 5 -   7948249 Tacca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245807 5 -  10730278 Tacca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736737 5 - 128539186 Tacca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131843 5 +    435186 Tacca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520095 5 +   9309688 Tacca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11355166 5 -  29834108 cacca
i saiBol1.JH378123          I 3574 C 0
s cebCap1.NW_016107911v1       810097 5 -   1015025 cacca
i cebCap1.NW_016107911v1    I 2628 C 0
e otoGar3.GL873576            4528642 4813 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=762329.000000
s hg38.chr12_GL383549v1_alt     31493 89 +    120804 tttttattcagaaatgtactggaggttctagtcagtgcaaaaaggcaagaaaaatgaattaaagccttaaatattagaaaggaagtggt
s panTro5.chr12              62726395 89 + 137163284 tttttattcagaaatgtactggaggttctagtcagtgcaaaaaggcaagaaaaatgaattaaagccttaaatattagaaaggaagtggt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853101 89 + 135337776 tttttattcagaaatgtactggaggttctagtcagtgcaaaaaggcaagaaaaatgaattaaagccttaaatattagaaaggaagtggt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068398 89 -  32808036 tttttattcagaaatgtactggaggttctagtcagtgcaaaaaggcaagaaaaatgaattaaagccttaaatattagaagggaagtggt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252282 89 +  34552619 tttttcttcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaatattggaaaggaagtggt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567768 89 - 133663169 tttttattcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacatcagaaaggaagtggt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967285 89 - 137757926 tttttattcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacatcagaaaggaagtggt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345067 89 -   7948249 tttttattcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacatcggaaaggaagtggt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245812 89 -  10730278 tttttattcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacaacggaaaggaagtggt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736742 89 - 128539186 tttttattcataaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacatcggaaaggaagtggt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131848 89 +    435186 tttttattcagaaatgtattggaggttctagtctgtgcaaaaaggcaagaaaaatgaattaaagccttaaacaacggaaaggaagtggt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520100 89 +   9309688 tttttattcagaaatgtattggaggttctagtctgtgcgaaaaggcaagaaaaatgaattaaagccttacacctcagaaaggaagtggt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11355171 89 -  29834108 tttttattcataaatatattggaggttctagtcagcacgaaaaggcaagaaacatgaattaaagccttaaatattggaaaggaagtagt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       810102 89 -   1015025 tttttattcataaatatattggaggttctagtcagtgcaaaaaggcaagaaacatgaattaaagccttaaatattggaaaggaagtagt
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4533455 89 -  12054995 tttctattccaaactgaattggaggtcctagtcagtgcaataaagcaagaaaaattaatcaaagccttaaatattaggttgaaagtagt
i otoGar3.GL873576          I 4813 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e canFam3.chr27              19683962 10814 +  45876710 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=2009174.000000
s hg38.chr12_GL383549v1_alt     31582 244 +    120804 --aaaaa-g----tatttgaatgatggtatatgtagaaa--tcacaaggaatttTTAAAAGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAAATTAATAAATTAACAAACTAATTATATTACATttgtggtccatacagtataataatactaagcaatgaaaagtggtgaactacggataaaag---caacaa---ggaa--------------------gattctgaaaac----atgatgggtgtaagaagtcacttacaaaacagcat
s panTro5.chr12              62726484 244 + 137163284 --aaaaa-g----catttgaatgatggtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAAATTAATAAATTAACAAGCTAATTATATTACATttgtggtccatacaatataataatactaagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaa--------------------gattctgaaaac----atgatgggtgtaagaagtcacttacaaaagagcat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853190 240 + 135337776 --aaaaa-g----tatttgaatgatggtatatgtagaaa--tcacaaggaatttTTAAAAGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAAATTAATAAATTAA----CTAATTATATTACATttgtggtccatacaatgtaataatactaagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaa--------------------gattctggaaac----atgatgggtgtaagaagtcacttacaaaagagcat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068487 244 -  32808036 --aaaaa-g----tatttgaatgacagtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAAATTAATAAATTAACAAACTAATTATATTACATttgtggtctatacaatataataatactaagcaatgaaaagtggtgatctactgataaaag---caacaa---ggaa--------------------gattctgaaaac----atgatgggtgtaagaagtcacttacaaaagagcat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252371 248 +  34552619 --aaaaa-gtctttatttgaatgacggtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAaattaataaattaataaactaattatattacatatgtggtccatacaatataataatactaagcaatgaaaagtgatgaactactgataaaag---caacaa---ggaa--------------------gattctgaaaac----atgatgggtgtaagaagtcacttacaaaagagcat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104567857 268 - 133663169 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttctaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGaattaataaactaaattaataaattaacaaatgaatTATATTACATAtgtggtccatacaatatcataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967374 268 - 137757926 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGaattaataaactaaattaataaattaacaaatgaatTATATTACATAtgtggtccatacaatatcataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345156 268 -   7948249 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGaattaataaactaaattaataaattaacaaatgaatTATATTACATAtgtggtccatacaatatcataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8245901 268 -  10730278 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAACGCTGaattaataaactaaattaataaattaacaaatgaatTATATTACATAtgtggtccatacaatatcataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---gaaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100736831 268 - 128539186 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGaattaataaactaaattaataaattaacaaatgaatTATATTACATAtgtggtccatacaatataataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---ggaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       131937 268 +    435186 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAACGCTGAATTAATAAACTAAATTAATAAATTAACAAATGAATTATATTACATAtgtggtccatacaatatcataatactcagcaatgaaaagtggtgaactactgataaaag---caacaa---gaaagattctgaaagattctgaaggattctgaaagc----atgatggatgtaagaagtcacttacaaaagagcat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520189 268 +   9309688 --aaaaa-gtctttatttgaatgcttgtatatgtagaaa--tcacaaggaatttttaaaaGTTACCTTGCTAGAATAATTTCAAATGCTGAATTAATAAACTAAATTAATAAATTAACAAATGAATTATATTACCTAtgtggtccatacaatacaataatactcagcaatgaaaagtggtaaactactgataaaag---caacaa---ggaagagtctgaaagatgctgaaggattctgaaagc----ataatggatgtaagaagtcacttacaaaagagcat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11355260 242 -  29834108 --aaaac-atctttatttgaatgattgtatatgtagaaa--tcacaaggaatTTTTAAAAGTTGCCTTGCTAGAATAATTTcaaatgctgaattaataaac-----taataaattaacaaac----tatattacacgtgtggtccatacaatataataatactcagcaatgaaaagtggtaaactactgataaaag---caacaa---ggaa--------------------gattctgaaaacatt-atgatgggtttaagaagtcacttgcaaaagagcat
i saiBol1.JH378123          C 0 I 1164
s cebCap1.NW_016107911v1       810191 234 -   1015025 --aaaaa-gtctttatttgaatgattgtatatgtagaaa--tcacaaggaatttTTAAAAGTTGCCTTGCTAGAATAATTTCAAATGCTGAAT-------------Taataaattaacaaac----tatattacatatgtggtccatacaatataataatactcagcaatgaaaagtggtaaactacttataaaag---caacaa---agaa--------------------gattctgaaaacatt-atgatgggtttaagaagtcacttgcaaaagagcat
i cebCap1.NW_016107911v1    C 0 I 1194
s otoGar3.GL873576            4533544 243 -  12054995 --aaaaatgtctctatttgAGTGATTAGGTGTGCAGAAA--TCATAAGACAT---AAAAAATTACCTTGCTAGAAACATTTCCAATGCTGAAT----AAACT-AATTGAT-AATTAATAAAATAATTGTATTACAGATGTAGAAAatatggtagaataat----aacaataaaaagagaggaatgaatgatacaagtaacaacaa---ggaa--------------------taattgaaaaactttgaccatggataaaagaagccagttacaagagtgcat
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19694776 224 +  45876710 aaaaaaa-acttgcacatgaatg------tgcatagaaattttattcataatatccaaaaacttgaatcctaaatggttatcaaatgctgaaggaataaa---------------------taaattttagcaca-------tccatatgatgaaatactactcagccgtaaaaaggaacaaactgttgatacaag---caacaatatggaa-------------------gaatccagaaaacct--atgatgagtgaaagaagccaattacaaaagagggc
i canFam3.chr27             I 10814 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1820871 10032 -   2295209 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=38096.000000
s hg38.chr12_GL383549v1_alt     31826 5 +    120804 --agtgt
s panTro5.chr12              62726728 5 + 137163284 --agtgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853430 5 + 135337776 --agtgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068731 5 -  32808036 --agtgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252619 5 +  34552619 --agtgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568125 5 - 133663169 --agtat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967642 5 - 137757926 --agtat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345424 5 -   7948249 --agtat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246169 5 -  10730278 --agtat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737099 5 - 128539186 --agtgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132205 5 +    435186 --agtat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520457 5 +   9309688 --agtgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11356666 5 -  29834108 --AGtgt
i saiBol1.JH378123          I 1164 C 0
s cebCap1.NW_016107911v1       811619 5 -   1015025 --AGtgt
i cebCap1.NW_016107911v1    I 1194 C 0
s aotNan1.NW_018488218v1      1830903 5 -   2295209 --AGtgt
i aotNan1.NW_018488218v1    I 10032 C 0
s otoGar3.GL873576            4533787 5 -  12054995 --agcaa
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19695000 5 +  45876710 atagc--
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2940507 5542 +  31815103 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=3040774.000000
s hg38.chr12_GL383549v1_alt     31831 271 +    120804 atgattccacaaatgtgaaattctaaaatgtgggaaatatagtttgtagtgactga---aagactacagttgtctcagcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttggcaaaagtcaccaaactgtagactaaaatgggtgtattttattgtatttaatcatacttcaattatgttgc-tttt-TATAAATCTAA
s panTro5.chr12              62726733 271 + 137163284 atgattccacaaatgtgaaattctaaaatgtgggaaatatagtttatagtaactga---aagactacagttgtctcagcccaggagtggggaattatcaagtgcaaaggaaaagaagagaacgttttagggtgatagaaatgttttatatcttgactatggtggtagttactcaa--gtgtatatatttggcaaaagtcaccaaactgtagactaaaatgggtgtattttattgtatttaatcatacttcaattatgttgc-tttt-TATAAATCTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853435 272 + 135337776 atgattccacaaatgtgaaattctaaaatgtgggaaatatagtttgtagtgactga---aagactacagttgtctcagcccaagagtggggaattatcaagtgcaaaggaaaagaagagaacgttttagggtgatagaaatgttttatatcttgactatggtggtagttactcaa--gtgtatatatttggcaaaagtcaccaaactgtagactaaaatgggtgtattttattgtatttaatcatacttcaattatgttgcttttT-TATAAATCTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068736 261 -  32808036 atgattccataaatgtgaaattctaaaatgtgggaaatatagttggtagtgactga---aagactacagttgtctcagcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttggcaaaagtcaccaaactgtagactaaaatggg----------tgtatttaatcatacttcaattatGTTGC-TTTT-TATAAATCTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252624 271 +  34552619 atgattccataaatgtgaaattctaaaacgtgggaaatatagtttgtagtgactga---aagactacagttgtctcggcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatacaaatgttttatatcttgactgtggtagtagttactcaa--gtgtatatatttggcaaaagtcaccaaaccatagactaaaatgggtgtattttattgtatttaatcgtacttcaattatgttgc-tttt-TATAAATCTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568130 271 - 133663169 atgattccataaatgtgaaattctgaaacgtgggaaatatagtttctagtgactga---aagactatagttgtctgggcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgagtatattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967647 271 - 137757926 atgattccataaatgtgaaattctgaaacgtgggaaatatagtttctagtgactga---aagactatagttgtctgggcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgagtatattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345429 271 -   7948249 atgattccataaatgtgaaattctgaaacgtgggaaatatagtttctagtgactga---aagactacagttgtctgggcccaagagtggggaattatcaagtgcaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgagtatattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246174 271 -  10730278 atgattccataaatgtgaaattctgaaacgtgggaaatatagtttctagtgactgg---aagactacagttgtctgggcccaagagtggggaattatcaagtgcaaaagaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatacttgccaaaagtcaccaaactgtagactaaaatgagtatattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737104 271 - 128539186 aggattccataaatgtgaaattctaaaacgtgggaaatatagtttctagtgactga---aagactacagttgtctgggcccaagagtggggaattatcaagtgcgaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccgaactgtagactaaaatgagtgtattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132210 271 +    435186 atgattccataaatgtgaaattctgaaacgtgggaaatatagtttctagtgactga---aagactacagttgtctgggcccaagagtggggaattatcaagtgcaaaagaaaagaacagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgagtatattttattgcatttaatcatacttcaattatgttgc-tttt-TACAAATCTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520462 271 +   9309688 atgattccataaatgtgaaattctaaaacgtgggaaatatagtttgtagtgactga---aagactacagttgtctgggcccaagagtggggaattatcaagtccaaaggaaaagaagagaactttttagggtgatagaaatgttttatatcttgactgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgggtgtattttattacatttaatcatgcttcaattatgttgc-tttt-TACAAATCTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11356671 270 -  29834108 atgattccccatatgtgaaattctaaaacgtgggaaac-taatttatagagactga---aagactatagttgcctgaggccaagagtgaggaatgatcaagtgcaaaggaaaagaaaagaactttttagggtgatagaaatgttttatattttggctgtggtggtagttacccaa--gtgtatatatgtgccaaaagtcacgaaactgtagactaaaatgggtgtattttattgtatttcattgtacttaaattatgctgc-tttt-TACAAATCTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       811624 267 -   1015025 atgattccccatatgtaaaattctaaaatgtgccaaac-taatttatagagactga---aagactatagttgcctgagcccaagagtggggaatgattaagggcaaaggaaaagaaaataactttttagggtgatagaaatgttttata---tggctgtggtggtaattactcaa--gtgtatatatgtgccaaaagtcaccaaactgtagactaaaatgggtatattttattgtatttcattgtacgttaattgtgttgc-tttt-TACAAATCTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1830908 268 -   2295209 atgattccacatatgtgaaattctaaaacatgggaaac-taatt--tagagactga---aagactatagttgcctaagtccaagagtggggaatgatcaagtgcaaaggaaaagaaaagaactttttagggtgatagaaatgttttatattttggctgtggtggtagttactcaa--gtgtatatatttgccaaaagtcaccaaactgtagactaaaatgggtgtattttattgtatttcattgtactttaattatgttgc-tttt-TACAAATCTAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2946049 270 +  31815103 atgattccatatatgtgaaattctaaaacatggaaaac-taatttatagtgactga---aagattactattgtctgggtccaagagtggggaattatcagctgcaaaggaacacaagagaactttttagagtgatgtaaaagttttatatcttgattgtgttagtagttattcaa--gcatatatatttgccaaaattcaccaaactgtagacttatatgggcgtattttattgtacttaaatgtgattcaataatgttgc-tttt-aacaaaTCTAA
i micMur3.chr21             I 5542 C 0
s otoGar3.GL873576            4533792 251 -  12054995 atgattccatgtgtataaaattctaaaacaggaaaagc-taatttatactgactga---aga--tacttttgtctgagcctgaaagtgggaaattatcaactgcaaatgaatacaagagaactttttagggtgatggaaatattttatattttgattttgctagtagttactcaagtgtatatatatttgccaaaactcaccaaactgtagacttaaatgggtatattttatt-------------------taatgtTGT-TTTT-AACAAATCTCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19695005 263 +  45876710 atgattccatacatgtgaaattctgaaacagggaaaac-taatttggggtgactgatagaaggttagagttacctgggcccaaggaaggagaatttttacctacaaagggacaaaagggaactgtctagggtgatggaaatgatctatatcctgattgcggtggcagctattcag--gtgtatatatttgccaaaactcaccaaaccttacactaaaat-----------actgtatttaattgtacttcaagaaggttgc-tttcaaaaaaaTGTCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             893569 879 -   1687904 I

a score=3447424.000000
s hg38.chr12_GL383549v1_alt     32102 294 +    120804 ACCTATTG-TCTCAGGGAAATTTTTATTGATACAAGATGAAGAACAAGTTGTTCTCTCTGGTCCTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------actgctg----ccattgctttaggaggaatgtttagtgactt--------aag----tgattttccaattctcccttctggaccagaactttcctagctgctctcacaattgtgtggagtctgatccctagaataaagtttttatttcataatactcttagttgatctgctcctcCACATG-------------------G-TTCCT---TAACAGGAATCATCCCCAAGTTACACAC-AGAAAAATAT
s panTro5.chr12              62727004 294 + 137163284 GCCTATTG-TCTCAGGGAAATTTTTATTGATACAAGATGAAGAACAAGTTGCTCTCTCTGGTCCTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------actgctg----ccggtgctttaggaggaatgtttagtgactt--------aag----tgattttccaattctcccttctggatcagaactttcccagctgctctcacaattgtgtggagtctgatccctagaataaagtttttatttcataatactcttagttgatctgctcctcCAGATG-------------------G-TTCCT---TAACAGGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60853707 294 + 135337776 ACCTATTG-TCTCAGGGAAATTTTTATTGATACAAGATGAAGAACAAGTTGCTCTCTCTGGACCTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------acggctg----ccagtgctttaggaggaatgtttagtgactt--------aag----tgattttccaattctcccttctggaccagaactttcccagctgctctcacaattgtgtggagtctgatccctagaataaagtttttatttcataatactcttagttgatctgctcctcCAGATG-------------------G-TTCCT---TAACAGGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3068997 294 -  32808036 ACCTATTG-TCTCAGGGAAATTTTTATTGATACAAGATGAAGAACAAGTTGCTCTCTCTGGTCCTTGTTA-TCACTA--AAACAGGTca-------------------------------------------------------------------------------------------------------------actgctg----ccagtgctttagaaggaatgtttagtgactt--------aag----tgattttccaattctcccttctggaccagaactttcccagctgcactcacaattgtgtggagtctgatccctagaataaagtttttatttcataatactcttagttgatctgctcctcCAGATG-------------------G-TTCCT---TAACAGGAATCATCCCCAAGTTACACAC-AGGAAAATAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7252895 295 +  34552619 ACCTATTG-TCTCAGGGAAATTTTTATTGATCCAAGATGAAGAACAAGCTGCTCTCTCTGGTCCTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgctttaggaggaatgtttagtgactt--------aag----tgatttttcaattctccctgccggatcagaactttcccagctgctctcacaattgtgtggagtctgatccctagaataaattttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568401 295 - 133663169 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggaccagaactttcccagctgctctcacaattgtgtgaagtctgatccctagaataaattttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108967918 295 - 137757926 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggaccagaactttcccagctgctctcacaattgtgtgaagtctgatccctagaataaattttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345700 295 -   7948249 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggaccagaactttcccagctgctctcacaattgtgtgaagtctgatccctagaataaattttttatttcataatactcctagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246445 295 -  10730278 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggacaagaactttcccagctgctctcataattgtatgaagtctgatccctagaataaattttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737375 295 - 128539186 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ctagtgcttcaggaggaatggttagtgactt--------aag----taattttccagttctcccttctggaccagaactttcccagctgctctcacaattgtgtgaagtctgatccctagaataatttttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132481 295 +    435186 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACGAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggacaagaactttcccagctgctctcataattgtatgaagtctgatccctagaataaattttttatttcataatactcttagttgatctgctcctccaaatg-------------------GTTTCCT---TAACAGGAATCATCCCCAAGTCACACAC-AGGAAAATAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3520733 314 +   9309688 ACCTATTG-TCTCAGGGAAATTTTTACTGATCCAAGATGAAGAACAAGTTGCTCTCTCTGGTACTTGTTA-TCACTA--AAAGAGgtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgcttcaggaggaatggttagtgactt--------aag----taattttccaattctcccttctggaccagaactttcccagctgctcttacaattgtgtgaagtctaatccctagaataaattttttatttcataatactcttagttgatctgctcctccaactaactcctCCAGCTTGGGGATGATTCCT---TAACAGAAATCATCCCCAAGTTACACAC-AGGAAAATAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11356941 304 -  29834108 AGCTACTC-TCTCAGGGAACTTTTTATTGGtccaagatgaagaacaagttgctgtctttggcccttgtta-tcactaaaaaagaggtcc-------------------------------------------------------------------------------------------------------------accgctg----ccggtgctttaggaggaatggttagtgacttaagtaactaag----taattttcccatgctcccttctggactagaactttcccagctgctctcacaattgtgtggagtctgattcctagaataaattttttatttcatattactcttagttga-ctgctcctccaaatg-------------------GTTTCCT---TAACAAGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       811891 302 -   1015025 ACCTACTG-TCTCAGGGAACTTTTTATTGGtccaaggtgaagaacaagttgctctctttgacccttgtta-tcactaagaaagaggtcc-------------------------------------------------------------------------------------------------------------accac-g----ccagtgctttaggaggagtggttagtgacttaagtaactaag----taattttcccatgctcccttctggaccagaactttcccagctgctctcacaattgtatggagtctgattcctagaataaa-tttttatttcatattactcttagttga-ctgctcctccaaatg-------------------GTTTCCT---TAACAAGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i cebCap1.NW_016107911v1    C 0 I 4
s aotNan1.NW_018488218v1      1831176 303 -   2295209 ACCTACTG-TCTCAGGGAACTTTTTATTGGtctaagatgaagaacaagttgctctctttgacccttgtta-ttattaagaaagaggtcc-------------------------------------------------------------------------------------------------------------accgctg----ccagtgctttaggaggaatggttagtgacttaagtaac-aag----taattttcccatgctcccttctggaccagaactttcccagctgctctcacaattgtgtggagtccaattcctagaataaattttttatttcatattactcttagttga-ctgctcctccaaatg-------------------GTTTCCT---TAACAAGAATCATCCCCAAGTTACACAC-AGGAAAATAT
i aotNan1.NW_018488218v1    C 0 I 4
s micMur3.chr21               2946319 302 +  31815103 ACCTACCA-TCTTAGTGAAATTTTTATTGGTCCAAGATGAAGAAAAATTTGCTCTCTCTTGCCCTTGTTATTTAATAAGAAAGAGgtcc-------------------------------------------------------------------------------------------------------------gcccctt----ccagtgcttcagtaggactggttagtaattt--------aattctctaactttccaatccttacttctggacctaaactttccaagctgctgtcacaattatgtaaagtctgcttcctataataaatcccttatttcataacactcttagttgatctgcttctccaaatg-------------------GTTTCCT---TGACAGGAACCATCCTCGAGTTACACAT-AGAAAAATAT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4534043 413 -  12054995 ACCTACCA-CCTTATTGAAATTTTTAGTGGtccaagatgaagaacaagttgctctctctggctcttgtta-ctaataagaaagaagTCCAggatggtgcctgtggctcaaaggagtagggtgctggccccatataccagaggtggtgggttcaaacccaaccctggccaaaaaaaaaacaaaaaAAAACCAGAAgcctatccctg----ccagtgctttaggagaactggttagtaactt--------aattctctaattttccaatccgtccttctggacctaaacattgcaaactgttcttgcaattgtttaaagtctgcgtcctataataaatcccttatttcataatgtttttagttgatctgctcctccaaatg-------------------GAGGAGGAGATGACAGGAACCATCTTCAAGTTACACAT-AGAAAAATAT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19695268 296 +  45876710 GCCCACCA-TCTCAGTGAGGTTTTTAGAGGTCCAAGATGAAGAATAATT---TTTCTTTATCCCTCCTTA-TTACTAAGAAAGAGgttc-------------------------------------------------------------------------------------------------------------acccctgttcaccagtgct---gcagaactggtaagtctcat--------aattctctaattctccaactctccctcctgaacttaaattttcc-agcttgtctcacaattgtgtg--gtctgattcctataataaatcctttatttcgtaacacttatagttgctctacttctctaaatg-------------------TTTTCCT---AGACAGAAACAATGCCTGTGCCACTCAT-GGGAAAATAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             894448 296 -   1687904 ATCTACTGATCGCAGCAAAGTTTTAAAGGGtccaaggtgaaggacaaactgctctctctggcccttctta-tcacta--agaaagaCtc-------------------------------------------------------------------------------------------------------------caccagg----ccagtgcttcagggggaccagttcgtggctt--------aaatctctaggtctccaattcccatttctgtaccttaactttcccatctcctcccacaattatgtggagcctgattcctataataag-tccttagttcataactctcatagctgctctgcttctccaacca-------------------aatcc-----tgacag--aCCATCCCCATGTTACACACTGGGAAAAAAT
i dasNov3.JH562883          I 879 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I

a score=253702.000000
s hg38.chr12_GL383549v1_alt     32396 33 +    120804 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
s panTro5.chr12              62727298 33 + 137163284 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854001 33 + 135337776 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069291 33 -  32808036 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253190 33 +  34552619 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568696 33 - 133663169 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968213 33 - 137757926 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1345995 33 -   7948249 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246740 33 -  10730278 ACAGAAGAGTCAAAGGGCTAGCTCTTGGTACTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737670 33 - 128539186 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132776 33 +    435186 ACAGAAGAGTCAAAGGGCTAGCTCTTGGTACTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521047 33 +   9309688 ACAGAAGAGTCAAAGGGCTAGCTCTTTGTACTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357245  4 -  29834108 --------------------GTTC---------
i saiBol1.JH378123          C 0 C 0
s micMur3.chr21               2946621 33 +  31815103 ACAAAAGAATCAATGAGCTAGTCATTTATCCTT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4534456 33 -  12054995 AGAAAAAAGTCAATGAGCTAGTCATTTATCCTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19695564 33 +  45876710 ACAAAAGAATCAATGAGCCAGTCATCTGGGCTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             894744 33 -   1687904 GTAGGTGAGTCCATGAGCAACTCATCCCTGTTT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1831479  4 -   2295209 I
e cebCap1.NW_016107911v1       812193  4 -   1015025 I

a score=680235.000000
s hg38.chr12_GL383549v1_alt     32429 59 +    120804 CCAGGAACTAAACTTCAGATCTTACAACCATGGCCTGGAGAG----CCTTCCATAACCCACTA
s panTro5.chr12              62727331 59 + 137163284 CCAGGAACTAAACTTCAGATCTTACAACCATGGCCTGGAGAG----CCTTCCATAACCCACTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854034 59 + 135337776 CCAGGAACTAAACTTCAGATCTAACAACCATGGCCTGGAGAG----CCTTCCATAACCCACTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069324 59 -  32808036 CCAGGAACTAAACTTCAGATCTTACAACCATGGCCTAGAGAG----CCTTCCATAACCCACTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253223 59 +  34552619 CCAGGAACTAAACTTCAGATCTTGCAACCATGGCCTAGAGAG----ACTTCCATAACCCACTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568729 63 - 133663169 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968246 63 - 137757926 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346028 63 -   7948249 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246773 63 -  10730278 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737703 63 - 128539186 CCAGGAACTAAACTTCAGATCTTACAACCATAGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132809 63 +    435186 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521080 63 +   9309688 CCAGGAACTAAACTTCAGATCTTACAACCATGGTCTAGAGAGGCTTCCTTCCAAAACCCACTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357249 59 -  29834108 CCAGGAACTAAACTTCAACTCTTACAACCATGTCCTAGAGAG----CCTTCCATAACCCACTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812197 59 -   1015025 CCAGGAACTAAACTTCAACTCTTACAACCATGTCCTAGAGAG----CCTTCCATAACCCACTA
i cebCap1.NW_016107911v1    I 4 C 0
s aotNan1.NW_018488218v1      1831483 59 -   2295209 CCAGGAACTAAACTTCAACTCTTAAAACCATGTCCTAGAGAG----CCTTCCATAACCCATTA
i aotNan1.NW_018488218v1    I 4 C 0
s micMur3.chr21               2946654 59 +  31815103 CCAGGAACTAAACGTCAAATTTCACAAGCATGGTCTAGACAG----CCTTCCATAACCCACTA
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4534489 56 -  12054995 CTAAGATT---GCGTCAAATTTCACAACGATGGTCTAGAGAG----ACTTCCATAACCCACTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19695597 55 +  45876710 CCAGAAACTAAACATCAGAACTCACAAAGATGGTCTAG--------CCTTCAATTACCCACTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             894777 57 -   1687904 TCAGGAACCAAACGTCACTTCTCGC--TCACGGTCCAGGGAG----CTGTTAAGTCCACGCTA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I

a score=121191.000000
s hg38.chr12_GL383549v1_alt     32488 12 +    120804 GGTTAGTGTTTT
s panTro5.chr12              62727390 12 + 137163284 GGTTAGTGTTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854093 12 + 135337776 GGTTAGTGTTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069383 12 -  32808036 GGTTAgtgtttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253282 12 +  34552619 GATTAgtgtttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568792 12 - 133663169 GATTAgtgtttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968309 12 - 137757926 GATTAgtgtttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346091 12 -   7948249 GATTAgtgtttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246836 12 -  10730278 GATTAgtgtttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737766 12 - 128539186 GATTAgtgtttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132872 12 +    435186 GATTAgtgtttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521143 12 +   9309688 GATTACTGTTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357308 12 -  29834108 GATTAGTGTTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812256 12 -   1015025 GATTAGTGTTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1831542 12 -   2295209 GATTAGTGTTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2946713 11 +  31815103 GATTAGT-ATTT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4534545  9 -  12054995 GATTA---ATTT
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             894834 12 -   1687904 Cattaattttct
i dasNov3.JH562883          C 0 I 1290
e mm10.chr6                   2383684 866 - 149736546 I
e canFam3.chr27              19695652  0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I

a score=1366477.000000
s hg38.chr12_GL383549v1_alt     32500 125 +    120804 CGGtttgtttgtttgtggt-----gagaacatttaacatgagatctgtcctctggac--aaaattttaaacgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttact
s panTro5.chr12              62727402 125 + 137163284 TGGtttgtttgtttgtggt-----gagaacatttaacatgagatctgtcctctggac--aaaattttaaatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854105 125 + 135337776 TGGtttgtttgtttgtggt-----gagaacatttaacatgagatctgtcctctggac--aaaattttaaatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069395 124 -  32808036 tgg-ttgtttgtttgtggt-----gagaacatttaacatgagatctgtcctctggac--aaaattttaaatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253294 125 +  34552619 tggtttgtttgcttgtggt-----gagaagatttaacatgagatctgtcctctggac--aaaattttaaatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568804 125 - 133663169 tggtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968321 125 - 137757926 tggtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346103 125 -   7948249 tggtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246848 125 -  10730278 tggtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737778 125 - 128539186 tggtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctatacagcagatctctaaaacttacc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       132884 125 +    435186 tggtttgtttgattgtggt-----gagaacatttaacatgagatctgtcctctggac--agaactttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521155 125 +   9309688 TGGtttgtttgcttgtggt-----gagaacatttaacatgagatctgtcctctggac--agaattttatatgcacactacagt-attgtaaactataggcaccaagctgtacagcagatctctaaaacttacc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357320 125 -  29834108 TGAtttgtttgtttgtggt-----aagaacatttaacatgtgatccgtcctctggac--aaaattttaaatgtacaatacagt-attgtaaactataggcaccaagctgtacagcagatttctaaaacttatg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812268 125 -   1015025 TGGtttgtttgtttgtgtt-----aaggacatttaacatgagatacgtcctctggac--aaaattttaaatgtgcaatacagt-attgtaaactataggcaccaagctgtacagcagatttctcaaacttacc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1831554 125 -   2295209 TGGtttgtttgtttgtggt-----aagaacatttaacacgagatctgtcctctggac--aaaattttaggtgtacaatacagt-attgtaaactataggcaccaagctgtacagcagatttctaaaaatcacc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2946724 126 +  31815103 TGGTTTGTTTGTttgtggt-----aagaacacttaacatgagatctatcctcttgac--aaaattttatgtgcacaatacagtaattgtaaactgtaggcaccaagttgtacagcagatctgtagaacttaat
i micMur3.chr21             C 0 I 66
s otoGar3.GL873576            4534554 131 -  12054995 TGGtttgtttgtttgtggtaaaaaaaaaaaatttaatatgagatctatcctcttcactggaagttttaagtacacaaaccggt-attataaactataggcaccaagttgtacagtacatct-tagagcttatt
i otoGar3.GL873576          C 0 I 4
e mm10.chr6                   2383684 866 - 149736546 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             894846 1290 -   1687904 I

a score=510192.000000
s hg38.chr12_GL383549v1_alt     32625 56 +    120804 ttgaaaaactgaaactatatacttgctgaacaactactccctatttttctttccct
s panTro5.chr12              62727527 56 + 137163284 ttgaaaaactgaaactatatacttgctgaacaactattccctatttttctttccct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854230 56 + 135337776 ttgaaaaactgaaactatatacttgctgaacaactactccctatttttctttccct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069519 56 -  32808036 ttgaaaaactgaaactatatacttgctgaacaactactccctatttttctttccct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253419 56 +  34552619 ttgaaaaactgaaactatatacttgctgaacaacaactccctatttttctttccct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568929 56 - 133663169 ttgaaaaactgaaactatatacttgccgaacaacgactccctatttttctttccct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968446 56 - 137757926 ttgaaaaactgaaactatatacttgccgaacaacgactccctatttttctttccct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346228 56 -   7948249 ttgaaaaactgaaactatatacttgccgaacaacgactccctatttttctttccct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8246973 56 -  10730278 ttaaaaaactgaaactatatacttgtcgaacaacaactccctatttttctttccct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737903 56 - 128539186 ttgaaaaactgaaactatatacttgccgaacaacaactccctatttttctttccct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       133009 56 +    435186 ttgaaaaactgaaactatatacttgtcgaacaacaactccctatttttctttccct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521280 56 +   9309688 ttgaaaaactgaaactatatacttgccgaacaacaactccctatttttctttccct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357445 49 -  29834108 ttaaataactgaa-------acttactgaacaacaactccccatttttctttccct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812393 56 -   1015025 ttgaataactgaaactatatacttaatgaacaacaactccccatttttctttccct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1831679 56 -   2295209 ttgaataactgaaactatatacttactgaacaacaactccccatttttctttccct
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4534689 55 -  12054995 ttgtgtaggtgcaactatatacccatcaaatggcaagtcctcatttccccctccc-
i otoGar3.GL873576          I 4 C 0
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2946850 66 +  31815103 I
e canFam3.chr27              19695652  0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             894846 1290 -   1687904 I

a score=4999706.000000
s hg38.chr12_GL383549v1_alt     32681 513 +    120804  
s panTro5.chr12              62727583 513 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854286 510 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3069575 513 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253475 514 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104568985 496 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968502 496 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346284 495 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8247029 496 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100737959 498 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       133065 496 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521336 494 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357494 505 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812449 505 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1831735 503 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2946916 510 +  31815103  
i micMur3.chr21             I 66 I 1690
s otoGar3.GL873576            4534744 615 -  12054995  
i otoGar3.GL873576          C 0 I 3
e mm10.chr6                   2383684 866 - 149736546 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             894846 1290 -   1687904 I

a score=4218722.000000
s hg38.chr12_GL383549v1_alt     33194 460 +    120804 gttttg----------taatagccaccctaacaggtgtgacgtgatatcttattatagttttgagttgcatttccctgatgattagtgatgctgcgtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctctcatcaaatcctttgtccattattaaaattgggttatttgc---ttttttgacattgagttgtaggaggtccttatttgtttt-ggatattaacctcttatcagatatataatttacagatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagtttggtataatgccacttaccttttt-ttgcttttgttgcttgtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgtcctatgttttctcccaggagttattctatttcagttctta
s panTro5.chr12              62728096 460 + 137163284 gttttg----------taatagccaccctaacaggtgtgacgtgatatcttattatagttttgagtttcatttccctgatgattagtgatgctgtgtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctctcatcaaatcctttgtccattattaaaattgggttatttgc---ttttttgacattgagttgtaggaggtccttatttgtttt-ggatattaacttcttatcagatatataatttacagatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagtttggtataatgccacttaccttttt-ttgcttttgttgcttgtgatttttggtgtcatagccaagaaa-tattgctgagcccaatgtcataagattttgtcctatgttttctcccaggagttattctatttcatttctta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60854796 460 + 135337776 gttttg----------taatagccaccctagcaggtgtgacgtgatatcttattacagttttgagttgcatttccctgatgattagtgatgctgcgtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctctcatcaaatcctttgtccattattaaaattgggttatttgc---ttttttgacattgagttgtaggaggtccttatttgtttt-ggatattaacctcttatcagatatataatttacagatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagtttggtataatgccacttaccttttt-ttgcttttgttgcttgtgatttttggtgtcatatcaaagaaa-tattgctgagcccaatgtcataagattttgtcctatgttttctcccaggagttattctatttcagttctta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3070088 460 -  32808036 gttttg----------taatagccaccctaacaggtgtgacgtgatatcttattatagttttgagttgcatttccctgatgattagtgatgctgcgtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctctcattaaatcctttgtccattattaaaattgggttatttgc---ttttttgacattgagttgtacgaggtccttatttgtttt-ggatattaacctcttatcagatacataatttacagatatttttctcccattctgtagattgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagtttggtataatgccacttaccttttt-ttgcttttgttgcttgtgatttttggtgtcatatccaagaaa-tattgctgaggctaatgtcataagattttgtcctatgttttctcccaggagttattctatttcagttctta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7253989 460 +  34552619 -ttttg----------taatagccaccctaacaggtgtgatgtgatatcttattatagtttttagttgcatttccctgatgattagtgatgttgcatgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctctcaacaaatcctttgtccattattaaaattgggttatttgc--tttttttgacattgagttgtaggaggtccttatttgtttt-ggatattaacctcttatcagatacataatttacagatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagtttggtataatgccacttatctgttt-ttgcttttgttgcttgtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgtcctatgttttctcccgggaggtattctatttcagttctta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104569481 460 - 133663169 tttttg----------taatagccaccctaacaggtgtgaggttatatcttattatagttttgagttgcattttcctgatgactagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaatcctttgtccattattaaaattgggttatttga---ttttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaaccttttatcagacatataatttacaaatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttacctgttt-ttgcttttgttgctagtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108968998 460 - 137757926 tttttg----------taatagccaccctaacaggtgtgaggttatatcttattatagttttgagttgcattttcctgatgactagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaatcctttgtccattattaaaattgggttatttga---ttttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaaccttttatcagatatataatttacaaatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttacctgttt-ttgcttttgttgctagtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1346779 460 -   7948249 tttttg----------taatagccaccctaacaggtgtgaggttatatcttattatagttttgagttgcattttcctgatgactagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaatcctttgtccattattaaaattgggttatttga---ttttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaaccttttatcagatatataatttacaaatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttacctgttt-ttgcttttgttgctagcgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8247525 459 -  10730278 tttttg----------taatagccacactaacaggtgtgaggttatatcttattatagttttgagttgcgtttccctgatgattagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaaccctttgtccattattaaaattgggttatttg----ctttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaacctcttatcagatatataatttacaaatatttttctcctattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttatctgttt-ttgcttttgttgctagtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100738457 460 - 128539186 tttttg----------taatagccaccctaacaggtgtgaggttatatcttattatagttttgagttgcgttttcctgatgactagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaatcctttgtccattattaaaattgggttatttga---ttttttgtcattgagttgtaagaggtccttatttgtttt-ggatattaacctcttatcagatatataacttacaaatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgtggtgcagaaggtttttagcttggtataatgccacttatctgttt-ttgcttttgttgctagtgatttttggtgtcatatccaagaaa-tattgctgagtccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       133561 459 +    435186 tttttg----------taatagccacactaacaggtgtgaggttatatcttattatagttttgagttgcgtttccctgatgattagtgatgctgagtgttttgatatatatctgttg-gacatttgtatgtcttctgtagagaaacctgtcttcaaaccctttgtccattattaaaattgggttatttg----ctttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaacctcttatcagatatataatttacaaatatttttctcctattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttatctgttt-ttgcttttgttgctagtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttctatgttttctcccaggagttattcagtgtcaggtctta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3521830 460 +   9309688 tctttg----------taatagccaccctaacaagtgtgaggttatatcttattatagttttgagttgtgtttccctgatgattagtgatgctgagtgttttgataaatatctgttg-gacatttgtatgtcttctgtagagaaacctatcttcaaatcctttgtccattattaaaattgggttatttgc---ttttttgtcattgagttgtaggaggtccttatttgtttt-ggatattaacctcttaacagatatataatttacaaatatttttctcccattctgtaggttgccttttga--ccattga----ttcttttgcagtgcagaaggtttttagcttggtataatgccacttatctgttt-ttgcttttgttgcttgtgatttttggtgtcatatccaagaaa-tattgctgagcccaatgtcataagattttgttttatgttttctcccaggagttattcagtgtcaggtctta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11357999 456 -  29834108 ttttag----------taatagccaccctaacaagtatgaagtgatatcttattatagttttgatttgcatttccctgatga-tagtgatgctgagtactttg--atgtgtctgttg-gacatttgtatgtcttctgtgaagaaatgtctcttcagatcctttgtccattattaaaattgggttacttgc---tttgttgccactgagttgtaggaggtctttgtttattttgggaaattaacctctaatcagatatataatttgcaaatatttttctcccattctgtaagttgccttttga--ctattga----ttctttggcagtgcagaaggtttttagtttgatacaatgccacttgcctgttt-t--cttttgttgcttgtgataattggtgtggtatccaagaaa-tatcgttgagtacaatgttataagattttgtcctatgttttctcacagaagttattcaatttcaggtctca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       812954 455 -   1015025 ttttag----------tgataaccaccctaacaggtatgaagtgacatcttattatagttttgatttgcatttccctgatga-tagtgatgctgagtattttg--atatgtctgttg-aacatttgcatgtcttctgtgaagaaatgtctcttcagatcctttgtccattattaaaattgggttacttgc---tttgttgccactgagttgtaggaggtctttatttgtttt-ggaaattaatctcttatcagatatataatttgcaaatatttttctcccattctgtaggttgccttttga--ccattga----ttctttggcagtgcagaaggtttttagtttgatataatgccacttacctgttt-t--cttttgttgcttgtgataattggtgtgatatccaagaaa-tattgttgagcccaatgttataagattttgtcctatgttttctcccagaagttattcaatttcaggtctca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1832238 457 -   2295209 ttttag----------taatagccaccttaacaggtatgaagtgatatcttattatagttttgacttgcatttccctgatgc-tagtgatgctgagtattttgatatgtgtctgttg-gacatttgtatgtcttctgtgaagaaatgtctcttcagatcctttgtccattattaaaattgggctacttgc---tttgttgccactgagttgtaggaggtctttatttgtttt-tgaaattaacctcttatcagatatatgatttgcaaatatttttctcccattctgtaggttgccttttga--ccattga----ttctttggcagtgcagaaggtttttagtttgatataatgccacttgcctgttt-t--cttttgttgcttgtgataattagtgtgatgtccaagaaa-tattgttaagcccaatgttataagattttgtcctatgttttctcccagaagttattcaatttcaggtctca
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4535362 458 -  12054995 gttttgttgttgttgttaatggccattctaagaggtatgaggtgatagctcatcatggttttgatttgtatttccctgatgattaataacatt-----------taagcatcttatgagtcatttgtatgtcttctttgagaatacctat--tcaagttc-atgcccatt-ttttaatcatgttatttgcatgttatttgctgttgagttgtaggaa----ttatatatttt-ggatgttaaccctttatcatatgtatagtttgcaaata-ttttcttccatttta-agtttgctttttcatgctgttgattatttcctttgctgtgcagaa-gtttttagtttgatgtaatcctacttgtctttttgttgctgttgttatttgtactttttc-tgtcatattcaagaaactactgctaagtccaatgtcctaaaactttgctct-tattttcttctaggtgttatagagcttcaggtctta
i otoGar3.GL873576          I 3 I 1297
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             894846 1290 -   1687904 I

a score=4098790.000000
s hg38.chr12_GL383549v1_alt     33654 512 +    120804  
s panTro5.chr12              62728556 508 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60855256 505 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3070548 525 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7254449 505 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104569941 501 - 133663169  
i rheMac8.chr11             C 0 I 593
s macFas5.chr11             108969458 501 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1347239 501 -   7948249  
i macNem1.NW_012011422v1    C 0 I 593
s cerAty1.NW_011999477v1      8247984 506 -  10730278  
i cerAty1.NW_011999477v1    C 0 I 3855
s chlSab2.chr11             100738917 506 - 128539186  
i chlSab2.chr11             C 0 I 593
s manLeu1.NW_012101287v1       134020 506 +    435186  
i manLeu1.NW_012101287v1    C 0 I 593
s colAng1.NW_012114364v1      3522290 505 +   9309688  
i colAng1.NW_012114364v1    C 0 I 595
s saiBol1.JH378123           11358455 502 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       813409 501 -   1015025  
i cebCap1.NW_016107911v1    C 0 I 4471
s aotNan1.NW_018488218v1      1832695 503 -   2295209  
i aotNan1.NW_018488218v1    C 0 I 5630
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e dasNov3.JH562883             894846 1290 -   1687904 I

a score=1391.000000
s hg38.chr12_GL383549v1_alt     34166 18 +    120804 tc---------tttttttttttttttt
s panTro5.chr12              62729064 17 + 137163284 t----------tttttttttttttttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60855761 11 + 135337776 t----------------tttttttttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3071073  8 -  32808036 t-------------------ttttttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7254954 20 +  34552619 tctg-------tttttgtttttgtttt
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108969959 24 - 137757926 ---actgccaaatattgtattcttttt
i macFas5.chr11             C 0 I 569
s saiBol1.JH378123           11358957 24 -  29834108 ---attgccaaatattttattcttttt
i saiBol1.JH378123          C 0 I 5700
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652  0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=303469.000000
s hg38.chr12_GL383549v1_alt     34184 350 +    120804 tttttgagatggagtctcactctgtcccccaggctggagtgccgtgctgcaatcttggctcactgcaaactccacctcccaggttcacaccattctcctgcctcagcctccccagtagttgggactacaggtgcctgccaccatgcctggctaatttttcattttcatatttttagtagagacagggtttcaccatattagccaggatggtctcatactcctgacctcatgatccgcccacctcggcctcccaaagtgctgggattacaggcatgagccaccgggcctggccctccttggttaagtttattgccaaatattgtattctttttgatactcttgaaaatagc
s panTro5.chr12              62729081 336 + 137163284 tttttgagacggagtctcactctgtcccccaggctggagtgcagtgctgcaatcttggctcactgcaaactccacctcccgggttcacgccattctcctgcctcagcctccccagtagttgagaccacaggtgcctgccaccatgcccagctaatttttcattttcatatttttagtagagatggggtttcaccatattagccaggatggt--------------ctcatgatctgcccacctcagcctcccaaagtgctgggattacaggcatgagccaccgggcctggccctccttggttaagtttattgccaaatattgtattctttttgatactcttgaaaatagc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60855772 349 + 135337776 tttttgagacggagtctcactctgtcccccaggctggagtgctgtgctgcaatcttggctcactgcaaactccacctcccaggttcacaccattctcctgcctcagcctccccagtagttgggactacaggtgcctgccaccatgcctggctaatttttcattttcatatttttagtagagatggggtttcaccatattagccaggatggtctcatactcctgacctcatgatccgcccacctcggcctcccaaagtgctgggattacaggcatgagccaccaggcctggccctccttggttaagtttattgccaaatattgtattctttttgatact-ttgaaaatagc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3071081 350 -  32808036 tttttgagacggagtctcactctgtcccccaggctggagtgcagtgctgcaatcttggctcactgcaaactccacctcctgggttcacgccattctcctgcctcagcctccccaatagttgggactacaggtgcctgccaccatgcctggctaatttttcattttcatatttttagtagagacggggtttcaccatattagccaggatggtctcatactcctgacctcatgatccgcccacctcggcctcccaaagtgctgggattacaggcatgagccaccgggcctggccctccttggttaagtttattgccaaatattgtattctttttgatactcttgaaaatagc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7254974 350 +  34552619 tttttgagatggagtttcgctctgtcccccaggctggagtgcagtggcgcaatctcggctcacttcaagctccgcctcccgggttcacgccattctcctgcctcagcctccccagtagttgggactacaggtgcctgccaccacacccagctaatttttcattttcatatttttagtagagatggagtttcaccgtgttagccaggatggtctcaatctcctgacctcatgatccacccatctcggcctcccaaagtgctgggattacaggcgtgagccaccgggcctggccctccttggttaagtttattgccaaatattgtattctttttgatactcttgaaaatagc
i nomLeu3.chr23             C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5036825 9106 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=767434.000000
s hg38.chr12_GL383549v1_alt     34534 666 +    120804  
s panTro5.chr12              62729417 667 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60856121 666 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3071431 666 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7255324 631 +  34552619  
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5045931 636 +  13104022  
i proCoq1.NW_012140524v1    I 9106 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2383684 866 - 149736546 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=48835.000000
s hg38.chr12_GL383549v1_alt     35200 40 +    120804 ttttgcatccatg-tgccttagagatatgggcctgtag-ttt
s panTro5.chr12              62730084 40 + 137163284 ttttgcatccatg-tgccttagagatatgggcctgtag-ttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60856787 40 + 135337776 ttttgcatccatg-tgccttagagatatgggcctgtag-ttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072097 40 -  32808036 ttttgcatccgtg-tgccttagagatatgggcctgtag-ttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7255955 41 +  34552619 ttttgcatctgtg-tgccttagagatatgggcctgtagcttt
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5046567 40 +  13104022 cttcacctctatg-ttcatcagagatactggcctgtag-ttt
i proCoq1.NW_012140524v1    C 0 I 117
s mm10.chr6                   2384550 41 - 149736546 TTGTGCTTCTCTGTTGACTGAAGGCCACTGACCTGTGC-TTC
i mm10.chr6                 I 866 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652  0 +  45876710 C
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=102414.000000
s hg38.chr12_GL383549v1_alt     35240 109 +    120804 cttttcttatagtgtcttggtctcactttggtat-cagcatcatgcttgctgcataaaatgagtattgagatgttcc-----cttcagttttgggaagagtttaagaagcacttg
s panTro5.chr12              62730124 109 + 137163284 cttttcttatagtgtctttgtctcactttggtat-cagcatcatgcttgctgcataaaatgagtattgagatgttcc-----cttcagttttgggaagagtttaagaagcacttg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60856827 109 + 135337776 cttttcttatagtgtcttggtctcactttggtat-cagcatcatgcttgctgcataaaatgagtattgagatgttcc-----cttcagttttgggaagagtttaagaagcacttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072137 109 -  32808036 cttttcttatagtgtctttttctcactttggtat-cagcatcatgcttgctgcataaaatgagtattgagatgttcc-----cttcagttttgggaagagtttaagaagcacttg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7255996 109 +  34552619 cttttcttatagtgtctttgtctcactttggtat-cagcatcatgcttgctgcataaaatgagtactgagatgttcc-----cttcagttttgggaagagtttaagaagcacttg
i nomLeu3.chr23             C 0 C 0
s mm10.chr6                   2384591  85 - 149736546 CTTTTCCTATACAGTCT---------TCTGCTATACAGTCTTCTGCT------------------ATGAGGTGCTTCATCTTCTTCCACTTGAGGAAGCATTTAAGAGG-ATT--
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e proCoq1.NW_012140524v1      5046607 117 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=270741.000000
s hg38.chr12_GL383549v1_alt     35349 206 +    120804 tgctaattcttctttaaatgtttggtagaattcaccagctaagccatctggtcctagagttttctttgttgcatacaacctaccaaaattgaatcatgaaggaacagaaaacttaaccagacc--aatagcaaataataagattgagtcagtaatcaaaatcttcacaacaaagaaaagccc--agaccagatggcttcattaccaaCtg
s panTro5.chr12              62730233 205 + 137163284 tgttaattcttctttaaatgtttggtagaattcaccagctaagccatctggtcctagacttttctttgttgcatacaacc-accaaaattgaatcacgaaggaacagaaaacttaaccagacc--aatagcaaataataagattgagtcagtaatcaaaatcttcacaacaaagaaaagccc--agaccagatggcttcattaccaaCtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60856936 206 + 135337776 tgttaattcttctttaaatgtttggtagaattcaccagctaagccatctggtcctagagttttctttgttgcatacaacctaccaaaatttaatcatgaaggaacagaaaacttaaccagacc--aatagcaaataataagattgagtcagtaatcaaaatcttcacaacaaagaaaagccc--agaccagatggcttcattaccaaCtg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072246 206 -  32808036 tgttaattcttctttaaatgtttggtagaattcaccagctaagccatctggtactagacttttctttgtcgcatacaacctaccaaaattgaatcatgaaggaacagaaaacttaaccagacc--aatagcaaataataagattgagtcagtaatcaaaatcttcacaacaaagaaaagccc--agaccagatggcttcattaccaaCtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256105 199 +  34552619 tgttaattcttctttaaatgtttggtagaattcaccagctaagccatctggtGGTAGG-------TTGTTGcatacaacctaccaaaattgaatcatgaaggaacagaaaacttaaccagacc--aatagcaaataataagattgagtcagcaatcaaaatcttcacaacgaagaaaagccc--agaccagatggcttcattACCAACtg
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5046724 208 +  13104022 tggtaattcttctttaaatgtttgatagaattcatcagtgaagccacctggtcctggacttttctttattgcatacaaactaccaagactgaatcatgaagaaatagaaatcttgaccagatc--aataacaaataatgagattaaatcagtaatcaaaatcattgcaacaaagaaaagccctaggaccagatggtttcattagCCATtg
i proCoq1.NW_012140524v1    I 117 C 0
s mm10.chr6                   2384676 171 - 149736546 TACCGATGGTTCTTTAAA---------------------------ATCTGGTTCTAGACTTGGCCTTGT---acacaacctaccca---tgagtcatgaaacaacaggaaac--aaccaaaatagaataatggataatgaaattgagtcagtaaacaaaactcttctagtaagaaacctcca--gaaTGGGACAGTTCTGTTATGTA--G
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e canFam3.chr27              19695652   0 +  45876710 C
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=400887.000000
s hg38.chr12_GL383549v1_alt     35555 242 +    120804 tattagctttctattgctgtgtaccaaattaccactaatt---t-ttggcttaaaccaacacagtttactatctcacaccttctatgggtcaggaatttggtatgttttagctgagttg--tctgcacagagtcttataagcctgaaatcaagatgtcagctgggactctgttatcatctgaggctcaaggtctttttgtgagttcaatgattgttagcagaattctattccttgtggttgtaggact
s panTro5.chr12              62730438 242 + 137163284 tattagctttctattgctgtgtaccaaattaccactaatt---t-ttgacttaaaccaacacaacttactatctcacaccttctatgggtcaggaatttgctatgttttagctgagttg--tctgcacagagtcttataagcctgaaatcaagatgtcagctggaactctgatattatctgaggctcaaggtcttttcgtgagttcaatgattgttagcagaattctattccttgtggttgtaggact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857142 240 + 135337776 tattagctttctattgctgtgtaccaaattaccactaatt---t-ttggcttaaaccaacacaatttactatctcacaccttctatgggtcaggaatttggtatgttttagctgagttg--tctgcac--agtcttataagcctgaaatcaagatgtcagctgggactctgatatcatctgaggctcaaggtctttttgtgagttcaatgattgttagcagaattctattccttgtggttgtaggact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072452 242 -  32808036 tattagctttctattgctgtgtaccaaattaccactaatt---t-ttggcttaaaccaacacaatttactatctcacaccttctatgggtcaggaatttggtatgttttagctgagttg--tctgcacagagtcttataagcctgaaatcaagatgtcagctgggactctgatatcatctgaggctcaaggtctttttgtgagttcaatgatcgttagcagacttctattcctcgtggttgtaggact
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256304 242 +  34552619 tattagctttctattgctgtgtaccaaattaccactaatt---t-ttggcttaaaccaacacagtttactatctcataccttctgtaggtcaggaatttggtatgttttagctgagttg--tctgctcagagtcttataagcctgaaatcaagatgtcagctgggactctgatatcatctgaggctcaaggtctttttgtgagttcaatgattgttagcagaattctattccttgtggttgtaggact
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5046932 242 +  13104022 tattagttttctattgctatgtacaaatttatcacaaact---t-ttggcttaaaccaacacaatttattatctcacagcttctgtgggtcaggagtttggcctggtatagctaagtct--tctactcagaatctcataagcctgaaatcaaggtgtcatcttggacgctgatatcatctgaggcttggggtctttctctgagcttactgatggttaggataattcagttccttgtggttgtaggact
i proCoq1.NW_012140524v1    C 0 I 38
s mm10.chr6                   2384847 233 - 149736546 TCTGAATTTTCTacaact---------attaccacaaattgtac-tgagtttgaaataatcaagccatttatttagcagttttgttgggtcatgagcctatgacatttcgactggatct--tctgctcatagtctgaacagtctggaat-gggctatcagctgaaactgtggtgtcatctgagactctgcatactcttctggcctcactaattgttggtaggaatcagttccttgaaggtctaaga--
i mm10.chr6                 C 0 I 8
s canFam3.chr27              19695652 244 +  45876710 CAGTCgttttctattgct-tgcagcaaattgccacaaatt---taatagcttaaactaatacagtttgttgttttacagcttctgtggggcaggagtctggcaccttttagctgagtcgcctctgctcagagtcccatagggctaaaatcaaggtatcagctgggactgtgatctcatctgaggctcagggtcctcttctgaactcactggttatttgccatagctaattcctcactgtggtgggact
i canFam3.chr27             C 0 I 12
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=24604.000000
s hg38.chr12_GL383549v1_alt     35797 46 +    120804 ttcttactgactgtcagccagaggctgatctcacattctagaggcc
s panTro5.chr12              62730680 26 + 137163284 ttcttactgactgtcagccagaggct--------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857382 26 + 135337776 ttcttactgactgccagccagaggct--------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072694 26 -  32808036 ttcttactgactgtcagccagaggct--------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256546 26 +  34552619 ttcttactgactgtcagccagaggct--------------------
i nomLeu3.chr23             C 0 C 0
s mm10.chr6                   2385088 25 - 149736546 tttcagcttgctggcattcagggtt---------------------
i mm10.chr6                 I 8 C 0
s canFam3.chr27              19695908 46 +  45876710 ttctcgctggctgtcagcagggggctgctctcagaccccagaggcc
i canFam3.chr27             I 12 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e proCoq1.NW_012140524v1      5047174 38 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=176767.000000
s hg38.chr12_GL383549v1_alt     35843 111 +    120804 gatctcacattctagaggccaccctcggtttcctgccacatagtcctctctataacatggtaatttactttttcaa-------ggccagt-----agggaaagcacttctcttgcttcaaatc
s panTro5.chr12              62730706 111 + 137163284 gatctcacattctagaggccaccctcggtttcctgccacatagtcctctccataacatggtaatttactttttcaa-------ggccagt-----agggaaagcacttctcttgcttcaaatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857408 111 + 135337776 gatctcacattctagaggccaccctcggtttcctgccacatagtcctctctataacatggtaatttacttttccaa-------ggccagt-----agggaaagcacttctcttgcttcaaatc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072720 111 -  32808036 gatctcacattctagaggccaccctcggtttcctgccacatagtcctctctataacattgtaatttactttttcaa-------ggccagt-----agggaaagcatttctcttgcttcaaatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256572 111 +  34552619 gatctcacatcctagaggccaccctcggtttcctgctacatagtcctctctataacgtggtaatttactttttcaa-------gtccagt-----agggaaagcatttctcttgcttcaaatc
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5047212 116 +  13104022 gctctcagatcctagaggctatcctcagtttcctgccacataatcctctctataacatggcagtttacttcctcaa-------aaccagtaagGAAGGGAAAGCATTTCTCTTGCTTCAAATT
i proCoq1.NW_012140524v1    I 38 I 102
s mm10.chr6                   2385113  89 - 149736546 actctcagatgctagaggcaccgcacagttctct-----------ctctgtgtaacatggcaatttg---tcttaa-------ggccaac-----aggaa------tgccct--ctTCAGATC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19695954  97 +  45876710 --------------------accctcagtttcctgttacatggctctctcattaacatggcaatttgtgtctccaatttgcttttccagc-----agg-aaagcattcctcttgcttcaaatc
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=96548.000000
s hg38.chr12_GL383549v1_alt     35954  92 +    120804 tct-catgccagtctgttaaggagt----------------------cTTAACTAATATAATATTATCACAGGAA-TA-------------tt------------tgcacacaatagaatctaactaaggaggtgactatc
s panTro5.chr12              62730817  92 + 137163284 tct-cATGCCAGTCTGTTAAGGAGT----------------------CTTAACTAATATAATATTATCACAGGAA-TA-------------tt------------tgcacacaatagaatctaattaaggaggtgactatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857519  92 + 135337776 tct-cATGCCAGTCTGTTAAGGAGT----------------------CTTAACTAATATAATATTATCACAGGAA-TA-------------TT------------TGCACACAATAGAATCTAACTAAGGAGGTGACTATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072831  92 -  32808036 tct-cATGCCAGTCTGTTAAGGAGT----------------------CTTAACTAATATAATATTATCACAGGAA-TA-------------tt------------tgcacacaatagaatctaattaaggaggtgactatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256683  92 +  34552619 tct-cATGCCAGTCTGTTAAGGAGC----------------------CTTAACTAATATAATATTATCACAGGAA-TA-------------TT------------TGCACACAATAGAATCTAATTAAGGAGGTGACTATC
i nomLeu3.chr23             C 0 C 0
s mm10.chr6                   2385202  96 - 149736546 -CC-CTCACTAGTCTGTTATGGAGT----------------------TTTAAT--------TGTGAACACGGGAGCTA-------------TTGCCCATTTGTGGTGCATACTACATTGCCTAGTCCAGGTAGTTGCCCAC
i mm10.chr6                 C 0 I 5
s canFam3.chr27              19696051 128 +  45876710 tctgaaagtcagtttactaaagagcaatgtcacgctattaatttgtaattaagtaatgtcacactattataggaa-tgacacgccattacttt------------tgcatatgacataccctaatcgaagataggactatc
i canFam3.chr27             C 0 I 5
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e proCoq1.NW_012140524v1      5047328 102 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=37378.000000
s hg38.chr12_GL383549v1_alt     36046 20 +    120804 atattcgcagtccctgctca
s panTro5.chr12              62730909 20 + 137163284 atattcgcagtccctgctca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857611 20 + 135337776 ATATTTGCAGTCCCTGCTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072923 20 -  32808036 atattcgcagtccctgctca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256775 20 +  34552619 ATATTCGCAGTCCCTGCTCA
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5047430 20 +  13104022 atgttcacagattctaccca
i proCoq1.NW_012140524v1    I 102 C 0
s mm10.chr6                   2385303 20 - 149736546 ATGCTCACAGGTTCTGCCCA
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19696184 20 +  45876710 attttcacaggtcctgccca
i canFam3.chr27             I 5 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             894846 1290 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=76658.000000
s hg38.chr12_GL383549v1_alt     36066 44 +    120804 cactcaCTTTA--TTATTTTAGCATGTAGTTCATCAGGAAATAATG
s panTro5.chr12              62730929 44 + 137163284 cactcaCTTTA--TTATTTTAGCATGTAGTTCATCAGGAAATAATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857631 44 + 135337776 CACTCACTTTA--TTATTTTAGCATGTAGTTCATCAGGAAATAATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072943 44 -  32808036 cactcaCTTTA--TTATTTTAGCATGTAGTTCATCAGGAAATAATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256795 44 +  34552619 CACTCACTTTA--TTATTTTAGCATGTAGTTCATCAGGAAATAATG
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5047450 44 +  13104022 cactcaTGCTA--TTATCTTAGCCTTTAGTCCATCAGGGAATAACA
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                   2385323 42 - 149736546 GACTCAGTTT---TGTTCTTACCACTTAGTCCGTCAAGAATCGAC-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19696204 46 +  45876710 tattcaTTCTACTTCGATTCAGCATTTAGTCTACTATGGAATAACA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             896136 44 -   1687904 CAACTACTTTA--TTGCCATAGTATTCAGCCTATCAGAGAATAACA
i dasNov3.JH562883          I 1290 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e micMur3.chr21               2947426 1690 +  31815103 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=1502315.000000
s hg38.chr12_GL383549v1_alt     36110 691 +    120804  
s panTro5.chr12              62730973 690 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60857675 690 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3072987 681 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7256839 685 +  34552619  
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2949116 675 +  31815103  
i micMur3.chr21             I 1690 I 9
s proCoq1.NW_012140524v1      5047494 674 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 215
s mm10.chr6                   2385365 702 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19696250 654 +  45876710  
i canFam3.chr27             C 0 I 9
s dasNov3.JH562883             896180 694 -   1687904  
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=74223.000000
s hg38.chr12_GL383549v1_alt     36801 42 +    120804 gagaaaac----taaaa--a-----atag-gttgaacaactcacacag-ctagtt
s panTro5.chr12              62731663 42 + 137163284 gagaaaac----taaaa--a-----atag-gttgaacaactcccacag-ctagtt
i panTro5.chr12             C 0 I 1715
s panPan2.chr12              60858365 42 + 135337776 gagaaaac----taaaa--a-----atag-gttgaacaactcacacag-ctagtt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073668 42 -  32808036 gagaaaac----taaaa--a-----atag-gttgaacaactcacacag-ctagtt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257524 42 +  34552619 gagaaaac----taaaa--a-----gtag-gttgaacaactcacacag-ctagtt
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2949800 47 +  31815103 aagaaaac----aaaaa--acatagagag-gttaaacaactcacacag-ctagtt
i micMur3.chr21             I 9 C 0
s mm10.chr6                   2386067 43 - 149736546 GCAGAACC----AGAAG--C-----ATAGTGTTGAGTAATGTGCATGG-CTAATG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19696913 45 +  45876710 aagaaaca----taagggta-----aaaa-ggtgaccaactcacataatctagtc
i canFam3.chr27             I 9 C 0
s dasNov3.JH562883             896874 46 -   1687904 gagaaaacataatggaa--g-----agag-gttaaacaactcacatag-ctagtc
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e proCoq1.NW_012140524v1      5048168 215 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=322604.000000
s hg38.chr12_GL383549v1_alt     36843 164 +    120804 agca-taaagttctaaattggattcaggtccttctctctcctaaacagcatgatatactgCCTCTGTAAATTATTAAGTTTACTGAGCCTCTGTACACAAAGTAGTGTAAAGGTTTGTTTTA-TTATGATCACTGTTATTTAGTATTC----TATTGTCTCAAGAAA-AGT
s panTro5.chr12              62733420 165 + 137163284 aGCA-TAAAGTTCTAAATTGGATTCAGGTCCTTCTCTCTCCTAAACAGCATGATATACTGCCTCTGTAAATTATTAAGTTTACTGAGCCTCTGTACACAAAGTAGTGTAAAGGTTTGTTTGGCTTATGATCACTGTTATTTAGTATTC----TATTGTCTCAAGAAA-AGT
i panTro5.chr12             I 1715 C 0
s panPan2.chr12              60858407 165 + 135337776 agca-taaagttctaaattggattcaggtccttctctctcctaaacagcatgatatactgCCTCTGTAAATTATTAAGTTTACTGAGCCTCTATACACAAAGTAGTGTAAAGGTTTGTTTTGCTTATGATCACTGTTATTTAGTATTC----TATTGTCTCAAGAAA-AGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073710 165 -  32808036 agca-taaagttctaaattggattcaggtccttctgtctcctaaacagcatgatatactgCCTCTGTAAATTATTAAGTTTACTGAGCCTCTGTACACAAAGTAGTGTAAAGGTTTGTTTTGCTTATGATCACTGTTATTTAGTATTC----TATTGTCTCAAGAAA-AGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257566 165 +  34552619 agca-taaagttctaaattggattcaggtccttctctctcctaaacagcatgatatactgCCTCTGGAAACTATTAAGTTTACTGAGCCTCTGTACACAAAGCAGTGTAAAGGTTTGTTTTGCTTATGATCACTGTTATTTAGTATTC----TATTGTCTCAAGAAA-AGT
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2949847 159 +  31815103 aata-taaagttctacattgaatccagg-ctttctccctcTTCAGCATTGTGATATAAAGCCTCTATAAACTATTAAGTTTACTTAGTCTGTGTATACAAA-----GTAAAAGCTTGTTTTACTTATGATCACTATAATTTAACATTG----TTTTGTCTCAAAAAG-GAA
i micMur3.chr21             C 0 I 1
s mm10.chr6                   2386110 166 - 149736546 AGCA-CAAACTTCTCAATTGAATTCAGGCCTTTCTTCCTCCTCA-TGCTGTGATACACTGCCTTCATAAACTATTAAGGTCATTAGGA--ATGTATAAAAGGTACTGCAAGGACTTGTTTTGTTCATAATTGCTGTAGTTTTATATTCTTTTTTTTTTCCCAGACTG-AGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19696958 159 +  45876710 agtattaaagttctaatttgaattcaggtcttgctcc--------caccatgacatactgctcctACAAACAATTAAGTTTGCTAAGTTGGTGTATACAAAGCAGTTTAAAGACTGGTTTTACTTATGATAGCTACAATTTCATATTC----TTTGGTCTGAAGAAGTAGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             896920 166 -   1687904 aatgtcaaagttctaaatcaaatctgggtctttctccctccaaaacaccatgatatacAGCCTCCATAAACCATTAAG-TTAATAAATCTATGTACACAGAGTAGTGGTAAGACTTGTTTTACTTTTGATAGCTACAATTTAATATAC----TTTTGTCACATTAAAGAGT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e proCoq1.NW_012140524v1      5048168 215 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=95279.000000
s hg38.chr12_GL383549v1_alt     37007 29 +    120804 CTGATCCATAGAATGCCATCCAGAGGAGG
s panTro5.chr12              62733585 29 + 137163284 CTGATCCATAGAATGCCATCCAGAGGAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858572 29 + 135337776 CTGATCCATAGAATGCCATCCAGAGGAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073875 29 -  32808036 CTGATCCATAGAATGCCATCCAGAGGAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257731 29 +  34552619 CTGATCCATAGAATGCCATCCAGAGGAGG
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2950007 29 +  31815103 CCGATCTGTAGAATGCCATCCACAGGAAG
i micMur3.chr21             I 1 I 1
s proCoq1.NW_012140524v1      5048383 29 +  13104022 CTGATCCGTAGAATGCCATCCAGAGGAGG
i proCoq1.NW_012140524v1    I 215 I 15230
s mm10.chr6                   2386276 29 - 149736546 TTGATCCAGAGAATTCCATCTGGGAGAGG
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19697117 29 +  45876710 CTGATCCATAGAATGCCATCCGAAGGTGG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             897086 29 -   1687904 CTGAACCATAGAATGCTATTCAGAGACTG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=85230.000000
s hg38.chr12_GL383549v1_alt     37036 44 +    120804 -GTCAAAGCATAAAGAAATATCTACTTA--CTAAATTGAGATTAAAA
s panTro5.chr12              62733614 44 + 137163284 -GTCAAAGCATAAAGAAATATCTACTTA--CTAAACTGAGATTAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858601 44 + 135337776 -GTCAAAGCATAAAGAAATATCTACTTA--CTAAATTGAGATTAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073904 44 -  32808036 -GTCAAAGCATAAAGAAATATCTACTTA--CTAAATTGAGATTAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257760 44 +  34552619 -GTCAAAGCATAAAGCAATATCTACTTA--CTaaattgagattaaaa
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2950037 44 +  31815103 -GCCAAAGCATAAAAATCTACCTACTTA--CTAAACTGAGATTCAAA
i micMur3.chr21             I 1 C 0
s mm10.chr6                   2386306 46 - 149736546 -CGGAGAACATGAAGCTGTGTCTCCTCAGTCTAGACTGGAGGTGAGA
i mm10.chr6                 I 1 I 84
s canFam3.chr27              19697147 44 +  45876710 -TCAAAAGCATGGAGCTGTATCTACTAA--TTAAATTGAGATAGAGG
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             897115 45 -   1687904 ATCAAAAGCATAAACCTATATCTACTTA--CCAAATAGAGCTTGAGA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=59607.000000
s hg38.chr12_GL383549v1_alt     37080 31 +    120804 ATAAAGATAATTATCCTAATAATTTAATTTT
s panTro5.chr12              62733658 31 + 137163284 ATAAAGATAATTATCCTAATAATTTAATTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858645 31 + 135337776 ATAAAGATAATTATCCTAATAATTTAATTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073948 31 -  32808036 ATAAAGATAATTATCCTAATAATTTAATTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257804 31 +  34552619 ataaagataattatcctaataatttaatttt
i nomLeu3.chr23             C 0 C 0
s micMur3.chr21               2950081 31 +  31815103 ATGAAGATAGTTTTCCTAATGATTTAATTTT
i micMur3.chr21             C 0 I 31340
s canFam3.chr27              19697191 31 +  45876710 ATGGGGATAATTATCCTCATGCTTTAAATCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             897160 31 -   1687904 ATGGAGATGATAATCTTAATGATTTAAACCT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352 84 - 149736546 I
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=1179.000000
s hg38.chr12_GL383549v1_alt     37111 1 +    120804 A
s panTro5.chr12              62733689 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858676 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073979 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257835 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s canFam3.chr27              19697222 1 +  45876710 A
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             897191 1 -   1687904 G
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=62721.000000
s hg38.chr12_GL383549v1_alt     37112 71 +    120804 ----AAATTG--tttttaaaaatagacatattaaaatgtatgtctttat-------catgtacaatatgatgcctgaagtataa
s panTro5.chr12              62733690 71 + 137163284 ----AAATTG--TTTTTAAAAATATacatattaaaatgtatgtctttat-------catgtacaatatgatgcctgaagtataa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858677 71 + 135337776 ----AAATTG--TTTTAAAAaatagacatattaaaatgtatgtctttat-------aatgtacaatatgatgcctgaagtataa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3073980 71 -  32808036 ----AAATTG--tttttaaaaatagacatattaaaatgtatgtctttat-------catgtacaatatgatgcctgaagtataa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257836 73 +  34552619 ----aaattaattttttaaaaatagacatattaaaatgtatgtctttat-------catgtacaatatgatgcctgaagtataa
i nomLeu3.chr23             C 0 C 0
s dasNov3.JH562883             897192 79 -   1687904 CAATATCTTA--ATTATATCACTATACAGATT---TTGTATTTCAGCATAAAACAGAATTTATGAGATGATGTTCAAAAAATAA
i dasNov3.JH562883          C 0 I 275
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223  0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=87196.000000
s hg38.chr12_GL383549v1_alt     37183 100 +    120804 aatattgtggaatggttcaatcgagctaactaacaaatgtgttagcacacctagtttttttgtggtgagaacacttaaaagtcattctcagaattttttt
s panTro5.chr12              62733761 100 + 137163284 aatattgtggaatggttcaattgagctaactaacaaatgtgttaccacacctagtttttttgtggtgagaacacttaaaagtcattctcagaatttttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60858748 100 + 135337776 aatattgtggaatgattcaattgagctaactaaaaaatgtgttaccacacctagtttttttgtggtgagaacacttaaaagtcattctcagaattttttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3074051 100 -  32808036 aatattgtggaatggttcaattgagctaactaacaaatgtgttaccacacctagtttttatgtggtgagaacacttaaaagtcattctcagaattttttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7257909 100 +  34552619 aatattgtggaatggttcaattgagctaactaataaatgtgttacctcacctagtttttttgtggtgagaacacttaaaagtcattctcataattttttt
i nomLeu3.chr23             C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I

a score=4203.000000
s hg38.chr12_GL383549v1_alt     37283 15 +    120804 aagaatacagtacat
s panTro5.chr12              62733861 15 + 137163284 aagaatacagtacat
i panTro5.chr12             C 0 I 6114
s nomLeu3.chr23               7258009 15 +  34552619 aagaatacagtacat
i nomLeu3.chr23             C 0 I 2206
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223  0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I
e gorGor5.CYUI01000003v1      3074151  0 -  32808036 C
e panPan2.chr12              60858848  0 + 135337776 C

a score=0.000000
s hg38.chr12_GL383549v1_alt     37298 6044 +    120804  
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352   84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223    0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e nomLeu3.chr23               7258024 2206 +  34552619 I
e dasNov3.JH562883             897271  275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795  595 +   9309688 I
e manLeu1.NW_012101287v1       134526  593 +    435186 I
e chlSab2.chr11             100739423  593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740  593 -   7948249 I
e macFas5.chr11             108969983  569 - 137757926 I
e rheMac8.chr11             104570442  593 - 133663169 I
e gorGor5.CYUI01000003v1      3074151    0 -  32808036 C
e panPan2.chr12              60858848    0 + 135337776 C
e panTro5.chr12              62733876 6114 + 137163284 I

a score=214612.000000
s hg38.chr12_GL383549v1_alt     43342 795 +    120804  
s panPan2.chr12              60858848 795 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3074151 798 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e nomLeu3.chr23               7258024 2206 +  34552619 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e manLeu1.NW_012101287v1       134526 593 +    435186 I
e chlSab2.chr11             100739423 593 - 128539186 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e macNem1.NW_012011422v1      1347740 593 -   7948249 I
e macFas5.chr11             108969983 569 - 137757926 I
e rheMac8.chr11             104570442 593 - 133663169 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=7644.000000
s hg38.chr12_GL383549v1_alt     44137 3 +    120804 aat
s panPan2.chr12              60859643 3 + 135337776 aat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3074949 3 -  32808036 aat
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104571035 3 - 133663169 aat
i rheMac8.chr11             I 593 C 0
s macFas5.chr11             108970552 3 - 137757926 aat
i macFas5.chr11             I 569 C 0
s macNem1.NW_012011422v1      1348333 3 -   7948249 aat
i macNem1.NW_012011422v1    I 593 C 0
s chlSab2.chr11             100740016 3 - 128539186 aat
i chlSab2.chr11             I 593 C 0
s manLeu1.NW_012101287v1       135119 3 +    435186 aat
i manLeu1.NW_012101287v1    I 593 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223 0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e nomLeu3.chr23               7258024 2206 +  34552619 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e colAng1.NW_012114364v1      3522795 595 +   9309688 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=2676531.000000
s hg38.chr12_GL383549v1_alt     44140 854 +    120804  
s panPan2.chr12              60859646 854 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3074952 854 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104571038 851 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108970555 850 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1348336 850 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100740019 851 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       135122 851 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3523390 852 +   9309688  
i colAng1.NW_012114364v1    I 595 C 0
e otoGar3.GL873576            4535820 1297 -  12054995 I
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e nomLeu3.chr23               7258024 2206 +  34552619 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=911587.000000
s hg38.chr12_GL383549v1_alt     44994 268 +    120804 tatattttctttttagctattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagtatattgaaatgcta-------atcctgcacctttactg---------aatttattagttctaacag--ttttttggtggagtctttagggttttcaatatgtaaggtcatgtcatctgcaaataggaacaatttaacttcttcctttccaatctggatttcttttatttctttctcttgcctaactctgctggtcaggactttcagtatgatgttg
s panPan2.chr12              60860500 263 + 135337776 tatattttctttttagctattgtaaat-ggattgttttctttatttctttttcagatcgagtgctgttagtatattgaaatgcta-------atcctgcacctttactg---------aatttattagttctaacag--t-----ggtggagtctttagggttttcaatatgtaaggtcatgtcatctgcaaataggaacaatttaacttcttcctttccaatctggatttcttttatttctttctcttgcctaactctgctggtcaggactttcagtatgatgttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3075806 268 -  32808036 tatattttctttttagctattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagtatattgaaatgcta-------atcctgcacctttactg---------aatttattagttctaacag--ttttttggtggagtctttagggttttcaatatgtaaggtcatgtcatctgcaaataggaacaatttaacttcttcctttccaatctggatttcttttatttctttctcttgcctaactctgctggtcaggactttcagtatgatgttg
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104571889 270 - 133663169 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagaatattgaaatgcta-------atcctgcacttttactg---------aatttattagttctaacagttttttttggtagagtcttcagggttttcaatatgtaaggttatgtcatctgcaaatgggaacaatttaacttcttcctttcctatctggatttcttttatttatttctcttgtctaactctgccggtcaggactttcagtatgatgttg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108971405 270 - 137757926 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagaatattgaaatgcta-------atcctgcacttttactg---------aatttattagttctaacagttttttttggtagagtcttcagggttttcaatatgtaaggttatgtcatctgcaaatgggaacaatttaacttcttcctttcctatctggatttcttttatttatttctcttgtctaactctgccggtcaggactttcagtatgatgttg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1349186 270 -   7948249 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagaatattgaaatgcta-------atcctgcacttttacag---------aatttattagttctaacagttttttttggtagagtcttcagggttttcaatatgtaaggttatgtcatctgcaaatgggaacaatttaacttcttcctttcctatctggatttcttttatttatttctcttgtctaactctgccagtcaggactttcagtatgatgttg
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100740870 269 - 128539186 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagaatattgaaatgcta-------atcctgcacttttactg---------aattttttagttctaacag-tttttttggtggagtctttagggttttcaacatgtaaggtcatgtcatctgcaaatgggaacaatttaacttcttcctttcctatttggatttcttttatttatttctcttgtctaactctgctggtcaggactttcagtatgatgttg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       135973 269 +    435186 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcactgttagaatattgaaatgcta-------atcctgcacttttactg---------aatttattagttctaacag-tttttttggtggagtctttagggttttcaatatgtaagggcatgtcatctgcaaatgggaacaatttaacttcttcctttcctatctggatttcttttatttatttctcttgtctaactctgctggtcaggactttcagtatgatgttg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3524242 269 +   9309688 tatattttctttttagtgattgtaaat-ggattgttttctttatttctttttcagatcgatcgctgttagaatattgaagtgcta-------atcctgcactgttactg---------aatttattagttctaacag-tttttttggtggagtcttcagggttttcaatatgtaaggtcatgtcatctgcaaatgggaacaatttaacttcttcctttcctatctggatttcttttatttatttctcttatctaactctgctggtcaggactttcagtatgatgttg
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4537117 273 -  12054995 tagactttATTTt-----attttatatgggattgttttattaatttcccttccagatagttcacaac--acatttttttatgctgattatgtatcttgcaccttcaatattatacatctgtttattagttctgacag--tatttttctggaatccttaatgctttttatatgtaagattatgtcatcagt-----gacataaatttacttttttctttcctatttggatgtctttcatttctttttcttacctaatttatctgggtaggatttccattcctatgttc
i otoGar3.GL873576          I 1297 C 0
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e nomLeu3.chr23               7258024 2206 +  34552619 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=3562566.000000
s hg38.chr12_GL383549v1_alt     45262 868 +    120804  
s panPan2.chr12              60860763 868 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3076074 866 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7260230 852 +  34552619  
i nomLeu3.chr23             I 2206 C 0
s rheMac8.chr11             104572159 867 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108971675 867 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1349456 867 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100741139 871 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       136242 871 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3524511 871 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4537390 922 -  12054995  
i otoGar3.GL873576          C 0 I 363
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=1213219.000000
s hg38.chr12_GL383549v1_alt     46130 315 +    120804 tcttttaaaaagc--actcttggccaggtgcagtggctcacacctgtagtcccagcactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagaccagcctggccaacatggcaaaacttcatctctgctaaaaatacagaaaaattagacaagcgtggtggcatgtgcctgtagtcccagctactcatgaggctgagatgggagaatcacctgaagtcaaggctgcaatgagctgtgatcatgatcatgccactccagtctgggtgatgggagtgagacccagtct-cagaaaaataaaaaataaa
s panPan2.chr12              60861631 315 + 135337776 tcttttaaaaagc--actcttggccaggtgcagtggctcacatctgtagtcc-aacactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagaccagcctggccaacatggcaaaacttcatctctgctaaaaatacagaaaaattagacaagcgtggtggcatgtgcctgtagtcccagctactcatgaggctgagatgcgagaatcacctgaagtcaaggctgcaatgagctgtgatcatgatcatgccactccagcctgggtgatgggagtgagacccagtctacaaaaaaataaaaaataaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3076940 315 -  32808036 tcttttaaaaagc--actcttggccaggtgcagtggctcacatctgtagtccgagcactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagaccagcctggccaacatggcaaaacttcatctctgctaaaaatacagaaaaattagacaagtgtggtggcatgtgcctgtagtcccagctactcatgaggctgagatgggagaatcacctgaagtcaaggctgcaatgagctgtgatcatgatcatgccactccagcctgggtgatgggagtgagacccagtct-caaaaaaataaaaaataaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7261082 317 +  34552619 tctttcaaaaagccaactcttggccaggtgcagtggctcacacctgtagtcccagcactctgggagcgcaaggcaggtggatcactcgagcccaggagttcgagaccagcctggccaacatggcaaaacttcatctctactaaaaatacagaaaatttagacaagcatggtggcatgtgcctgtagtcccacctactcatgaggctgagatgggagaatcacctgaagtcaaggctgcagtgagatatgatcatgatcacaccactccagcctgggtgataggagtgagactcattct-caaaaaaataaaaaataaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104573026 316 - 133663169 tcttttaaaaagccaactcttagctaggtgcagtggctcacacctgcagtctcagcactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagactagcctggccaacatggcaaaacctcatctctactaaaaatacagaaaaattagacaagcgtggtagcatgtgcctgtagtcccagctactcatgaggctgagacacgggaatcacctgaagtcaaggctacagtgagctgtgatggtgatcacgccaccccag-ctgggtgatgagagtgagacccagtct-caacaaaataaaaaataaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108972542 316 - 137757926 tcttttaaaaagccaactcttagctaggtgcagtggctcacacctgcagtctcagcactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagactagcctggccaacatggcaaaacctcatctctactaaaaatacagaaaaattagacaagcgtggtagcgtgtgcctgtagtcccagctactcatgaggctgagacacgggaatcacctgaagtcaaggctacagtgagctgtgatggtgatcacgccaccccag-ctgggtgatgagagtgagacccagtct-caacaaaataaaaaataaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1350323 316 -   7948249 tcttttaaaaagccaactcttagctaggtgcagtggctcacacctgcagtctcagcactctgggagcccaaggcaggtggatcacttgagcccaggagtttgagactagcctggccaacatggcaaaacctcatctctactaaaaatacagaaaaattagacaagcgtggtagcatgtgcctgtagtcccagctactcacgaggctgagacacgggaatcacctgaagtcaaggctacagtgagctgtgatagtgatcacgccaccccag-ctgggtgatgagagtgagacccagtct-caacaaaataaaaaataaa
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100742010 316 - 128539186 tcttttaaaaagccaactcttagctaggtgcagtggttcacacctgtagtctcagcactctgggagcccaaggcaggtgggtcacttgagcccaggagttcgagaccagcctggccaacatggcaaaacctcatctctactaaaaatacagaaaaattagacaagcgtggtggcatgtgcctgtagtcccagctactcatgaggctgagatgggggaatcacctgaagtcaaggctgcagtgagctgtgatagtgatcacgccactccag-ctgggtgatgagagtgagacccagtct-caacaaaataaaaaataaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       137113 316 +    435186 tcttttaaaaagccaactcttagctaggtgcagtggctcacacctgtagtctcagcactctgggagcccaaggcaggtggatcacttgagcccaggagttcgagaccagcctggccaacatggcaaaacctcatctctactaaaaacacagaaaaattagacaagcgtggtggcatgtgcctatagtcccagctactcatgaggctgagacgggggaatcacctgaagtcaaggctgcagtgagctgtgatagtgatcacgccactccag-ctgggtgatgagagtgagacccagtct-caacaaaataaaaaatata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3525382 316 +   9309688 tcttttaaaaagccaactcttagctaggtgcagtggctcacacctgtagtctcagcactctgggagcccaaggcaggtggatcacttgagcccaggagttcaagaccagcctggccaacatggcaaaacctcatctctactaaaaatacagaaaaattagacaagcgtggtggcatgtgcctgtagtcccggctactcatgaggctgagacggtggaatcacctgaagtcaaggctgcagtgggctgcgatagtgatgacgccactccag-ctgggtgatgggagtgagacccagtct-caacaaaataaaaaataaa
i colAng1.NW_012114364v1    C 0 C 0
e otoGar3.GL873576            4538312 363 -  12054995 I
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=2687789.000000
s hg38.chr12_GL383549v1_alt     46445 629 +    120804  
s panPan2.chr12              60861946 630 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3077255 630 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7261399 626 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104573342 623 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108972858 623 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1350639 623 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100742326 626 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       137429 626 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3525698 626 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4538675 624 -  12054995  
i otoGar3.GL873576          I 363 C 0
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e cerAty1.NW_011999477v1      8248490 3855 -  10730278 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=7253012.000000
s hg38.chr12_GL383549v1_alt     47074 1428 +    120804  
s panPan2.chr12              60862576 1416 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3077885 1427 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7262025 1424 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104573965 1435 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108973481 1433 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1351262 1431 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8252345 1427 -  10730278  
i cerAty1.NW_011999477v1    I 3855 C 0
s chlSab2.chr11             100742952 1436 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       138055 1422 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3526324 1438 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4539299 1348 -  12054995  
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2386352   84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223    0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271  275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I
e panTro5.chr12              62733876 6114 + 137163284 I

a score=2438572.000000
s hg38.chr12_GL383549v1_alt     48502 408 +    120804 ctgtaagctttctttattcttt---------ttttctttttgcgcctttgattggataatttcaaatgtcctgtctt-gagctcaccgattctttcttctgcttgatcaagtctc-cattgaatttttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttctatttctttgtcaa--actttgcattttgttcatgaattgttttccaaattgtatttaattttctatctctatcttcacgtagttacctgaatttctttaaagggattat--tctcaattctttatcagtcacttcttagagagcctttattcctgggttccttactagagcttcat-----ttttttttttttttttt-------ttttggcgatggtgttatatttccctga
s panTro5.chr12              62739990 404 + 137163284 ctgtaagctttctttattcttt---------ttttctttttgtgcctttgattggataatttcaaatgtcctgtctt-gagctcactgattctttcttctgcttgatcaagtctc-cattgaatttttctatggaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttctatttctttgtcaa--actttgcattttgttcatgaattgttttccaaattgtatttaattttctatctctatcttcatgtagttaccggaatttctttaaagggattat--tctcaattctttatcagtcacttcttagatatcctttattcctgggttccttactggagcttcat-----tttattttttttttttt-----------ggcggtggtgttatatttccctga
i panTro5.chr12             I 6114 C 0
s panPan2.chr12              60863992 402 + 135337776 ctgtaagctttctttattcttt---------ttttctttttgcgcctttgattggataatttcaaatgtcctgtctt-gagctcactgattctttcttctgcttgatcaagtctc-cattgaatttttctatggaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttctatttctttgtcaa--actttgcattttgttcatgaattgtttcccaaattgtatttaattttctatctctatcttcatgtagttaccggaatttctttaaagggattat--tctcaattctttatcagtcacttcttagatatcctttattcctgggttccttactggagcttcat-----ttttttttttttttt-------------ggcggtggtgttatatttccctga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3079312 407 -  32808036 ctgtaagctttcttta-----------------ttctttttgcgcctttgattggataatttcaaatgtcctgtctt-gagctcactgattctttcttctgcttgatcaagtctc-cattgaatttttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttctatttctttgtcaa--actttgcattttgttcatgaattgttttccaaattgtatttaattttctatctctatcttcatgtagttacctgaatttctttaaagggattat--tctcaattctttatcagtcacttcttagatatcctttattcctgggttccttactggagcttcag-----tttttttgttttttttttttttttttttggtggtggtgttatatttccctga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7263449 406 +  34552619 ctgtaagctttctttattcttt---------ttctcttttcgctcctttgattggataatttcaagtgtcctgtctt-gagctcactgattctttcttctgcttgatcaaggctc-cattgaatttttctattgaatttttcagttcagttattgtgttttatatctctaagatttctatttggtttttaaaaattgtttctatttctttgtcaa--acttttcattttgttcatgaattcttttccaaattgtatttaattttctatccatatcttcatgtagttacctgaatttctttaaagggattat--tctcaattctttatcagtcacttcatagatatcctttattcctgggttccttactggagcttcat-----ttttttttttttttttt---------ttggcggtggtgttatatttccctga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104575400 405 - 133663169 ccataag-tttttttattcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactgattctttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtattttattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgaattctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcac-----tttttttttttttcttt---------ttggtgatggtgttatatttccctga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108974914 405 - 137757926 ccataag-tttttttattcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactgattctttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtattttattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgaattctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcac-----tttttttttttttcttt---------ttggtgatggtgttatatttccctga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1352693 405 -   7948249 ccataag-tttttttattcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactgattctttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtattttattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgaattctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcac-----tttttttttttttcttt---------ttggtgatggtgttatatttccctga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8253772 403 -  10730278 ccataag-tttttttgttcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactga----ttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggttttttaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtattttattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgaattctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcact---ttttttttttttttcttt---------ttggtgatggtgttatatttccctga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100744388 407 - 128539186 ccataag-tttttttattcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactgattctttcttctgcttaatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttccatttctttgtcaa--acttttcgttttgttcatgaattgttttccaaattgtatttaattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgatttctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcact---ttttttttttttttcttt---------ttggtgatggtgttatatttccctga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       139477 405 +    435186 ccgtaag-tttttttattcttt---------ttttctttttgctcctttgattggataatttcaaatgtcttgtctt-gagctcactgattctttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaaaatttctatttggttttttaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtattttattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tctgaattctttatctgtcacttcatagatatcctttattcctgggttcattactggagcttcac-----tttttttttttttcttt---------ttggtgatggtgttatatttccctga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3527762 410 +   9309688 ccataag-tttttttattcttt---------ttttctttttactcctttgactggataattccaaatgtcttgtctt-gagctcactgattctttcttctgcttgatcaaatctc-cattgaatctttctattgaatttttcagttcagttgttgtgttttatatctctaagatttctatttggtttttaaaaattgtttccatttctttgtcaa--acttttcattttgttcatgaattgttttccaaattgtatttaattttctatcagtatcttcatgtagttacctgaatttctttaaagggattat--tttcaattctttatctgtcacttcatagatatcctttattcctgggttcattactggaacttcacttactttttttttttttttctt---------ttggtggtggtgttatatttccctga
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4540647 408 -  12054995 tcataaattttcttcattcctttttattctcttttctttttgctcctctgattagacaattttaaatgttctgttttcaagctaactggttctttcttaggcttaagcaaatcttatgttgaagcttcctattaaaatttttagttcagttattgtattctctatctctacaattctatttaggtttttt--cattttttctatttctttgtcagtttcttttcattttgttcatggattgttttcccaatttcgtttaatatgcaatgcatattttcttatagttacttaattaacattcaagacattatactctgagttctttgtcagacttttcatagatctccttttcttctgagtccattactagagctacat-----taatttatttt--------------------agaggtgttatatttccctga
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I
e cebCap1.NW_016107911v1       813910 4471 -   1015025 I
e saiBol1.JH378123           11358981 5700 -  29834108 I

a score=319398.000000
s hg38.chr12_GL383549v1_alt     48910 45 +    120804 tttgtcataattttcttg---------tgtccttaa---------------------------------------attgatgcctgcatattt
s panTro5.chr12              62740394 45 + 137163284 tttgtcattattttcttg---------tgtccttaa---------------------------------------attgatgcctgcatattt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60864394 45 + 135337776 tttgtcattattttcttg---------tgtccttaa---------------------------------------attgatgcctgcatattt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3079719 45 -  32808036 tttgtcataattttattg---------tgtccttaa---------------------------------------attgatgcctgcatattt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7263855 45 +  34552619 tttgtcataattttcttg---------tgtccttaa---------------------------------------attgatgcctgcatattt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104575805 45 - 133663169 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108975319 45 - 137757926 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353098 45 -   7948249 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8254175 45 -  10730278 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100744795 45 - 128539186 tttttcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       139882 45 +    435186 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528172 45 +   9309688 tttgtcataattttcttg---------tgtccttac---------------------------------------attgatgtctgcatattt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11364681 40 -  29834108 ttTGtcataa-tttcttg---------tatccttac---------------------------------------attgatgcctgcat----
i saiBol1.JH378123          I 5700 C 0
s cebCap1.NW_016107911v1       818381 40 -   1015025 ttTGtcataa-tttcttg---------tatccttac---------------------------------------attgatgcctgcat----
i cebCap1.NW_016107911v1    I 4471 C 0
s otoGar3.GL873576            4541055 93 -  12054995 tttgccatacttgtcatgtccttgatttgcccatacttgtcatattcctaacatcactccctattactcctaatgattgatgcctgaatgtat
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223  0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e aotNan1.NW_018488218v1      1833198 5630 -   2295209 I
e dasNov3.JH562883             897271 275 -   1687904 I

a score=2182959.000000
s hg38.chr12_GL383549v1_alt     48955 253 +    120804 aaagaggtgaccacctcttccagcctttgcagctgctgtttggtggtaataggcctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccgaacaggcaggccttggtgt-gggattctctagttgagctgggtcacttcctgtgtggaggataaatggtattgctagctgtgctctgtggtctgg-tgagaccactggctgaactctaccatcagg------------------------------tgtaattgggccaggttatg--
s panTro5.chr12              62740439 253 + 137163284 aaagaggtgaccatctcttccagtctttgcagctgctgtttggtggtaataggcctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccgaacaggcaggccttggtgt-gggattctctagttgagctgggtcacttcctgtgtggaagataaatggtattgctagctgtgctctgtggtctgg-tgagaccactggctgaactctaccatcagg------------------------------tgtaattgggccaggttatg--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60864439 252 + 135337776 aaagaggtgaccatctcttccagtctttgcagctgctgtttggtggtaataggcctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccgaacaggcaggccttggtgt-gggattctctagttgagctgggtcacttcctgtgtggaagataaatggta-tgctagctgtgctctgtggtctgg-tgagaccactggctgaactctaccatcagg------------------------------tgtaattgggccaggttatg--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3079764 253 -  32808036 aaagaggtgaccatctcttccagcctttgcagctgctgtttggtggtaataggcctttactatttagtctagcctgggattctgtatgtgctggctaacggcaaccccgaacaggcaggccttggtgt-gggattctgtagttgagctgggtcacttcctgtgtggaggataaatggtattgctagctgtgctctgtggtctgg-tgagaccactggctgaactctaccatcagg------------------------------tgtaactgggccaggttatg--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7263900 253 +  34552619 aaagaggtgaccatctcttccagcctttgcagctgctgtttggtggtaataggcctttactgtttagtctagcctgggattctgtatgtgctggctaactgcaaccccgaacaggcaggccttggtgt-gggattccctagttgagctgggtcacttcctgtgtggaggataaatggtattgctggctgtgctctgttgtctgg-tgagacccctggctgaactctaccatcagg------------------------------tgtaattgggccaggttatg--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104575850 248 - 133663169 aaagaggtggccatctcttccagcctttgcagctgctgtttggtggtgata-gcctttactacttagtctagcctgggattctgtatgtgctggctaactgcaaccccaaaaaggcaggccttgatgtggggattctctagttgagctgggtcacttcctgtgtggagtttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttaca--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108975364 248 - 137757926 aaagaggtggccatctcttccagcctttgcagctgctgtttggtggtgata-gcctttactacttagtctagcctgggattctgtatgtgctggctaactgcaaccccaaaaaggcaggccttgatgtggggattctctagttgagctgggtcacttcctgtgtggagtttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttaca--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353143 248 -   7948249 aaacaggtggccatctcttccagcctttgcagctgctgtttggtggtgata-gcctttactacttagtctagcctgggattctgtatgtgctggctaactgcaaccccaaaaaggcaggccttgatgtggggattctctagttgagctgggtcacttcctgtgtggagtttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttacg--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8254220 248 -  10730278 aaagaggtggccatctcttccagcctttgcagctgctgtttggtggtgata-gcctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccaaaaaggcaggccttgatgtggggattctctagttgaactgggtcacttcctgtgtggagtttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttacg--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100744840 248 - 128539186 aaagaggtggccatctcttccagccttggcagctgctgtttggtagtgata-gcctttactatttagtctagcctgggattctgtgtgtgccggccaactgcaaccccgaaaaggcaggccttgatgtggggattctctagttgagctgggtcacttcctgtgtggaggttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattggaccaggttaca--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       139927 248 +    435186 aaagaggtggccatctcttccagcctttgcagctgctgtttggtggtgata-gcctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccaaaaaggcaggccttgatgtggggattctctagttgagctgggtcacttcctgtgtggagtttaaatggtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttacg--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528217 247 +   9309688 aaagagctggccatctcttccagcctttgcagctgctgtctggtggtgata-gtctttactatttagtctagcctgggattctgtatgtgctggctaactgcaaccccgaaaaggcaggccttgatgt-gggattctctagttgaattgggtcacttcctgtgtggaggttaaacagtattgctggctgtgctctgtggtctgg-tgagaccactggctgaactc-----tcagg------------------------------tataattgggccaggttacg--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11364721 283 -  29834108 aaagagatggccaactcttcccacctttgcagctgctatttggtggtgatagacctttattatttagtctagcatgggattctctatgtgttggctaattgcaaccctgaacagacaggccttggggt-ggga-tctctagctgagctaggtcacttcctgtgtggaggttaaatggtattgctggctgtgcactgtggtctgattaagaccactggctgggcTCTACCATCAGGTGGGGTTGCTGGCTGGTCTCTATTATTGTCTATAATTGGGTCAGGTTGCA--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       818421 282 -   1015025 aaagagatggccaactcttcacacctttgcagctgctatttggtggtgatagacctttattatttagtctagcctgggattctctatgtgttggctaattgcaaccctgaacagacaggccttggggt-ggaa-tctctaggtgagctaggtcacttcctgtgtggaggttaaatggtattgctggctgtgcgctgtggtctga-taagaccactggctggacTCTACCATCAGGTGGGGTTGCTGGCTGGTCTCTATTATTGTCTATAATTGGGTCGGGTTGCA--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1838828 272 -   2295209 aaagagatggccaactcttcccacctttgcagctgctatttggtggtgatagacctttattatttagtctagcctgggattctgtatgtgttggctaattgcaatcctgaacagacaggcc-tggggt-ggga-tctctagttgagctaggtcacttcctgtttggaggttaaatggtattgctggctgtgcactgtggt----------ccactggctggacTCTACCATCAGGTGGGGTTGCTGGCTGGTCTCTATTATTGTCTATAATTGGGTCAGGTTGCA--
i aotNan1.NW_018488218v1    I 5630 C 0
s otoGar3.GL873576            4541148 258 -  12054995 gaagagatggtcacttcttctagcctttgcag---------------gctagacctgcactatttagtctagccagggattctgaatgggtcggcttattggaatgctgaatggccagcccttggtgt-tgaatcctacagttggactaggtcatttcctatgctgaagttgaatggtattgctggctgtgctgcatggtttga-tgagactactggctg-ACTCTACCGTTAGT-GAGACTACTAGCTGGTCTC----------TGCAATTATCTCTGACTGGGTA
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e proCoq1.NW_012140524v1      5048412 15230 +  13104022 I
e dasNov3.JH562883             897271 275 -   1687904 I

a score=1679456.000000
s hg38.chr12_GL383549v1_alt     49208 170 +    120804 ggttgtctttcctggctgggtggtactgtgttttggaatctctgctgtGTTGCCTGCGGCATGatgctgttggctagtttctctgctgtggtgccttctttggttggaatgcagagcagctaccaagatccatgcactgattcttatggagccttacccaccttccgtgg
s panTro5.chr12              62740692 170 + 137163284 ggttgtctttcctggctgggtggtactatgttttggaatctctgctgtGTTGCCTGCGGCATGatgctgttggctagtttctctgctgtggtgccttctttggttggaatgcagagcagctaccaagatccatgcactgattcttatggagccttacccaacttccgtgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60864691 170 + 135337776 ggttgtctttcctggctgggtggtactatgttttggaatctctgctgtGTTGCCTGCGGCATGatgctgttggctagtttctctgctgtggtgccttctttggttggaatgcagagcagctaccaagatccatgcactgattcttatggagccttacccaacttccgtgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080017 170 -  32808036 ggttgtctttcctggctgggtggtactgtgttttggaatctctgctgtgttgcctgcggcatgatgctgttggctagtttctctgctgtggtgccttctttggttggaatgcagagcagctaccaagatccatgcactgattcttatggagccttacccaacttccgtgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264153 170 +  34552619 ggttgtctttcctggctgggtggtactgtgttttggaatctctgctgtGTTGCCTGCAGCATGatgctgttagctagtttctctgctgtggtgccttctttggttggaatgcagagcagctaccaagatccatgcactggttcttatggtgccttacccagcttccgtgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576098 170 - 133663169 ggttgtctttcccggctgggtggtactgtgttttggagtcttttctgtgttgcctgcagcatgatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcagctaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108975612 170 - 137757926 ggttgtctttcctggctgggtggtactgtgtttTGGAGTCTTTTCTGTGTTGCCTGCAGCATGatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcagctaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353391 170 -   7948249 ggttgtctttcctggctgggtggtactgtgttttggagtcttttctgtgttgcctgcagcatgatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcagctaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8254468 170 -  10730278 ggttgtctttcctggctgggtggtactatgttttggagtcttttctgtgttgcctgcagcatgatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcaactaccaagatccatgcactggttcttatggagccttacccaatgtccttag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745088 170 - 128539186 ggttgtctttcctggctgggtggtactgtgtttTGGAGTCTTTGCTGTGTTGCCTGCAGCATGatgctgttggctagtttctctgctgtgacgtcttctttgactggaatgcagagcagctaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140175 170 +    435186 ggttgtctttcctggctgggtggtactgtgttttggagtcttttctgtgttgcctgcagcatgatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcagctaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528464 170 +   9309688 ggttgtctttcctggctgggtagtactgtgtttTGGAATCTTTGCTGTGTTGCCTGCAGCATGatgctgttggctagtttctctgctgtggcgtcttctttgattggaatgcagagcaactaccaagatccatgcactggttcttatggagccttacccaacgtccttag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365004 156 -  29834108 GGCTGTCTTTCTTGGCTGGGTGGTAC--TGTTTTAGAATCTGTACTGTGTTGCCTGCAGCATGatgctgttggctagttact------------ctcctttggttggaatgcacagcagcttccaaggtccatgcactggttcttatggagccttacctaacttccttgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       818703 156 -   1015025 GGCTGTCTTTCCTGGCTGGGTGGTAC--TGTTTTAGAATCTGTACTGTGTTGCCTGCAGCATGATGCTGTTGCCTAGTTGCT------------CTcctttggctggaatgcagagcagcttccaaggtccatgcactggttcttatggaggcttacctaacttccttag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839100 156 -   2295209 GGCTGTCTTTCCTGTCTGGGTGGTAC--TGTTTTAGAATCTGTACTGTGTTGCCTGCAGCATGatgctgttggctagttact------------ctcctttggttggaatgcaaagcagcttccaaggtccatgcactggttcttatggagccttacctaacttccttgg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5063642 169 +  13104022 GGTTGTCTTCCCAGGCTGGGCAGTACTGTTTTTTGGAATCTGTACTATGTTTCCTGCAGCATAatgctattggctactttctctggtgtggcacctccattggtcagaatgcagggcaaccaccaacatctgtatactagttgctgt-gagccctaccttcattgtttat
i proCoq1.NW_012140524v1    I 15230 C 0
s otoGar3.GL873576            4541406 167 -  12054995 GGGTGTCTTCCTTGGTTGGGCAATACTACTTTTTAAAATCTGTACCA--TTTCCTATAGCATAatgctattggctaatttctctggtgtggcacttccattgatcaaaatgcagagcaggcaccaagatctatgtactggttgctgt-gaaccctacacccattttttat
i otoGar3.GL873576          C 0 I 1
e mm10.chr6                   2386352  84 - 149736546 I
e micMur3.chr21               2950112 31340 +  31815103 I
e canFam3.chr27              19697223   0 +  45876710 C
e dasNov3.JH562883             897271 275 -   1687904 I

a score=4153691.000000
s hg38.chr12_GL383549v1_alt     49378 350 +    120804 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttctcacatgatgagaca-ggagcaagtctccagcaaagggtctcagaacggtacag----atgctgaatgttcacctccaat----tcatccctcac----actgcagaagctgtggacccaggagaattttctgcatgtggtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcactcatggcatttttagattctgtggtccaaagaagtgtatcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtgcataattgctaattggatttctt
s panTro5.chr12              62740862 350 + 137163284 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttctcacatgatgagaca-ggagcaagtctccagcaaagggtctcagaacagtacag----atgctgaatgttcacctccagt----tcatccctcac----actgcagaagctgtggacccaggagaattttctgcatgtggtgacatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcactcatggcatttttagattctgtggtccaaagaagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtgtataattgctaattggatttctt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60864861 350 + 135337776 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttctcacatgatgagaca-ggagcaagtctccagcaaagggtctcagaacagtacag----atgctgaatgttcacctccagt----tcatccctcac----actgcagaagctgtggacccaggagaattttctgcatgtggtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcactcatggcatttttagattctgtggtccaaagaagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtgtataattgctaattggatttctt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080187 350 -  32808036 ctccaactgaccccaggtggtccagccctgctgacactcccgatatttctcacatgatgagaca-ggagcaagtctccagcaaaggatctcagaacggtacgg----atgctgaatgttcacctccaat----tcatccctcac----actgcagaagctgtgcacccaggagaattttctgcatgtggtgccatgccagcctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcactcacggcatttttagattctgtggtccaaagaagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtgcataattgctaattggatttctt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264323 354 +  34552619 ctccaactgaccccaggtggtccagccctcctggcactcccaatatttctcacaggatgagaca-ggagcaagtctccagcaaagggtctcataatggtaccg----atgctgaatgttcacctccaat----ttatccttcacactgactgcagaagctgtggacccaggagaattttctgcatgtggtgccatgccagtctggaaaaggaggactgcagtcaaagaaaactgattctcttaccattcactcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtgcataattgctaattggatttctt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576268 350 - 133663169 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaatggtatgg----atgctgaatgttcacctccatt----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagagggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108975782 350 - 137757926 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaatggtatgg----atgctgaatgttcacctccatt----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353561 350 -   7948249 ctccaactgaccccagatggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaatggtatgg----atgctgaatgttcatctccatt----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8254638 350 -  10730278 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaagggtatgg----atgctgaatgttcacctccatt----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaagagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745258 350 - 128539186 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaatggtacag----atgctgaatgttcacttccaat----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140345 350 +    435186 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaagggtatgg----atgctgaatgttcacctccatt----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaagggggactgcagtcaaagaaaactgattctcttaccattcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattactaattggatttctt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528634 350 +   9309688 ctccaactgaccccaggtggtccagccctgctggcactcccaatatttcttacaggatgagaca-ggagcaagtctccagcaaagggtctcagaatggtatgg----atgctgaatgtttacctccaat----tcatccctcac----actgcagaagctgtggacccaggagaactttctgcatgtagtgccatgccagtctggaaaaggtggactgcagtcaaagaaaattgattctcttaccgttcattcatggcatttttagattctgtggtccaaaggagtgtctcagcctcactcctgaattctgggatattcaagatggaattcttgcct-------gtggataattgctaattggatttctt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365160 350 -  29834108 ctccaactgactccaggtagtccagccttgctggcactcccaatatttctcacaggatgagaca-ggagcaagctgccagcaaagggtctcagaaaagtacag----atgctgaatgttcacctgcaat----tcatccctcac----actgcagaaactatgcacccaggagaactttctgcatgtggtgccatgccagtctggggaagggggactgcagtcaaagaaaactgattctcttatcattcacttacagcatttttagattctgtgtttcaaatgagtgtctcagcctcgctactgaattctgggacattcaaaatggaattcttgcct-------gtggataattgctaattggatttctt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       818859 350 -   1015025 ctccaactgaccccaggtagtccagccctattggcactcccaatatttctcacaggatgagaca-ggagcaagctgccagcaaagggtctcagaaaagtacag----atgttgaatgttcacctgcaat----tcatccctcac----actgcagaaactatgcacccaggagaactttctgcatatggttccatgccagtctggggaagggggactgcagtcaaagaaaactggttctcttaccattcacttatggcatttttagattctgtgtttcaaatgagtgtctcagcctcgctactgaattctgggacattaaaaatggaattcttgcct-------gtggataattgctaattggatttctt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839256 350 -   2295209 ctccaactgaccccaggtagtccagccctgctggcactcccagtatttctcacaggatgagaca-ggagcaagctgccagcaaagggtctcagaaaagtacag----atgctgaatgttcacctgcaat----tcatccctcac----actgcagaaactatgcacccaggagaactttctgtatgtggtaccatgccagtctggggaagggggactgcagtcaaagaaaactgattctcttatcattcacttaggacatttttagattctgtgtttcaaatgagtgtctcagccttgctactgaattctgggacattcaaaatggaattcttgcct-------gtggataattgctaattggatttctt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2981452 359 +  31815103 ctccaactgaacccaggtggtccagccctgctggcactcccaacatattccacaggacaagacagggagcaattctccagcaaagggtttcagaatgaggcag-ggaaagctgaatatccacctctaac----atgtcccttcc----actgaagaaactgtgggcccaggggaactc--tgcatgtggtgccatgccagccagggggaggggcagtgcagtcaaagagaactgaccctgttaccattcagtcacagcatttttaaattttgtggtccaaggaggtgtctcagcctcactcctgagttctgggattttcatgatggtattcttgcctgtggatagtggatagttgcgggttagatttctt
i micMur3.chr21             I 31340 I 11
s proCoq1.NW_012140524v1      5063811 353 +  13104022 ctccaactgaccccaggtggtccagccttgctggcattcccaacattttccacaggacaagaca-ggagcaattttccagcaaaggggctcagaatggggtgg-ggagagctgaatgtccacctctaac----ttgtccctctg----actgaagaaactgtgggcccagaggaactctttacatgtggtgccatgccagccagggggaggggcagtgcagtcaaagagaattgaccctcttaccattcagtcatggcatttttcaattttgtggtccaacgggttgtctcatcctcactcctgagttctgggattttcatgatagtattcttgcct-------gtggatagttgctggttggatttctc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4541574 353 -  12054995 -ttcaacttaccctaggtgggccagccctgatgacaattccaacattttccacagggcaaaaca-aaagaaattctccaggaaaatgtctcagaatgggggaatggggagctgaaggtccatcttcaactcatttctccctccc----acacgagaagttgtgggcacaggggaaatctctgaatgtggtactgtgcttgcctgagggc-aggcaatatagtcgatgaaaactgactctcttaccattcagtcatggcatttttcaattttgtggtacaa-ggggtatctcagcttcac-cctgaattctgggatattcatgattacattcttgct--------gtagatagttggttgttggatttctg
i otoGar3.GL873576          I 1 C 0
e mm10.chr6                   2386352  84 - 149736546 I
e canFam3.chr27              19697223   0 +  45876710 C
e dasNov3.JH562883             897271 275 -   1687904 I

a score=127547.000000
s hg38.chr12_GL383549v1_alt     49728 12 +    120804 ttgcgggcaagg
s panTro5.chr12              62741212 12 + 137163284 ttgcgggcaagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60865211 12 + 135337776 ttgtgggcaagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080537 12 -  32808036 ttgcgggcaagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264677 12 +  34552619 ttgcgggcaagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576618 12 - 133663169 ttgcgggcaagg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976132 12 - 137757926 ttgcgggcaagg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353911 12 -   7948249 ttgcgggcaagg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8254988 12 -  10730278 ttgcgggcaagg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745608 12 - 128539186 ttgcgggcaagg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140695 12 +    435186 ttgcgggcaagg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528984 12 +   9309688 ttgcgggcaagg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365510 12 -  29834108 ttgcgggcaagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       819209 12 -   1015025 ttgcgggcaagg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839606 12 -   2295209 ttgcgggcaagg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5064164  8 +  13104022 ----gggtgaga
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4541927  8 -  12054995 ----gggtggga
i otoGar3.GL873576          C 0 I 3
e mm10.chr6                   2386352 84 - 149736546 I
e micMur3.chr21               2981811 11 +  31815103 I
e canFam3.chr27              19697223  0 +  45876710 C
e dasNov3.JH562883             897271 275 -   1687904 I

a score=833319.000000
s hg38.chr12_GL383549v1_alt     49740 69 +    120804 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACTTACAATA
s panTro5.chr12              62741224 69 + 137163284 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACTTACAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60865223 69 + 135337776 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACTTACAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080549 69 -  32808036 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACTTACAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264689 69 +  34552619 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTACTCCTAATGATTTTAACTTACAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576630 69 - 133663169 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTCAACCTACAATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976144 69 - 137757926 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTCAACCTACAATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353923 69 -   7948249 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTCAACCTACAATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8255000 69 -  10730278 aatgaagccagagaac------tc---------catgttgctgacataactcCTTGTTATTCCTAATGATTTTAACCTACAATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745620 69 - 128539186 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACCTACAATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140707 69 +    435186 aatgaagccagagaac------tc---------catgttgctgacataactcCTTGTTATTCCTAATGATTTTAACCTACAGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3528996 69 +   9309688 aatgaagccagagaac------tc---------catgttgctgacataactcCCTGTTATTCCTAATGATTTTAACCTACAATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365522 69 -  29834108 aatggagccagagaac------tc---------aatgttgctgacattactcCCTGTTATTCCTAATGATTTTAATGTACAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       819221 69 -   1015025 aatggagccagagaac------tc---------aatgttgctgacattactcCCTGTTATTCCTAATGATTTTAATGTACAATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839618 69 -   2295209 aatggagccagagaac------tc---------aatgttgctgacattactcCCTGTTATTCCTAATGATTTTAACTTACAATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2981822 78 +  31815103 agtaaagccagagacc------tcctattctatcatcttgctgtcatcactcCCTATTACTCCTAATGATTTTAATCTACAATA
i micMur3.chr21             I 11 C 0
s proCoq1.NW_012140524v1      5064175 78 +  13104022 agtaaagccagagacc------tcctagtctaccatcttgctgacatcactcCCTGTTACTCCTAATGATTTTAACCTACAATA
i proCoq1.NW_012140524v1    I 3 C 0
s otoGar3.GL873576            4541938 84 -  12054995 agtaaagccaaagatctcctattcctattccatcatattcctaacattgctcCCTATTATTCCTAGTGATTTTAATCTACAATG
i otoGar3.GL873576          I 3 C 0
e mm10.chr6                   2386352 84 - 149736546 I
e canFam3.chr27              19697223  0 +  45876710 C
e dasNov3.JH562883             897271 275 -   1687904 I

a score=549256.000000
s hg38.chr12_GL383549v1_alt     49809 40 +    120804 TCTTAATTATATTA----CAGAAGTTTGTGAGAGGATGTTCACA
s panTro5.chr12              62741293 40 + 137163284 TCTTAATTATATTA----CAGAAGTTTGTGAGAGGATGTTCACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60865292 40 + 135337776 TCTTAATTATATTA----CAGAAGTTTGTGAGAGGATGTTCACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080618 40 -  32808036 TCTTAATTATATTA----CAGAAGTTTGTGAGAGGATGTTCACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264758 40 +  34552619 TCTTAATTATATTA----CAGAAGTTTGTGAGAGGATGTTTACA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576699 40 - 133663169 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976213 40 - 137757926 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1353992 40 -   7948249 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8255069 40 -  10730278 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745689 40 - 128539186 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140776 40 +    435186 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3529065 40 +   9309688 TCTTAATTATATTA----CAGAAGTTTGTGAGAAGATGTTCACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365591 40 -  29834108 TCTTAATTATATTA----CAGAAGTTTCTGAGATGATGTTCACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       819290 40 -   1015025 TCTTAATCATATTA----CAGAAGTTTGTGAGATGATGTTCACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839687 40 -   2295209 TCTTAATTATATTA----CAGAAGTTTATGAGATGATGTTCACA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2981900 44 +  31815103 TATTAATTATATTACTTCCAGAAGTTTCTGGGATGATGTTAACA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5064253 44 +  13104022 TATTAATTATATTCCTTCCAGAAGTTTATGAGATGATGTTAACA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4542022 40 -  12054995 TATTAATTATATTA----CAGAAGTTTATCAGATAATGTTCACA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19697223 40 +  45876710 TCTTAATTATATTA----CAGAAGTTTatgagatgatgttcata
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2386352 84 - 149736546 I
e dasNov3.JH562883             897271 275 -   1687904 I

a score=17290.000000
s hg38.chr12_GL383549v1_alt     49849 1 +    120804 A
s panTro5.chr12              62741333 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60865332 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080658 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264798 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576739 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976253 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1354032 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8255109 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745729 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140816 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3529105 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365631 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       819330 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839727 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2981944 1 +  31815103 A
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5064297 1 +  13104022 A
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4542062 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19697263 1 +  45876710 a
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             897546 1 -   1687904 A
i dasNov3.JH562883          I 275 C 0
e mm10.chr6                   2386352 84 - 149736546 I

a score=9909896.000000
s hg38.chr12_GL383549v1_alt     49850 710 +    120804  
s panTro5.chr12              62741334 710 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60865333 710 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3080659 709 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7264799 710 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104576740 715 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976254 715 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1354033 715 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8255110 715 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100745730 731 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       140817 715 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3529106 693 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11365632 693 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       819331 694 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1839728 693 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2981945 752 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5064298 714 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4542063 628 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2386436 699 - 149736546  
i mm10.chr6                 I 84 C 0
s canFam3.chr27              19697264 737 +  45876710  
i canFam3.chr27             C 0 I 211
s dasNov3.JH562883             897547 731 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=6062310.000000
s hg38.chr12_GL383549v1_alt     50560 370 +    120804 CCACTTTCAACATCTCCATTATTTTAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCCAGACAGGTTAATACAAGCCCTTCCTCAGTGTTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGA---AGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGTAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTGTCAAAAAGGTTC-AAAAGCTTATT-AGAATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTATCAAGGTG
s panTro5.chr12              62742044 370 + 137163284 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aggaagaag---aaaaag---aagaCACAAACTTGCTTTCCAGACAGGTTAATACAAGCCCTTCCTCAGTGTTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGC---AGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGACTGGAGTCAAATCAGATAAATAGTAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTGTCAAAAAGGTTC-AAAAGCTTATT-AGAATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTATCAAGGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60866043 370 + 135337776 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCCAGACAGGTTAATACAAGCCCTTCCTCAGTGTTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGC---AGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGTAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTGTCAAAAAGGTTC-AAAAGCTTATT-AGAATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTATCAAGGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3081368 370 -  32808036 CCACTTTCGACATCTCCATTATTTCAACTAAGATCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCCAGACAGGTTAATACAAGCCCTTCCTCAGTGTTCTATTCTTGATTTAAGGAACATTCTCAGAGAGAGAGC---AGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGTAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTGTCAAAAAGGTTC-AAAAGCTTATT-AGAATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTATCAAGGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7265509 373 +  34552619 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCCAGACAGGTTAATACAAGCCTTTCCTCAGTGTTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTCAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGAATCTGGTTCAAAATGCCCCGCCC--ACAAGTTAGCTTCCTCGTCACAAGGTG
i nomLeu3.chr23             C 0 I 28
s rheMac8.chr11             104577455 373 - 133663169 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCACTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108976969 373 - 137757926 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCACTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1354748 373 -   7948249 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCACTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8255825 370 -  10730278 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga---------------------aagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCACTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAGAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100746461 373 - 128539186 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCAGTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAACTATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAATTAGCATCATCCTAACAAGGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       141532 370 +    435186 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga---------------------aagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCACTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3529799 373 +   9309688 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aaaaag---aagaCACAAACTTGCTTTCAAGACAGGTTAATACAAGCCCTTCCTCAGTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAGTGGATTGCAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTC-AAAAGCTTATT-AGCATCTGGTTCAAAATGCACAGACC--ACAAGTTAGCATCATCCTAACAAGGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11366325 377 -  29834108 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAAAGa-------gaaga------------------aagaagaag---aagaaaaagaagaCACAAACTTGCTTTCCAGACAGGTTAACACAAGCCCTTCCTCAGTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCTAAAAACGCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAATGACAGTATCAAAAAGGTTCGAAAAGCTTATT-AGGATCAGGTTCAAAATGCACAGACC--ACAAGTTAACTTCATCCTAACAAGGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       820025 374 -   1015025 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAAAGG-------gaaga------------------aagaagaag---aagaaa---aagaCACAAACTTGCTTTCTAGACAGGTTAACACAAGCCCTTCCACAGTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGGGCAAAAGAGTTTTGTGTTGTATGGAAAATCTGACTCAACCCCAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAATGACAGTATCAAAAATGTGCAAAAAGCTTATT-AGGATCAGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTAACAAGGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1840421 377 -   2295209 CCACTTTCAACATCTCCATTATTTCAACTAAGACCTCTAGTTATTAGTCTTATTAAaaga-------gaaga------------------aagaagaag---aagaaaaagaagaCACAAACTTGCTTTCCAGACAGGTTAACACAAGCCCTTCCTCAGTGCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGAGAGCAAAAGAGTTTTGTGTTGTATGGAAAATTTGACTCAAACCAAAAACCCAGCCAACACCACAAAGTGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAGTGACAGTATCAAAAAGGTTCAAAAAGCTTATT-AGGATCAGGTTCAAAATGCACAGACC--ACAAGTTAGCTTCATCCTAACAAGGTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2982697 391 +  31815103 CCGCTTTTAATATCTCCATTATTTCAAGGAAGACCTCTAGCTATTAGTTTTATTAAaaga-------gaagaaagcagaagaagaagaagaagaagaag---aaaaag---aagaCACAAAATTTCTTCCCAGACAGGTTAAAACAAGCTCATCCCTAGCTCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGGGAGCAAAGGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATCTTTGAATGACAATATCAGAAAGGTTA-AAAAGCTTAAT-GGAATCTGGTTCAAAACACACAGACC--ACAGGTTAGCTTCATCCTAACAAGGTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5065012 376 +  13104022 CCGCTTTTAATATCTCCATTATTTCAAGTAAGACATCTAGCTATTAATTTTATTAAaaga-------gaaga---------------aagaagaagaag---aaaaag---aagGCACAAAATTTCTTCCCAGACAGGTTAAAACAAGCTCATCCCTAGCTCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGGAAGCGAAGGAGTTTTGTGTTGTATGGAAAATTTGACTCAACCCAAAAACCCAGCCAACACCACAAAATGGATTGGAGTCAAATCAGATAAACAGAAAAA-GAAAAGAATACAAAATATCTTTGAATGACAGTATCAGAAAGGTTA-AAAAGCTTAAT-AGAATCTGGTTCAAAACACACAGACC--ACAGGTTAGCTTCATCCTAACAAGGTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4542691 363 -  12054995 CCTCTTTTAACGTCTCCATTATTTCAAGAAAGACCTCTAGCTGTTAGTTTTATTGAAAGA-------GAAGA------------------------AAG---AAGAAA---AAGACACAAAATTTCTTCCCAGACAGGTTAAAACAAGCTCTTCCTTAGCTCTCTATTCTTGATTTAAGGAACATTCTCAGAGTGGGAGCAAAGAAGTTTTGTGTTGTATGGAAAATTTGACTCAATCCAAAAACCCAGCCAACACCACAAAATGGACTGGAATCAAATCAGATAAAT------A-GAAAAGAATACAAAATACCTTTGAATGACAGTATCAAAAAGGTTA-AAAATCTTAGT-AGAATCCGATTCAAAACACACAGACCAGAGAGGTTAGCTTCATCCTAACAAGGTG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2387135 371 - 149736546 CCACTTATAACGTTGCCATTATTCCAGCTGAAAGCTCTAGTTATTAGTTTTATTAAAAGA-------GGGGC------------------AAGAAGGAGGCAAAGGAG---AAGCCACAGGCTTGCTTCCCAGGCAGGTTAATACACGCCCCTCCTCGGCTC-----TCTTGATTTAAGGAACATTCTCAAAGGGAGAAGAAAGGAGTTTGGGGTTGTATGGAAATTTTGACTCAACCCAAAACCCCAGCCAACACCACAAAGTGGAGTGGAGTCAAATCAGATAAATAGAAAAAGGAAAAGAATATAAAATATCTTTGATTGACAGTATCAAAAAGGTTA-AAGAGCTTAGC-AGAA-CTGGCCCAGAACATACAGATC--CCAGTCTTGATTTCTCTTGGGAAGGTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19698212 381 +  45876710 CCACTTTTATCATCTCCATTATTTCAGCTAAGACCTCAGGTTATTAGTTTTACTAGAAGAAGGAGAGAAAGA------------------AAGACGACC---CAAAAA---AAGTCACAAACATGTTTCCCAGACAGGTTAATACAAGCTCTTCCTCAGCTCTCTATTCTTGACTTAAGGAACATTCTCAGAGTGAGAGCAAAGAAGTTTTGGGTTGTATGGAAAATTTGACTCAAACCAAAAAGCCAGCCAACACCACAAAATGGATTGGAGTCAAATCAGATAAATAGAAAAA-GAAAAGAATACAAAATATTTTCGAATGACAGTATCAGAAAGGTTA-AAAAGCTTAACAAGAACCTGATTCAAAACATAGAGGCT--ACAGTGTAACTTCACCCTAACGAGGTG
i canFam3.chr27             I 211 C 0
s dasNov3.JH562883             898278 375 -   1687904 CCACTTTTAACATCTTCATTATCTCAACCAAAACCTCCAAGTATTACTTTTATTAAAAGA-------GAAAA------------------ATGAAGAAG---AAGAAATA-AAGCCACAAACTTGCTTTCTAGACAGGTTAACACAAGTTCTCCCTTAGCTTTCAAGTCTTGACTTAAGGAACATTCTCAGAGTGAGAGCAAAGGAGTTTTGGGTTGTATGGAAAATTTGACTCAAACCAAAAACTAAGCCAATACCACAAAATGGATTGAAGTCAAATCAGATAAATATTAAAA-GAAAAGAATACAAAACATTTTTGAATGACAATATCAGAAAGGTTA-AAAAGCCTACG-AGAATCTGGTTTGAAATGCACGGGCC--ACAATTTAGCTTCAGACTAACAAGGTG
i dasNov3.JH562883          C 0 C 0

a score=305113.000000
s hg38.chr12_GL383549v1_alt     50930 28 +    120804 CTTTTAGTTATTGATT-AAGTGATTTTTT
s panTro5.chr12              62742414 28 + 137163284 CTTTTAGTTATTGATT-AAGTGATTTTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60866413 28 + 135337776 CTTTTAGTTATTGATT-AAGTGATTTTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3081738 28 -  32808036 CTTTTAGTTATTGATT-AAGTGATTTTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104577828 28 - 133663169 CTTTTAGGTATTGGTT-AAATGATTTTTT
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             108977342 28 - 137757926 CTTTTAGGTATTGGTT-AAATGATTTTTT
i macFas5.chr11             C 0 I 1
s macNem1.NW_012011422v1      1355121 28 -   7948249 CTTTTAGGTATTGGTT-ACATGATTTTTT
i macNem1.NW_012011422v1    C 0 I 1
s cerAty1.NW_011999477v1      8256195 28 -  10730278 CTTTTAGGTATTGGTT-AAATGATTTTTT
i cerAty1.NW_011999477v1    C 0 I 1
s chlSab2.chr11             100746834 28 - 128539186 CTTTTAGGTATTGGTT-AAATGATTTTTT
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       141902 28 +    435186 CTTTTAGGTATTGGTT-AAATGATTTTTT
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3530172 28 +   9309688 CTTTTAGGTATTGGTT-AAATGATTTTTT
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11366702 28 -  29834108 CTTTTAGGTATTGATT-AAATTATTTTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       820399 28 -   1015025 CTTTTAGGTATTGATT-AAATTATTTTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1840798 28 -   2295209 CTTTTAGGTATTGATT-AAATTATTTTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2983088 28 +  31815103 AATTTAAATATTGATT-AACTGATGTTTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5065388 28 +  13104022 AATTCAAATATTGATT-AAAGGATGTTTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4543054 29 -  12054995 GTTTTAAATATTGATTAAAATGATATTTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2387506 23 - 149736546 --CTCAGGTATTGACT-ACAGGGTGC---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19698593 28 +  45876710 CTTTAGAGTATTGATT-TAATGATGTTTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             898653 28 -   1687904 CTTTTAAGAAACAATT-AAATGACGTTTC
i dasNov3.JH562883          C 0 C 0
e nomLeu3.chr23               7265882 28 +  34552619 I

a score=7343640.000000
s hg38.chr12_GL383549v1_alt     50958 452 +    120804 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCTCCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTGTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTGTGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAAGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
s panTro5.chr12              62742442 452 + 137163284 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCAGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCTCCCAAATCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTATAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTGTGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60866441 452 + 135337776 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCTCCCAAATCTCCCAGTGTATTATTCATGT-AATCTGGATATCTCATGAAAACAAAATGTACAAGACTGTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTGTGCTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACTTTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGACGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3081766 452 -  32808036 CATTCCTGTGCACATAG-ACATGTAATTCAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCTCCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTGTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTGTGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAATGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7265910 451 +  34552619 CTTTCCCAGGCACATAC-ACATGTCAGTAATTTTTCACAAACATATACTTTCTCCTCGGAGGGCGCTT-TGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i nomLeu3.chr23             I 28 C 0
s rheMac8.chr11             104577857 446 - 133663169 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGGGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGC------A
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             108977371 446 - 137757926 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGGGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGC------A
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1355150 446 -   7948249 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGGGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATATTGATACTTTCTATTTTAAGC------A
i macNem1.NW_012011422v1    I 1 C 0
s cerAty1.NW_011999477v1      8256224 446 -  10730278 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTGAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATATTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGGGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGC------A
i cerAty1.NW_011999477v1    I 1 C 0
s chlSab2.chr11             100746863 446 - 128539186 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAAACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGC------A
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       141931 446 +    435186 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGGGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGC------A
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3530201 446 +   9309688 CATTCCTGTGCACATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAACAGTATGTTTTTACTTCTGTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAGCCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTGATGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGGGGATTTGGGCTAGTGATACATTTTGATATTTTCTATTTTAAGC------A
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11366730 450 -  29834108 CATTCCTGTGCACACAG-GCATGTAATGAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCAGGAAAACAAAATGTACAAGACTCTGGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAATAGTATGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATAT-GGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATCTGGGCTAGTGATACATTTTGATAGTTTCTATTTTAAGCACCCC-A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       820427 450 -   1015025 CATCCCTGTGCACATAG-GCATGTAATGAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCAGGAAAACAAAATGTACAAGACTCTGGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAATAGTATGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAGTACTGAATAGAATAT-GGGCTCTCTGGCAGACTAACGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATCTGGGATAGTGATACATTTTGATACTTTCTATTTTAAGCACCCC-A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1840826 451 -   2295209 CATTCCTGTGCACATAG-GCATGTAATTAAATGTTCACAAACATATACATTCCTCTCGGTTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTGGATATCTCAGGAAAACAAAATGTACAAGACTCTGGT-------------------------------GCCAGTTAGCATGTGAAAATATCCGGCAATAGTATGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGTTATAATGGGAAAGGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAACCAATACTGAATAGAATATGGGGCTCTCTGGCAGACTAATGGAGGGCAACCTTCAAG------------------GATCTGAGTCAGATGAGGATCTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCC-A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2983116 468 +  31815103 CTCTCCTATGCCCATAG-ACATGTAACTAAATGTTCACAAACATATACATTCCACTT-GGTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTAGATATCTCATGAAAACAAAATGTACAAGACTTTAGT-------------------------------GCCAGTTAGCATATGAAAATATCTGGCAACAGTCTGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGTTATAATGGAAAACGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGACCCT-TGTATTTTAC-AAAACCAAGAAATCAATCCTGAATAGAACACAGGGCTCTTTGGCAGACTAATGAAGGGCAACCTTCAAGAACTATAACC-GTGAAAGGATCTGGGTCAGATGAGGATTTAGGCTGGTGATACATTTTGATACTTTCTATTTTAAGCACCCAAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5065416 469 +  13104022 CTCTCCTATGCCCATAG-ACATGTAATTAAATGTTCACAAACATATACATTCCTCTTGGGTTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTAGATATCTCATGAAAACAAAATGTACAAGACTTTAGT-------------------------------ACCAGTTAGCATGTGAAAATATCTGGCAACAGTCTGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGTTATAATGGAAAATGATTAGTAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGACATTGGCCCT-TGTATTTCAC-AAAACCAAGAAATCAATCCTGAATAGAATACAGGGCTCTTTGGCAGACTAATGAAGGGCAACTTTCAAGGACTACAACC-GTGAAAGGATCTGGGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4543083 468 -  12054995 CTTTCTTATGCCCATAG-ACATGCAATTAAATGTTCACAAACATATATATTCCTCTG-GGCTTGGTTTCTGTAACTACC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGT-AACCTAGATATCTCATGAAAACAAAATGTACAAGACTCTAGT-------------------------------GCCAATTAGCATTTGAAAATATCTGGCAACAGACTGTTTTTACTTCTTTGATAAACTGTATTGTCTTTTTGGTATGATGGAAAATGATTAGTAAGATTTATCAAATAAACAGCAGTTTCCTTAGAGACACTGACCCT-TATATTTTAC-AAAACCAAGAAATCAATCCTGAATAGAACATGAGACTCTTTTGCAGACTGATGAAGGGCAACCTTCAAGGACTATAACC-ATGAAAAGATCTGGGTCAGATGAGGATTTGGGCTAGAGAGACATTTGGATACTTTCTATTTTAAGCACTCGAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2387529 496 - 149736546 --CTCCCCTGCCCATGG-TAACACAATCAAGTGTTCA-AAACTTATATATTCTTCT-GAGTTCAGTTTCTGGAACTACC--AAAAATAACGTTTGTAAGAAGTCACCCACATCTCCCAGTGTATTATTCATGT-AACCTAGATATCTCATGAAAACAAGATGCCCATGACTGTAGTGCAGAGAACACGTGGAGACTGACACCCTGCAGCCAGGAAGCACGTGGAAACACCCTGCAGCC-TCTTTTTTAATGTCTTTGATATGCTGTGTTGTGTTTCTGCTGTAATGGAAGAGGCCTAGTCCAGTTTAGTAAGTAAACAGCAGCTGCCCT---GACACTGTCACTGTGACTGGGAC-ATCTCCAGGACATGGATCATGAGTAGAATGTGGAGGTCTTTGACTGACTAATAGAAGGCAGGCTTAGAGGTCCACAACCAATAGAAAGAGCTGGGTCAGATGAGGATTCTGACCAGTGACACATTCTGACATTTGGCATTCTAAGCACTGCAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19698621 471 +  45876710 CTCTCCTATGCCCATAG-AAATGTAATTAAATTGTCACAAACATATACATTCCTCTTGGGTTTGGCTTCTGTAACTCCC--AAAAATAATGTTTG--AGAAATCACCCAAACCTCCCAGTGTATTATTCATGTAAACCTAGATATCTCACGAAAACAAAACGTACAAGACCCAAGT-------------------------------GCCAGTTAGAATGTGAAAATATCCAGCAAAAGTCTGTTTTTACTTCTTTGATAAGCTGTATTGTCTTTTTGTTATAATGGAAAAGGATTAGCAAGGCTTACCAAATAAACAGCAGCTTCCTTAGAGAAACTGACCCT-CGTATTTTATAAAAACCAAGAAATCAATCCTGAAGAGAACATGGGGGTCTTTGACAGACTAATGGAGGGCAAACTTCAAGGTCTATAACCATGAAAA-GATCTGGGTCAGATGAGGATTTGGGCTAGTGATACATTTTGATACTTTCTATTTTAAGCACCCCAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             898681 470 -   1687904 CTCTCCTGTACCCACAGAAAATGTAATTAAATGTTCACAAATATATACATTCTTGTTGGGTTTGGTTTCCGTAACTACCAAAAAAATAACGTTTG--AAAAACCACCCAAGCCTCCCAGTGTATTATCCATGT-AACCTAGATATCTCACAAAAACAAAACACGCAAGACTTCAGT-------------------------------GGCAGTTGGGGTACGAAAATACTCCACAGCAGGCTGATTTTACTTCTTTGATAAGCCGCATTGTCTTTTTGGTATAATGGAAAAGGATTAGGAAGGCTTA-CAAGTAAGCAGCAGCTTCCCGAGACATGTTGTTCCT-AATATTTTAT-AAAACCAAGAAATCAATCCCAAAGAGAAGACGGGAGTCTTTGACAGACTAGTGGAGGA-AAGCTTCAAGGTCTCTAACCATAAAAA-GATCTGAGTCAGATGAGAATTTGGGCTAGTAATGCATTTTGATACTTTCTATTTtaagcaccccca
i dasNov3.JH562883          C 0 C 0

a score=1458840.000000
s hg38.chr12_GL383549v1_alt     51410 101 +    120804 AAGCTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TTTAGAACTTTTTGCCTGTTTTTGGCCTGGAAA
s panTro5.chr12              62742894 101 + 137163284 AAGCTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TTTAGAACTTTTTGCCTGTTTTTGGCCTGGAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60866893 101 + 135337776 AAGCTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TTTAGAACTTTTTGCCTGTTTTTGGCCTGGAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082218 104 -  32808036 AAGCTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCCTTTTTTTGAACTTTTTGCCTGTTTTTGGCCTGGAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266361 101 +  34552619 AAGCTAGATGCTTATAAACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TTCAGAACTTTTTGCCTGTTTTTGGCCTGGAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578303 101 - 133663169 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTATTCC---TCCAGAACCTTTTGTCTGTTTTTGGCCTGGAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108977817 101 - 137757926 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTATTCC---TCCAGAACCTTTTGTCTGTTTTTGGCCTGGAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1355596 101 -   7948249 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTATTCC---TCCAGAACCTTTTGTCTGTTTTTGGCCTGGAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8256670 101 -  10730278 AAGTTAGATGCTTATACACAGCTAATCTAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTGTTCC---TCCAGAACCTTTTGTCTGTTTTTGGCCTGGAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747309 101 - 128539186 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTGTTCC---TCCAGAACCTTTTGCCTGTTTTTGGCCTGAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142377 101 +    435186 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTGTTCC---TCCGGAACCTTTTGTCTGTTTTTGGCCTGGAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3530647 101 +   9309688 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTATAGTCTGCAAAATTGTGTTCC---CCCAGAACTTTTTGCCTGTTTTTGGCCTGGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367180 101 -  29834108 AAGTTAGATGCTTATACACAGCTAATCCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TCCAGAGCTTTTTGCCTGTGTTTGGCCTGGAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       820877 101 -   1015025 AAGTTAGATGCTTATACACAGCTAATTCAA---TTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TCCAGAGCTTTTTGCCTGTATTTGGCCTGGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841277 104 -   2295209 AAGTTAGATGCTTATACACAGCTAATCCAATTTTTTTTT--CTAAAAATCTGTAGTCTGCAAAATTGTGTTCC---TCCAGAACTTTTTGCCTGTGTTTGGCCTGGAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2983584 101 +  31815103 AATTTAGATGTTTATATATAGCTTATCTAA---TTTTTT--ATAAAAGTCTTTAGTTTGCAAAATTGTGTTCT---TCCAGAACATTTTGCCTGTGTTTGGTCTGGAAA
i micMur3.chr21             C 0 I 52
s proCoq1.NW_012140524v1      5065885 102 +  13104022 AATTTAGATGTTTATATATAGCTTATCTAA---TTTTTTA-AAAAAAATCTTTAGTTTGCAAAATTGTGTTCT---TCCAGAACTTTTTGCCTGTGTTTGGCCTGGAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4543551 103 -  12054995 AATGTAGATGCTCATATATAGATTATCCAA---TTTTATATAAAAAAAACTTTAGTCTGCAAAATTGTGTTCT---TCCAAAATGTTTTGCCTTTGTTTGGCCTGGaaa
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19699092 102 +  45876710 AATTTAAATGCTCGTGCATGGCTTATCCAA---TTTTTTT-CTGAAAATCTTTAGTCTGCAAAATTGTGTTCT---TCCAGGACATTTTGCCTGTGTTTGGCCTGGAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             899151 101 -   1687904 aattcagatacttatacgcagcttatccaa---ttcttt--ctgaaaatcttaagtctgcaaaattgTGTTCT---CTCAGGAGTCCTTGCCTATGTTTCGCCTGGAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2388025   0 - 149736546 C

a score=692476.000000
s hg38.chr12_GL383549v1_alt     51511 60 +    120804 TGATAATATTTA-AATAATACATCTTGAAATGCAGAGGTCCACCCAAAGGAAAAATAAC-AT
s panTro5.chr12              62742995 60 + 137163284 TGATAATATTTA-AATAATACATCTTGAAATGCAGAGGTCCACCCAAAGGAAAAATCAC-AT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60866994 60 + 135337776 TGATAATATTTA-AATAATACATCTTGAAATGCAGAGGTCCACCCAAAGGAAAAATAAA-AT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082322 59 -  32808036 TGATAATATTTA-AATAATACATCTTGAAATGCAGAGGT-CACCCAAAGGAAAAATAAC-AT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266462 61 +  34552619 TGATAATATTTATAATAATACATCTTGAAATGCAGAGGTACACCCGAAGGAAAAATAAC-AT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578404 62 - 133663169 TGATAATATTTATAATAATACATATTGAGATGCAGAGGTACACCCAAAGGAAAAATAGCAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108977918 62 - 137757926 TGATAATATTTATAATAATACATATTGAGATGCAGAGGTACACCCAAAGGAAAAATAGCAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1355697 62 -   7948249 TGATAATATTTATAATAATACATATTGAGATGCAGAGGTACACCCAAAGGAAAAATAGCAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8256771 62 -  10730278 TGATAATATTTATAATAATACATATTGAGATGCAGAGGTACACCCAAAGGAAAAATAGCAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747410 62 - 128539186 TGATAATATTTATAATAATACATATTGAAATGCACAGGTGCACCCAAAGGAAAAATAGCAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142478 62 +    435186 TGATAATATTTATAATAATACATATTGAGATGCAGAGGTACACCCAAAGGAAAAATAGCAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3530748 62 +   9309688 TGATAATATTTATAATAATACATATTGAAATGCAGAGGTGCACCCAAAGGAAAAATAGCAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367281 62 -  29834108 TGATAATACTTATAATAATATGTCTTGAAATGCAGAGGTGCACCCAAAGGAAAAATAGCAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       820978 62 -   1015025 TGATAATACTTATAATAATATATCTTGAAATGCAGAGGTGCACCCAAGGGAAAAATAACAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841381 62 -   2295209 TGATAATACTTATAATAATATATCTTGAAATGCAGAGGTGCACCCAAAGGAAAAATAACAAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5065987 46 +  13104022 ---------CCATA-------ATCTTGAAATGCAGAGGTGTACCCAAAATAAAAATAATAAT
i proCoq1.NW_012140524v1    C 0 I 4
s otoGar3.GL873576            4543654 57 -  12054995 ttataatatttata---atatatCTTGAAATGCAGAGGTGTACCCAAAAGaaaaataat--t
i otoGar3.GL873576          C 0 I 6
s canFam3.chr27              19699194 61 +  45876710 TGATAATGTTTATCATAATATATCTTGAAATGCAGAGGTATGCCCAAAGGaataataataa-
i canFam3.chr27             C 0 I 9
s dasNov3.JH562883             899252 61 -   1687904 TGataatatttataataatatatCTTGAAATGCAGAAGTGTGCTCAAAGGAAAAATAATAA-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2388025  0 - 149736546 C
e micMur3.chr21               2983685 52 +  31815103 I

a score=412099.000000
s hg38.chr12_GL383549v1_alt     51571 26 +    120804 AAAAGAAAGTGAACCAGACACTTTCA
s panTro5.chr12              62743055 26 + 137163284 AAAAGAAAGTGAACCAGACACTTTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60867054 26 + 135337776 AAAAGAAAGTGAACCAGACACTTTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082381 26 -  32808036 AAAAGAAAGTGAACCAGACACTTTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266523 26 +  34552619 AAAAGAAAGTGAACCAGACACTTTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578466 26 - 133663169 AAAAGAAAGTGAACCAGACACTTTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108977980 26 - 137757926 AAAAGAAAGTGAACCAGACACTTTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1355759 26 -   7948249 AAAAGAAAGTGAACCAGACACTTTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8256833 26 -  10730278 AAAAGAAAGTGAACCAGACACTTTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747472 26 - 128539186 AAAAGAAAGTGAACCAGACACTTTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142540 26 +    435186 AAAAGAAAGTGAACCAGACACTTTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3530810 26 +   9309688 AAAAGAAAGTGAACCAGACACTTTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367343 26 -  29834108 AAAAGAAAGCGAACCAGACTCTTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       821040 26 -   1015025 AAAAGAAAGCGAACCAGACACTTCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841443 26 -   2295209 AAAAGAAAGTGAACCAGACACTTCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2983737 26 +  31815103 AAAAGAAAATGAACCAGACACTTTCA
i micMur3.chr21             I 52 I 137
s proCoq1.NW_012140524v1      5066037 26 +  13104022 AAAAGAAAGTGAACCAGACACTTTCA
i proCoq1.NW_012140524v1    I 4 C 0
s otoGar3.GL873576            4543717 26 -  12054995 aaaaaaaaaGGAACCAAACACTTTCA
i otoGar3.GL873576          I 6 C 0
s canFam3.chr27              19699264 26 +  45876710 ataattaaGTGAACCAGACACTTTCA
i canFam3.chr27             I 9 C 0
s dasNov3.JH562883             899313 26 -   1687904 TAATAAAAGTAAACCAGACACTTTCA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2388025  0 - 149736546 C

a score=694200.000000
s hg38.chr12_GL383549v1_alt     51597 64 +    120804 GGCCTCAAAAAAGGTCTTACTCGGCTTAGCGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
s panTro5.chr12              62743081 64 + 137163284 GGCCTCAAAAAACGTCTTACTCGGCTTAGCGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60867080 64 + 135337776 GGCCTCAAAAAAGGTCTTACTCGGCTTAGCGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082407 64 -  32808036 GGCCTCAAAAAAGGTCTTATTCGGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266549 64 +  34552619 GACCTCAAAAAAGGTCTTATTCGGCTTAGCGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578492 64 - 133663169 GACCTCAAAAAATGCCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108978006 64 - 137757926 GACCTCAAAAAATGCCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1355785 64 -   7948249 GACCTCAAAAAATGCCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8256859 64 -  10730278 GACCTCAGAAAATGTCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747498 64 - 128539186 GACCTCAAAAAATGTCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCAGGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142566 64 +    435186 GACCTCAAAAAACGTCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TCGGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3530836 64 +   9309688 GACCTCAAAAAATGTCTTATTCAGCTTAGTGAGTGC-TTTGGGTGAAGGCTCAGAGGG-----TTGGGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367369 60 -  29834108 GACCTCAAAAAAG----TATTCAGCTTAGCAAGTGC-TTTCGGTGAAGGCTCAGGGGG-----TCAGCGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       821066 59 -   1015025 GACCTCAAAAAAG----TATTCAGCTTAGCAAGTGC-TTTCGGTGAAGGCTCAGGGGG-----TCGG-GG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841469 60 -   2295209 GACCTCAAAAAAG----CATTCAGCTTAGCAAGTGC-TTTCAGTGAAGGCTCAGGGGG-----TCAGGGG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5066063 60 +  13104022 AACTTCAAAAAAAGTTT-----GGTTTAGTGAGTGCTTTTGGGTGAAGGCTGAAAGGG-----TAGGGGC
i proCoq1.NW_012140524v1    C 0 I 43
s otoGar3.GL873576            4543743 59 -  12054995 AATTTCAAAAAAAGTAT-----GTTTTAGGGAATGC-TTTGGGGGAAGCCTCAAAGGG-----TGAGGGC
i otoGar3.GL873576          C 0 I 43
s canFam3.chr27              19699290 59 +  45876710 AACCTCAAAGAATGTTT-----GGTTTAGTGAGTGC-TTTGGGTGAAGACTCAAAGTG-----TGGGGGT
i canFam3.chr27             C 0 I 43
s dasNov3.JH562883             899339 64 -   1687904 AACCTCAAAGAATGTTT-----GACTTAGTGAGTGC-TTTGGGTGAGGGCTCAAATGGACTTTTTAAAAG
i dasNov3.JH562883          C 0 I 25
e mm10.chr6                   2388025  0 - 149736546 C
e micMur3.chr21               2983763 137 +  31815103 I

a score=2577648.000000
s hg38.chr12_GL383549v1_alt     51661 194 +    120804 GCCAAAACAAGCCTGGTA-TTTTTCAAACAAAAATTTT-ACTGTATATTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACACGCAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGCTTACATTACC
s panTro5.chr12              62743145 194 + 137163284 GCCAAAACAAGCCTGGTA-TTTTTCAAACAAAAATTTT-ACTGTATATTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACACGCAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGCTTACATTACC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60867144 194 + 135337776 GCCAAAACAAGCCTGGTA-TTTTTCAAACAAAAATTTT-ACTGTATATTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACACGCAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTTTTGTGCTGTCTGAGCTTACATTACC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082471 194 -  32808036 GCCAAAACAAGCCTGGTA-TTTTTCAAACAAAAATTTT-ACTGTATATTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAAATTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGCTTACATTACC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266613 194 +  34552619 GCCAAAACAAGCCTGGTA-TTTTTCAAACAAAAATTTT-ACTATATATTGTACAAGTAAAGAAAATGAGAAGAGATAAAAGTATGCACAGTTTAGAATTTAAC-TTT-----TTGGGT--TG----GCAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGCTTACATTACC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578556 194 - 133663169 GCCAAAACAAGTCTGGCG-TTTTTCAAACAAAAATTTT-ACTATATACCGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTTTGCTGTCTGAGGTTACATTACC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108978070 194 - 137757926 GCCAAAACAAGTCTGGCG-TTTTTCAAACAAAAATTTT-ACTATATACCGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTTTGCTGTCTGAGGTTACATTACC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1355849 194 -   7948249 GCCAAAACAAGTCTGGCG-TTTTTCAAACAAAAATTTT-ACTATATACCGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACGTCAGCTCTTTTGCTGTCTGAGGTTACATTACC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8256923 194 -  10730278 GCCAAAACAAGTCTGGTG-TTTTTCAAACAAAAATTTT-ACTATATACTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTGAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACGCGTCAGCTCTTTTGCTATCTGAGGTTACATTACC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747562 194 - 128539186 GCCAAAACAAGTCTGGTG-TTTTTCAAACAAAAATTTT-ACTATATACTGTACAAGTAAAGAAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGGATCTAGACATTTTCAAATACACGTCAGCTCTTTTGCTGTCTGAGGTTACATTACC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142630 194 +    435186 GCCAAAACAAGTCTGATG-TTTTTCAAACAAAAATTTT-ACTATGTACTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCATGCACAGTTTAGAATTGAAC-TTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACGCGTCAGCTCTTTTGCTGTCTGACATTACATTACC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3530900 195 +   9309688 GCCAAAACAAGCCTGGCG-TTTTTCAAACAAAAATTTT-ACTATATACTGTACAAGTAAAGGAAATGAGAAGAGATAAAAGCACGCACAGTTTAGAATTTAACATTT-----TTGGGG--TG----GAAACTTGAAAGCACTTAAGAAGTGGAATCTAGACATTTTCAAATACACATCAGGCTCTTTTCTGTCTGAGGTTACATTACC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367429 193 -  29834108 GCCAAAACAAGCCTGGTG-TTTTTCAAAC-AAAATTTT-TCTATATATTGAATAAGTAAAGGAAATGAAAAGAGATAAAAGAATGCACAGTTTAGAATTTAAC-TTT-----TGGGGG--TG----GAAACTTAAAAGTACTTAAGAAGTGAAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGGTTACATTACC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       821125 192 -   1015025 GCC-AAACAAGCCTGGTA-TGTTTCAAAC-AAAATTTT-TCTATATATTGAATAAGTAAAGGAAATGAAAAGAGATAAAAGAACACACAGTTTAGAATTTAAC-TTT-----TGGGGG--TG----GAAACTTAGAAGTACTTAAGAAGTGAAATCTAGACAATTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGGTTACATTACC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841529 193 -   2295209 GCCAAAACAAGCCTGGTA-TTTTTCAAAC-AAAATTTT-ACTATATGTCGAATAAGTAAAGGAAAGGAAAAGAGATAAAAGAACGCACAGTTTAGAATTTAAC-TTT-----TGGGGG--TG----GAAACTTAAAAGTACTTAAGAAGTGAAATCTAGACATTTTCAAATACACATCAGCTCTTGTGCTGTCTGAGGTTACATTACC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2983900 194 +  31815103 GCCAAAACAAGGTTGGTA-TTTTTCAAACAAAAATTTC-ACTATATATTGAATAAGTAAAAGAAGGGGAAAGAGATAAAAGCAAGCACAGTTTAGAATTTAAC-TTG-----GTGGGGGTTG-GGGGATACTT-AAAGCACTTAAG---TGGAATCTAGACATTTTC-AATACACATCAGCTCTTGTGCTGTCTGAGGTTACATCACC
i micMur3.chr21             I 137 C 0
s proCoq1.NW_012140524v1      5066166 195 +  13104022 GTCAAAACAAGGTTGGTA-TTTTTCAAACAAAAATTTT-ACTATAGGTTGAATAAGTAAAAGAAAGGGAAAGAGATAAAAGCGAGCACAGTTTACAATTTAAC-TTG-----GTGGGGGTGGCGGGGATACTT-AAAGCACTTAAG---TGAAGTCTAGACATTTTC-AGTACACATCAGTTCTTGTGCTGTTTGAGGTTACATCACC
i proCoq1.NW_012140524v1    I 43 C 0
s otoGar3.GL873576            4543845 187 -  12054995 GCCAAAACAAGTTGGGTATTTTTTTAGACAGAAATTTT-ACT---------ATAAGTAAAAGAACGGGAAAGAGATAAAAGTAAGCTCAGTTTAGAATTTAAC-TTG-----GAGGGGGCAG----GATACTT-AAAGCACTTAAGAAATAGAATCTAGACATTTTCAAATACACGTCAGCTCTTGTGCTGTCTGAGGTTACATCACC
i otoGar3.GL873576          I 43 C 0
s canFam3.chr27              19699392 185 +  45876710 GCCAAAGCAAGGTTGGTA-TTTTCCAAACAGAATTTTT-ACTATGTACTG------------AAAGGAAAAGAGATAAAGGTGAGCACAGTTTAGAATTTAGC-TTTTGATGTCGGGG--GG----GACATTT-AAAGCACTTGAGAAGTAGAATCTAGACATTTT-AGATACACATTAGCTCTTGCACTGTCTGAGGAAACATCACC
i canFam3.chr27             I 43 C 0
s dasNov3.JH562883             899428 192 -   1687904 GCCGAAACAAGTTCGGTA-TTTTTTGAACAAAAATTTTCACCGTATATTGACTTTATTAAGGAAAGGGAAAGAGAAAAAGACCAACACAGTTTAGAATGTAAT-TTG-----GCAGTG--GG----GGTGTTT-AAAGCATTTACAAAGTAGAATCTAGACATTTTCGAATACACATCAGCTCTTGTACTGTC--AGGTTACATCACC
i dasNov3.JH562883          I 25 C 0
e mm10.chr6                   2388025   0 - 149736546 C

a score=7882849.000000
s hg38.chr12_GL383549v1_alt     51855 500 +    120804  
s panTro5.chr12              62743339 500 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60867338 500 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3082665 500 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7266807 500 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104578750 500 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108978264 500 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1356043 500 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8257117 500 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100747756 500 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       142824 500 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3531095 496 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11367622 497 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       821317 499 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1841722 504 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2984094 483 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5066361 499 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4544032 498 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2388025 509 - 149736546  
i mm10.chr6                 C 0 I 317
s canFam3.chr27              19699577 500 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             899620 487 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=2406630.000000
s hg38.chr12_GL383549v1_alt     52355 188 +    120804 CATTTCTAGAAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGTGAGTCGAACTGCCTAGACACAACGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTGAAAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
s panTro5.chr12              62743839 188 + 137163284 CATTTCTAGAAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGTGAGTCGAACTGCCTAGACACAATGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTGAAAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60867838 188 + 135337776 CATTTCTAGAAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGTGAGTCGAACTGCCTAGACACAACGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTGAAAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3083165 188 -  32808036 AATTTCTAGAAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGTGAGTCGAACTGCCTAGACACAACGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTGAAAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7267307 184 +  34552619 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGCGAGTCAAACTGCCTAGACACAGCGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC----AGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104579250 187 - 133663169 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAAGCGAGTAGAACTGCCTAGACACAGTGGCAGGATGATTCCCTTTGAAGTCGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108978764 187 - 137757926 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAAGCGAGTAGAACTGCCTAGACACAGTGGCAGGATGATTCCCTTTGAAGTCGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAATATAATGCTTTGGTGGAGG--TAAAACCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1356543 187 -   7948249 CGTTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAAGCGAGTAGAACTGCCTACACACAGTGGCAGGATGATTCCCTTTGAAGTCGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8257617 187 -  10730278 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGTCCCTAAAAGGCAAAGTAGAAGGCGAGTAGAACTGCCTAGACACAGTGGCAGGATGATTCCCTTTGAAGTCGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100748256 187 - 128539186 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGCGAGTAGAACTGCCTAGACACAGCGGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTCGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       143324 187 +    435186 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGTCCCTAAAAGGCAAAGTAGAAGGCGAGTAGAACTGCCTAGACACAGTGGCAGGATGATTCCCTTTGAAGTCGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3531591 187 +   9309688 CATTTCTAGGAGCACATCAGTGCCAGAGCAAAGAAAAAAAGAGGGGCCCTAAAAGGCAAAGTAGAAGGCGAGTAGAACTGCCTAGACACAGCAGCAGGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATACC-AGGAGATTATCCTG-AAAAAAATAATGCTTTGGTGGAGG--TAAAACCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11368119 187 -  29834108 CATTTCTAGGAGCACATCAGTGCGAGAGCAAAGAACAAAAGAGGGGCCCTGAAAGGCAAAGCAGAAGGCAAGTCAAACTGCCTAGACACAGCGGCATGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCTTTGCAATAGC-AGGAGATTATCCTG-AAAAAAATAATTCCTTGGTGGAGT--TAAAACCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       821816 187 -   1015025 CATTTCTAGGAGCACATCAGTGCAAGAGCAAAGAAAAAAAGAGGGGCCCTGAAAGGCAAAGCAGAAGGCGAGTCAAACTGCCTAGACGCAGCGGCATGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATAGC-AGGAGATTATCCTG-AAAAAAATAATTCTTTAATGGAGT--TAAAACCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1842226 187 -   2295209 CATTTCTAGGAGCACATCAGTGCGAGAGCAAAGAAAAAAAGAGGGGCCCTGAAAGGCAAAGCAGAAGGCGAGTCAAACTGCCTAGACACAGCGGCATGATGATTCCCTTTGAAGTAGGTAGCTGGCTTCCTTGCAATAGC-AGAAGATTATCCTG-AAAAAAATAATTCTTTGGTGGAGT--TAAAACCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2984577 186 +  31815103 CATTTCTAGGAGCACGTCAGAGACAAAGCAAAGAGGAAAAGAGGGGCACTCAAACACAAAGCAC-AGGCAAGTCAAACTGCCTAGAAACAGCGGT---ATGATTACTTTTGAAGAAGGTAGCTGGCTTCCTTGCAATACCATTGAGATCATCCTG-CAGAAATAAATGCTTTGGTGGGGGGTTAAAAACAC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5066860 184 +  13104022 CATTTCTAGGAGCCCATCAGGGACAAAGCAAAGAGAAAAAGAGTAGCACTCAAACACAAAGCACGAGGCAAGTCGAACTGCCTAGAAACAGAGGC---ATGATTACTTCTGAAGAAGGTAGCTGGTTTCCTTGCAATACC-CTGAGAGTATCCTG-AAGAAATTAATGCTTTGATGGGGG--TAAAAACAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4544530 184 -  12054995 TGTTTCTAGGGGCACATCAGTAAGAAAGCAAAGAGGAGAAGAGGGGGACTAAAACACAAAGCCCGAGATGAGTCAAATTGCCTAGAAACAGCGTC---CCAGTTCCTATTGAAGTAGGCAGCTAGCTTCCTTGCAATACC-ATGAGATTATCATG-AAGAAATTAATGCCTTGGAGGGGG--TAAAAAGGT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19700077 179 +  45876710 CATTTCTAGGAGCACAGCAGTGAGAAAGCAAAGA----AATAGAGGAACTGACAGACAAGGCACAGGGGAAGACAAACTGCCTAGAAGCAGCAGCACGATGG---CTTCTGGGGTAGGCAGCAGGCTTCCTTGTAATACC-ATTAGATTATCCTG-AAGAAATGAATGCAGTGGTGGGGG--TAAGATGT-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900107 155 -   1687904 CCCTTCAAGGAGCAATGCAGC-CCAGAGCCAAGA---AAAGAGAGGAACTGAGA------------------------TGCCAGGAAACAACGGT---GTGGCTCCTCTTGAGGTAGGTCTCAGGCTTCCTTGCCCTACC-GTGGGATTATCCTG-AAGAAACTGGTGCTTTGGTGGGAG--CATAACAC-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2388534 317 - 149736546 I

a score=859598.000000
s hg38.chr12_GL383549v1_alt     52543 74 +    120804 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGTGAAGAACAGACAAGCATG--GCGTATCCACTCACTGCTATTTTCCA
s panTro5.chr12              62744027 74 + 137163284 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGTGAAGAACAGACAAGCATG--GCGTATCCACTCACTGCTATTTTCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60868026 74 + 135337776 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGTGAAGAACAGACAAGCATG--GCGTATCCACTCACTGCTATTTTCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3083353 74 -  32808036 GCCGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGTGAAGAACAGACAAGCATG--GCGTATCCACTCACTGCTATTTTCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7267491 74 +  34552619 GCAGTT--ATGGAG-----GTCATATCCAAGCA-----ATGTGAAGAATAGACAGGCATG--GCTTTTCCACTCACTGCTATTTTCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104579437 71 - 133663169 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATAT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108978951 71 - 137757926 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATAT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1356730 71 -   7948249 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATAT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8257804 71 -  10730278 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATAT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100748443 71 - 128539186 GGAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       143511 71 +    435186 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATAT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3531778 71 +   9309688 GCAGTT--ATGGAG-----GTCAGATCCAAGCA-----ATGT---GAACAGACAAGCATG--GCTTACCCATTCACTGCTATTCTCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11368306 59 -  29834108 GTAGTT--ATGGAG-----GTCAGATCCGAGCA-----ATGTGAAGAACAGACAAG-----------------TACTGCTATTTTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       822003 59 -   1015025 GTAGTT--ATGGAA-----GTCAGATCCGAGCA-----ATGCGAAGAACAGACAAG-----------------CACTGCTATTTTCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1842413 74 -   2295209 GTAGTT--ATGGAG-----GTCAGATCCGAGCA-----ATGTGAAGAACAGACAAGCATG--GCTTATCCATTCACTGCTATTTTCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2984763 74 +  31815103 GCAGTT--ATGGGG-----GTCAGGTCCACACA-----ATGTGAAGAACAGACAAGCACA--GCTCCTCCATTCACTGCTGTTTTTCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5067044 74 +  13104022 GTAGTT--ATGAGG-----GACAGGTCCAGACA-----ATGTGAAGAACAGACAAGCACG--GTTTATCCATTCACTGCCATTTTGCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4544714 73 -  12054995 GCAGTTACATGGAT-----GTCAAGTCCAGACA-----GTGTGAAGAATAGACAAGCACA--GCTTACCCATTCACT---ATTTTTCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2388851 73 - 149736546 ACAGTT--ATGG-G-----GTCAGACCTAAAGA-----ATGAAAAGAACAGGCCAGTACA--ATTTGTTTATGCATTGTTACTTTAAA
i mm10.chr6                 I 317 I 244
s canFam3.chr27              19700256 83 +  45876710 GCAGTT--ATGGGGGGGTAGTCAGGTCTAAATAGATACATGTAAGGGACAGACCAGGATT--ACA-GCTAATCCACTCCTATTTTTCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900262 77 -   1687904 ACAGTT--ACAGGG-----GTCAAGTCTAGACA----CTTGTGAAGAACACACGAGCATGCAGCTTGCACAGTCACGGTTTATGTCAT
i dasNov3.JH562883          C 0 C 0

a score=415151.000000
s hg38.chr12_GL383549v1_alt     52617 37 +    120804 GAATCTATA---------TACAGTTAACTAAGGCCTATAATGGTCC
s panTro5.chr12              62744101 37 + 137163284 GAATCTATA---------TACAGTTAACTAAGGCCTATAATGGTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60868100 37 + 135337776 GAATCTATA---------TACAGTTAACTAAGGCCTATAATGGTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3083427 37 -  32808036 GAATCTATA---------TACAGTTAACTAAGGCCTATAATGGTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7267565 37 +  34552619 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104579508 37 - 133663169 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108979022 37 - 137757926 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1356801 37 -   7948249 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8257875 37 -  10730278 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100748514 37 - 128539186 GAATCTATA---------TACACTTAACTAAGGCCTGTAATAGTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       143582 37 +    435186 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3531849 37 +   9309688 GAATCTATA---------TACAGTTAACTAAGGCCTATAATAGTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11368365 46 -  29834108 GAATCTATATCAAATCACTGTAGTCAACTAAGACCTATAATAGTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       822062 46 -   1015025 GAATCTATATCAAATCACTATAGTCAACTAAGACCTATAATAGTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1842487 46 -   2295209 GAATCTATATCAAATCACTATAGTCAACTAAGACCTATAATAGTCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2984837 46 +  31815103 GAATTAATATCAAGTCACTGCGGTCAACTAAGACCTACAATAGTCC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5067118 46 +  13104022 AAATTAGTATCAAGTCACTGAAGTCAACTAAGACCTATAATAGTCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4544787 46 -  12054995 GAATTAATATCAAGTCACTTCAGTTAACTAAGACCTCTATTAGTCC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19700339 25 +  45876710 GGATCAATT---------ATCAATTCATTGCAGC------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900339 41 -   1687904 CAATGTCTA-----CCACTGCAAGCAAGTAATACCTAAAATAGTTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2388924 244 - 149736546 I

a score=8407726.000000
s hg38.chr12_GL383549v1_alt     52654 559 +    120804  
s panTro5.chr12              62744138 559 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60868137 559 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3083464 559 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7267602 556 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104579545 559 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108979059 559 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1356838 559 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8257912 559 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100748551 559 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       143619 559 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3531886 559 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11368411 561 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       822108 519 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1842533 555 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2984883 560 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5067164 560 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 37
s otoGar3.GL873576            4544833 564 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2389168 538 - 149736546  
i mm10.chr6                 I 244 C 0
s canFam3.chr27              19700364 537 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900380 532 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=491480.000000
s hg38.chr12_GL383549v1_alt     53213 43 +    120804 ggaaaaataaaaacaagagtcctcctggggtcagAGAAAATTG
s panTro5.chr12              62744697 43 + 137163284 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAGAGAAAATTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60868696 43 + 135337776 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAGAGAAAATTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3084023 43 -  32808036 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAGAGAAAATTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7268158 43 +  34552619 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAGAGAAAATTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104580104 43 - 133663169 GGAAAAATAATAACAGGAGTCTTCCTGGGGTCAGAGAAAATTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108979618 43 - 137757926 GGAAAAATAATAACAGGAGTCCTCCTGGGGTCAGAGAAAATTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1357397 43 -   7948249 GGAAAAATAATAACAGGAGTCCTCCTGGGGTCAGAGAAAATTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8258471 43 -  10730278 GGAAAAATAATAACAGGAGTCCTCCTGGGGTCAGAGAAAATTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100749110 43 - 128539186 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAGAGAAAATTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       144178 43 +    435186 GGAAAAATAATAACAGGAGTCCTCCTGGGGTCAGAGAAAATTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3532445 43 +   9309688 GGAAAAATAATAACAAGAGTCCTCCTGGGGTCAAAGAAAATTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11368972 43 -  29834108 GGAAAAATAATAACAAGAGTCCTCCTGGTATCAGAGAAAATTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       822627 43 -   1015025 GGAAAAATAATAACAAGAGTCTTCCCGGTATCAGAGAAAATTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1843088 43 -   2295209 GGAAAAATAATAACAAGAGTCCTCCTGGTATCAGAGAAAATTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2985443 38 +  31815103 AGAAAAACAATTACTAGTGTCTTTCTTGTGTTGGAGAA-----
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4545397 37 -  12054995 -AGAAGATGATTACTTGTGTCTTTCTGGTGTCAGAGAA-----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2389706 39 - 149736546 GAAAAAGCCATTTCT----CCTTCCCAGTGTCAGAGGAAGTTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19700901 38 +  45876710 GAAAAAGCAATTACTGATATCCTCCTAATGTTAGGAAA-----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900912 39 -   1687904 GAAAAAACGATTACTAGTATCCTCCTGATGTCAGGGCAA----
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5067724 37 +  13104022 I

a score=6430003.000000
s hg38.chr12_GL383549v1_alt     53256 446 +    120804 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCGGAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAAGACCtcacttaatctctcaaggtctcagtgcccttatgaggagttgaaccacatgattaataa------------------------gtttttgactcctgtatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGGGTAAACATAAATCTTGCCACGTATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGCACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGCTTAGG
s panTro5.chr12              62744740 446 + 137163284 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCGGAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAAGACCtcacttaatctctcaaggtctcagtgcccttatgaggagttgaaccacatgattaataa------------------------gtttttgactcctgtatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGGGTAAACATAAATCTTGCCACGTATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACACGAATATGAGCCAATAAATCTAAATTATAGTATACTGCACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGCTTAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60868739 446 + 135337776 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCGGAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAAGACCTCACTTAATCTCTCAAGGTCTCAGTGCCCTTATGAGGAGTTGAACCACATGATTAATAA------------------------GTTTTTGACTCCTGTATTTAT-GATTTTTAACACTCATGGAATTG------TTAGGGTGGCCTAATGGGTAAACATAAATCTTGCCACGTATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACACGAATATGAGCCAATAAATCTAAATTATAGTATACTGCACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGCTTAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3084066 446 -  32808036 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCGGAGAG------------AAGAGTGCAAGAATCTCCGGGTCAGAAGACCTCACTTAATCTCTCAAAGTCTCAGTGCCCTTATGAGGAGTTGAACCACATGATTAATAA------------------------GTTTTTGACTCCTGTATTTAT-GATTTTTAACACTCAGGGAATTG------TTAGGGTGGCCTAATGAGTAACCATAAATCTTGCCACGTATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGCACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATCGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGCTTAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7268201 446 +  34552619 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCAAAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAAGACCtcacttaatctctcaaggtctcagtgccctcatgaggagctgaaccacatgattaataa------------------------gtttttgactcctgtatttat-gattttTAACACTCACGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGACATGTATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGCACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTATCAATAGAAGTTTAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104580147 446 - 133663169 ATTTGATTTATTCTGCAACAACTCCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCAGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggcgttgaaccacatgattaataa------------------------gtttttgacccctatatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTGTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGTTTAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108979661 444 - 137757926 ATTTGATTTATTCTGCAACAACTCCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCAGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgag--gttgaaccacacgattaataa------------------------gtttttgacccctatatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTGTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGTTTAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1357440 446 -   7948249 ATTTGATTCATTCTGCAACAACTCCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCAGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggtgttgaaccacatgattaataa------------------------gtttttgacccctatatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTGTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGTTTAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8258514 446 -  10730278 ATTTGATTTATTCTGCAACAACTCCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCAGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggcgttgaaccacatgattaataa------------------------gtttttgacccctatatttat-gattttTAACACCCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTGTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCACTTCAAAATAAAGTTGTTATTCCCCTTTCAATAGAAGTTTAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100749153 446 - 128539186 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCGGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggcgttgaaccacatgattaataa------------------------gtttttgactcctatatttat-gattttTAATACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTACACTGTACATTTGCTGTGAGAAATTGCCTATTATC-ACTGCCTGTATGTAAATCATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCATTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGTTTAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       144221 446 +    435186 ATTTGATTTATTCTGCAACAACTCCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCAGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggcgttgaaccacatgattaataa------------------------gtttttgacccctatatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCTGCCTGACTTTG-CCCCAAACTTTTAAAAGCACATGAATATGAGCCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTGTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATTTCCAGGCCAGTGAACTTTTACCCCACTTCAAAATAAAGTTGTTATTCCCCTTTCAATAGAAGTTTAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3532488 446 +   9309688 ATTTGATTTATTCTGCAACAACTTCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCCGGGTCAGAAGACCtcacttcatctctcaaggtctcagtgcccttatgaggagttgaaccacataattaataa------------------------gtttttgactcttatatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAATCTTGCCACATATAATCGGCCTGACTTTG-CCCCAAATTTTTAAAAGCACATGAATATGAGTCAATAAATCTAAATTTTAGTATACTGTACATTTGCTGTGAGAAATTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGT---TAGTAGA-CAAACCACTTAATAATGTCCAGGCCAGTGAACTTTTGCCCCACTTCAAAATAAAGTTGTTATTCTCCTTTCAATAGAAGTTTAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11369015 447 -  29834108 GTTTGATTTATTCTGCAACAACTTCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAGGACCtcacttaatctctcaaggtctcagtgcccttatgaggagttgaaccacatgatcagtaa------------------------gtttttgactcctgtatttat-gattttTAACACTCATGGAATTG------TTAGGGTAACCTAATGAGTAA--ATAGATCTTGCCATGTACAGTCTGCCTGACTTTG-CCTTAAACTTTTAAAAGCACATGAATATGAACAGATAAATCTATATTTTAGTATATTGTACATTTGCTGTGAAAAACTTTCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGTAAGTAGCAGA-CAAACCACTTAATAATTTCCAGGCCGGTGAACTTTTGCCTCACTTCAAAATAAAGTTGCTATTCCCCTTTCAGTAGAAGTTTAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       822670 449 -   1015025 GTTTGATTTATTCTGCAACAACCTCTTACTAGACAGCAGAGAG------------AAGAATGCAAGAATCTCTGGGTCAGAGGACCtcacttaatctctcaaggtctcagtgcccttatgaggagttgaaccacatgatcaataa------------------------gtttttgactcctgtatttat-gattttTAACACTCATAGAATTG------TTAGGGTAGCCTAATGAGTAAACATAGATCTTGCCATGTACAGTCTGCCTGACTTTG-CCCTAAACTTTTAAAAGCACATGAATATGAACCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAAAAACTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGTAAGTATTAGA-CAAACCACTTAATAATTTCCAGGCCGGTGAACTTTTGCCTCACTTCAAAATAAAGTTGCTATTCCCCTTTCGATAGAAGTTTAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1843131 449 -   2295209 GTTTGATTTATTCTGCAACAACTTCTTACTAGACAGCAGAGAG------------AAGAGTGCAAGAATCTCTGGGTCAGAGGACCtcacttaatctctcaaggtctcagtgcccttatgaggagttgaaccacatgatcaataa------------------------gtttttgactcccgtatttat-gattttTAACACTCATGGAATTG------TTAGGGTGGCCTAATGAGTAAACATAGATCTTGCCATGTACAGTCTGCCTGACTTTG-TCCTAAACTTTTAAAAGCACATGAATATGAACCAATAAATCTAAATTATAGTATACTGTACATTTGCTGTGAGAAACTTCCTATTATC-ACTGCCTTTATGTAAATGATTGCTCATAATGTAAGTAGTAGA-CAAACCACTTAGTAATTTCCAGGCCGGTGAACTTTTGCCTCACTTCAAAATAAAGTTGCTATTCCCCTTTCAATAGAAGTTTAGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2985481 469 +  31815103 ATTTGATTTATTCTGTGACATCTTCTTATCAGGTAGCAGAGAG------------AAGAGAGCAAGACTTTCTGAGTCAGAAGACCtcacttaatctctctgggccccgattcccttatgaggggttgcaccatatgatcaataaactcactccttgccctaaATGCT-GTTTTTGACTCCTGTATTTAT-GATTTTTAATGTTCATGGAATTG------TTAGGGTGGCCTCATGAATAAACATAAAGCTTGC----TATCATCTGTATGAATTTGCCCCCAAACCTTTAAAAGCACATAAACATGAACCAATACATCTAAATTATAGTGCATTGTACATTTGTTGTAGAAAACTTCCTATTATC-ACTACTTTTATACAAATGATTGCTCATCACGTAAGCAGGAGA-CATACCACTTAATAATTTCCAGGCCAGTGAATTTCTGCCCAACTGCAGAATAAAGTTGCTATTCTCCTTTCCATAAAAGCTTAGG
i micMur3.chr21             C 0 I 2
s proCoq1.NW_012140524v1      5067761 458 +  13104022 ATTTGATTTACTCTGTGAAATCTTCTTCCCAGGTAGCAGAGAG------------AAGAGTACAAGACTTTCTGAGTCAGAAGATCtcacttaatctctctgggccctggtgctgctatgaggggttgcgctggatgatcaataagctcacttcttgccctaaATGCT-GTTTTTGACTCCTGTATTTAT-GATTGTTAATGTTCGTAGAATTG------TTAGGGTGGCCTAATGAGTAAACATAAAGCTTGC----TATAATCTGTGTGAATTTG-CCCCAAATCTTTAAAAGCAAATAAACATGAACCAATAAATCTAAATTATAGTATACTGTACATTTTCTGTAGAAAACTTCCTATTATC-ACTACTTTTACACAAATGATTGCTCATCACGTGAGTAGGAGACCATACCACTTAATAATTTCCAGGCCAGTGAACTT-----------CAAAATAAAGTTGTTATTCTCCTTTCAACAAAAGCTTACG
i proCoq1.NW_012140524v1    I 37 I 36
s otoGar3.GL873576            4545434 446 -  12054995 ATTTGACTTATTTTGCAACA---TCTTACCAGGTAGCAGAGAG------------AG-----------TTTCTGAATCAGA-------actgaatctctctgggccttagtgcccttatgagggattgtaccaaatgatcactaactttacttcttgccctaaATGCT-G-TTTTGACTCCTTTATTTAC-AATTTTTAATGTTCATGGAATTGTTGTCATTAGGGTAGCCTAATGACTAAATATAAAGCTTGC----TGTAATCTTCCTGAATTTG-TTTCAAACTCTTAAAAGCACATAAACACAAACCAATAAATCTGAATTAT-----ATTGGACATTTGCTGTAG-AAACTTCCTATTATC-ACTGCTTTTATAGAAATGACTGCTCATCATGTAAGTAGGAGA-CATACTGCTTAATAATTTCCAGGCCAATGCACTTTTGCCCAACTTCAAAATAAAGTTGTTATTCTCCTTTCAACAAAAGCTTATG
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2389745 413 - 149736546 -----ATTTACTCTGCATCAGCTTTCTAGCAGATA-----------------------------AGGAGGCCTGAGTCATGAG-CCTTACTTGGCCTCTGCA-----------CCATACGAGCAAATTCCCTCTTCGCTTCACGT--------------------TCT-GTTTTTGAATCCTGGGTTTATAGCTTCTTAATGCCCTTGAAATTG------TTGCAGTA-CTTAATGAGACAACATACAGCTTGC----TGCAGTCTGCTTGGATTTG--CCCAAACCCTTAAAAGCATACACATATAGAGCAATGAGCTGAAATTATAGCAGACT-TACATCCGCTGGAGAAAACTCACTGCTATCAACTACCTTTATATAAATAATTGACAATCATGTAAGCAAGAGA-CAAGTCACTTAATAATTTTCAGGCCAGCAAACTTCTACTCAACTTCAAAATAAAGTTTTTATTCTCCTTTCATTAAAAGTTTAGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19700939 459 +  45876710 -TTTTATTTATTCGGCAACA---TCTCACCTGGCAACAGAAAG------------AAGAGTACAAG--TTTCAGAGTTAGAAGACTTCATGTGAGCTGTCTGGGCCTCAGCTTTATTATGAGGAGTTACATCACATGAACAAGGGATTCCTTTCCCACTCTAAATTCT-GCTTTTCACTCTTATATTTGT-GACTGTCAATGCTCATGGAATTG------TTA-GGTAGCCTAATGAGTCAACATAAGGCTTC-----TTTAATTTGCCTGAATTTG-CCCCAAACCTTTAAAAGCACATAACTACGAACCAAAGAACCTAAATTATAGTATACTGTACATTTGCT-TAGGAAACTTCCTATTATC-ACTACCTTTATATAAGTGGTTGCTCACTGTATAAGTAGGAGA-CAAACCACTTAATAACTTCCAGGCTAGTGAGCTTTTGTCCAATTTCGAAATAGAGTTGTTATTCTCCTTTCAACAAAAGTTTAGG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             900951 471 -   1687904 -TTTGATTTATTCAGTAACATCTTCTTTCCAGGCAACAGAGAGAGAAAAAAAAAAAAGAGTGCAGGAGCCTCTGAGTCAGAAAACTTCACCTCATGTCTCTGGGCCTCAGGACACTTGGGAGGCGTTAGATCCTGGGGTCCCAGAGCTCCCCTCACACGCCGAACTCTAAGTTTTGTTTCCCAAATTTAT-GACTGCAAATGGCTAAGCAATTG------TTAGGGTGGCCTAATGAGTCAGCAGAAGGCTTGC----TATAATCTGCCTGACTTTG-TCCCAAACCTTTAAAA---------TATGAAGCAATGAAACTAAATTATAGCATTCGGTACATTTACTGTAGGAAACTTCCTATTATC-ACTACCTTTAGAGAAATGATTGTTCACCACGTAAGTAGGAGA-CAAGCCACTCAGTAATTTGCAGGCCAGTGAACTTCTGCCGGGCTTCCAAATAAAGTTGTTATTCTCCTTTCAACAAATGTTCAGG
i dasNov3.JH562883          C 0 C 0

a score=391298.000000
s hg38.chr12_GL383549v1_alt     53702 33 +    120804 ATACGTCAAGCCTAATGAGA-GTAAGTTAGTAG----G
s panTro5.chr12              62745186 33 + 137163284 ATACGTCAAGCCTAATGAGA-GTAAGTTAGTAG----G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60869185 33 + 135337776 ATACGTCAAGCCTAATGAGA-GTAAGTTAGTAG----G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3084512 33 -  32808036 ATACGTCAAGCCTAATGAGA-GTAAGTTAGTAG----G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7268647 33 +  34552619 ATACGTCAAGCCTAATGAGA-GTAAGTTAGTAG----G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104580593 33 - 133663169 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108980105 33 - 137757926 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1357886 33 -   7948249 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8258960 33 -  10730278 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100749599 33 - 128539186 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       144667 33 +    435186 ATATGTCAAGCCTAATGAGA-ATAAGTTACTAG----G
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3532934 33 +   9309688 ATATATCAAGCCTAATGAGA-ATAAGTTACTAG----G
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11369462 37 -  29834108 ATACATCAAGCCTAATGATA-ATGAGTTACTAGAAAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       823119 33 -   1015025 ATACATCAAGCCTAATGAGA-ATGAGTTACTAG----A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1843580 33 -   2295209 ATACATCAAGCCTAATGAGT-ATGAGTTACTAG----A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2985952 33 +  31815103 ATACATCAAACCTAAGAAGA-AAGAAATGCCAG----G
i micMur3.chr21             I 2 I 3
s otoGar3.GL873576            4545882 33 -  12054995 ATATATCAAACCTTATAAGA-ATGAGTTGCAGG----G
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2390158 33 - 149736546 ATGTAGGAAGCCTAAATGGA-ATGAGTTACCAC----A
i mm10.chr6                 C 0 I 5
s canFam3.chr27              19701398 34 +  45876710 ATATATCAAGCTTACTAAAATATGAGTTGCCAG----A
i canFam3.chr27             C 0 I 7
s dasNov3.JH562883             901422 33 -   1687904 CTATATCAAGCCTAATGAGA-ATGTGTGGTCAG----A
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5068219 36 +  13104022 I

a score=5634.000000
s hg38.chr12_GL383549v1_alt     53735 1 +    120804 A
s panTro5.chr12              62745219 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60869218 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3084545 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s saiBol1.JH378123           11369499 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       823152 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1843613 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2985988 1 +  31815103 G
i micMur3.chr21             I 3 C 0
s proCoq1.NW_012140524v1      5068255 1 +  13104022 A
i proCoq1.NW_012140524v1    I 36 C 0
s otoGar3.GL873576            4545915 1 -  12054995 A
i otoGar3.GL873576          C 0 I 457
s mm10.chr6                   2390196 1 - 149736546 A
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19701439 1 +  45876710 A
i canFam3.chr27             I 7 C 0
s dasNov3.JH562883             901455 1 -   1687904 A
i dasNov3.JH562883          C 0 C 0
e nomLeu3.chr23               7268680 0 +  34552619 C
e colAng1.NW_012114364v1      3532967 0 +   9309688 C
e manLeu1.NW_012101287v1       144700 0 +    435186 C
e chlSab2.chr11             100749632 0 - 128539186 C
e cerAty1.NW_011999477v1      8258993 0 -  10730278 C
e macNem1.NW_012011422v1      1357919 0 -   7948249 C
e macFas5.chr11             108980138 0 - 137757926 C
e rheMac8.chr11             104580626 0 - 133663169 C

a score=12243422.000000
s hg38.chr12_GL383549v1_alt     53736 816 +    120804  
s panTro5.chr12              62745220 816 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60869219 816 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3084546 812 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7268680 816 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104580626 817 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108980138 817 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1357919 817 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8258993 818 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100749632 818 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       144700 816 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3532967 818 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11369500 815 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       823153 802 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1843614 819 -   2295209  
i aotNan1.NW_018488218v1    C 0 I 28
s micMur3.chr21               2985989 839 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5068256 820 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4546373 804 -  12054995  
i otoGar3.GL873576          I 457 C 0
s mm10.chr6                   2390197 668 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19701440 817 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             901456 831 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=58076.000000
s hg38.chr12_GL383549v1_alt     54552 4 +    120804 TTAT
s panTro5.chr12              62746036 4 + 137163284 TTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870035 4 + 135337776 TTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085358 4 -  32808036 TTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269496 4 +  34552619 TTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581443 4 - 133663169 TTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108980955 4 - 137757926 TTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1358736 4 -   7948249 TTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8259811 4 -  10730278 TTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750450 4 - 128539186 TTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145516 4 +    435186 TTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3533785 4 +   9309688 TTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370315 4 -  29834108 TTGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       823955 4 -   1015025 TTGT
i cebCap1.NW_016107911v1    C 0 C 0
s micMur3.chr21               2986828 4 +  31815103 TTAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5069076 4 +  13104022 TTAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4547177 4 -  12054995 TCAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2390865 4 - 149736546 CTAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19702257 4 +  45876710 TTAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             902287 4 -   1687904 TCAT
i dasNov3.JH562883          C 0 C 0
e aotNan1.NW_018488218v1      1844433 28 -   2295209 I

a score=1564788.000000
s hg38.chr12_GL383549v1_alt     54556 120 +    120804 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCCGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGCAGT---------------------------GAGGCAG--
s panTro5.chr12              62746040 120 + 137163284 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-ACTAAGGTGAAGTTCATGCCAGCACAGGGCCAATTGTTTCATTTCCTGTCTCAATAGC-------------------------AGCCTGTTGCAGT---------------------------GAGGCAG--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870039 120 + 135337776 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-ACTAAGGTGAAGTTCATGCCAGCACAGGGCCGATTGTTTCATTTCCTGTCTCAATAGC-------------------------AGCCTGTTGCAGT---------------------------GAGGCAG--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085362 120 -  32808036 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAGGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGCAGT---------------------------GAGGCAG--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269500 119 +  34552619 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGT-GCTAAG-GCTAAGGTGAAGTTCATGCCAGCACAGGGTTGATTGTTTCATTTCCTTTCTCAATGGC-------------------------AGCCTATTGCAGT---------------------------GAGGCAG--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581447 120 - 133663169 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CGATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGGCAG--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108980959 120 - 137757926 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CGATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGGCAG--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1358740 120 -   7948249 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CGATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGCAGT---------------------------GAGGCAG--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8259815 120 -  10730278 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGGCAG--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750454 120 - 128539186 TCTAGTGTGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAAGCTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCCATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGGCAG--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145520 120 +    435186 TCTAGTATGAGTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAAGTTCGTGCCAGCACAGAGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGGCAG--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3533789 120 +   9309688 TCTAGTATGACTATGTTCAGTGGTGGCTC-CAATGTGGCTAAT-GCTAAGGTGAAGTTCATGCCAGCACAGGGCTGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AGCCTGTTGTAGT---------------------------GAGACAG--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370319 119 -  29834108 TCTAGGATGTGTGTGTTCAGTAGTGGCTC-CACTGTGGCTAAT-GCTAAGGTGAAGCTCACGCCAGCACAGGGCTGATTGTTTCATTTCGTGTCTCAATGGC-------------------------AG-CTGTCGTAGT---------------------------GAGGCAG--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       823959 119 -   1015025 TCTAGGATGTGTATGTTCAGTGGTGGCTC-CACTGTGGCTAAT-GCTAAGGTGAAGCTCATGCCAGCACCGGGCTGATTGTTTCACTTCCTGTCTCAATGGC-------------------------AG-CTGTTGCAGT---------------------------GAGGCAG--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1844461 119 -   2295209 TTCAGGATGTGTATGTTCAGTTGTGGCTC-CACTGTGGCTAAT-GCTAAGGTGCAGCTCATGCCAGCACAGGGCAGATTGTTTCATTTCCTGTCTCAATGGC-------------------------AG-CTGTTGCAGT---------------------------GAGGCAG--
i aotNan1.NW_018488218v1    I 28 C 0
s micMur3.chr21               2986832 119 +  31815103 TACAGAATGAGTATGTTCTGTGATGGTCC-CAAAGTGGCTGGT-GCTAAGGTAAA-CTCATCCCAACATAAGGCTAATTGTTTCACTTCCTGTCTCAACGGC-------------------------AGCCTGTTGTAAT---------------------------GTGGCAG--
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5069080 119 +  13104022 TACAGAATGAGTATGTTCCGTGATGGTCC-CAAAGTAGCTGAT-GCTAAGGTAAA-CTTATCCCAACATAGGGCTGATTGTTTCATTTCCTGTCTCAACGGC-------------------------AGTCTGTTGCAGT---------------------------GAGGCAG--
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4547181 121 -  12054995 TACAGAGTAAGTACATTCAGTGAGAGTCCTCAAAGTGGCTGGC-ACTAAGATAAAGCTCACCTCAATGTAAGGTTGATTGCTTCATTTCTTATTTCAATGGC-------------------------AGCCTGTTACAAT---------------------------GAGGCAG--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2390869 170 - 149736546 -TCAGAAACAAACTTTTCAGAGATGGGGT-CAAAGTAGCTGGT-GCTGAG-TGATGTCCCAACCAACCCAGAGCTGACTCTTTCATCTTCTGTCTCAGTGTCATAGGGAAGAAAGAAGTACAGCTTGagccagatgtggtagtcaccttgtaaccccagtgctgaaaaaggcag--
i mm10.chr6                 C 0 I 108
s canFam3.chr27              19702261 119 +  45876710 TCTAGAA-GAATGCATTCAGTGATAAGCC-CAAAGTGGCTGGT-GCTAAGGTAAATCTCATGCCAACATACAGCCAATTGTTCCATTTCCTGACTCAGTGAC-------------------------AACTTCTTGCAAT---------------------------GAGTCCA--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             902291 110 -   1687904 TCTAGAAAGAGCACGGCCAGTGCTGGGCC-CGAAGTGGCCGGTGGCCAAAGTGACACTCACACAAGCACAGGACAGCTTGTCCTTTTCC--------------------------------------CGCCTGTTAAGAT---------------------------GTGGTGGGG
i dasNov3.JH562883          C 0 C 0

a score=287188.000000
s hg38.chr12_GL383549v1_alt     54676 21 +    120804 AGAAAAGTGTGCCTCATCCTC
s panTro5.chr12              62746160 21 + 137163284 AGAAAAATGTGCCTCATCCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870159 21 + 135337776 AGAAAAATGTGCCTCATCCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085482 21 -  32808036 AGAAAAGTGTGCCTCATCCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269619 21 +  34552619 AGAAAAGTGTGCATCATCCTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581567 21 - 133663169 AGAAACGTGTGCCTCATCCTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981079 21 - 137757926 AGAAACGTGTGCCTCATCCTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1358860 21 -   7948249 AGAAACGTGTGCCTCATCCTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8259935 21 -  10730278 AGAAACGTGTGCCTCATCCTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750574 21 - 128539186 AGAAGCGTGTGCCTCATCCTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145640 21 +    435186 AGAAACGTGTGCCTCATCCTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3533909 21 +   9309688 AGAAACGTGTGCTTCATCCTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370438 21 -  29834108 AGAAAAGTGTGCCTCATCCTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824078 21 -   1015025 AGAAAAGTGTGCCTCATCCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1844580 21 -   2295209 AGAAAAGTGTGCCTCATCCTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2986951 21 +  31815103 AGAAAAGTATGCCGCATCCTC
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5069199 21 +  13104022 AGAAAAGTATGCTGCATCCTC
i proCoq1.NW_012140524v1    C 0 I 115
s otoGar3.GL873576            4547302 21 -  12054995 AGACATCTATGCTTCATCCAT
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2391147 21 - 149736546 AGAAGCGTGTACTTTGTTGTC
i mm10.chr6                 I 108 I 1
s canFam3.chr27              19702380 21 +  45876710 AGAAGAGTATGACTGGATCTT
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             902401 21 -   1687904 GGAAAAGCATCCCACACCCCC
i dasNov3.JH562883          C 0 C 0

a score=1159443.000000
s hg38.chr12_GL383549v1_alt     54697 114 +    120804 AAAAGTTTGGAAGATGCATTAAAAATTGGATAGGAAGAGCCAGGAT----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAATAAA------ATGTCAGCAACCATTCTTGAAATGAAAAAA
s panTro5.chr12              62746181 114 + 137163284 AAAAGTTTGGAAGATGCATTAAAAATTGGATAGGAAGAGCCAGGAT----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAATAAA------ATGTCAGCAACCATTCTTGAAATGAAAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870180 114 + 135337776 AAAAGTTTGGAAGATGCATTAAAAATTGGATAGGAAGAGCCAGGAT----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAATAAA------ATGTCAGCAACCATTCTTGAAATGAAAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085503 114 -  32808036 AAAAGTTTGGAAGATGCATTAAAAATTGGATAGGAAGAGCCAGGAT----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAATAAA------ATGTCAGCAACCATTCTTGAAATGAAAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269640 114 +  34552619 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAATAAA------ATGTCAGCAACCATTCTTGAAATGAAAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581588 118 - 133663169 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC----AAAAAAAAAAAAA------ATGTCAGCAACCATTCTTGAAACGAAAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981100 118 - 137757926 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC----AAAAAAAAAAAAA------ATGTCAGCAACCATTCTTGAAACGAAAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1358881 117 -   7948249 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC-----AAAAAAAAAAAA------ATGTCAGCAACCATTCTTGAAACGAAAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8259956 114 -  10730278 AAAAGTTTGGAAGATGCATT---AATTGTATAGG-AGAGCCAGGAC-----GAAAGATGAAAGAAC---TGAGAAATGGGTCaaaaaaaaaaaaaaaaa------aaGTCAGCAACCATTCT--GAACG-AAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750595 114 - 128539186 AAAAGTTTGGAAGATGCATTTAACATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC--------AAAAAAAAA------ATGTCAGCAGCCATTCTTGAAATGAAAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145661 117 +    435186 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGAC----GGAAAGATGAAAGAAC---TGAGAAATGGGTC-----AAAAAAAAAAAA------AAGTCAGCAACCATTCTTGAAATGAAAAAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3533930 132 +   9309688 AAAAGTTTGGAAGATGCATTTAAAATTGGATAGGAAGAGCCAGGACGGACGGAAAGATGAAATAAC---TGAGAAATGGGTCaaaaaaaaaaaaaaaaaaaaaCCATGTCAGCAACCATTCTTGAAACAAAAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370459 106 -  29834108 AAAAGTTTAAAAGATGCTTTTAAAATTGGATAGGAAGAGCCAGGAC----TGCAAGATGAAAGAAC---TGAGAAATGAGTC-----------AAAAAA------ATGTCAGCAAACATTCTT-----GAAAAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824099 111 -   1015025 AAAAGTTTAGAAGATGCTTTTAAAATTGGATAGGAAGAGCCAGGAC----TGGAAGATGAAAGAAC---TGAGAAATGAGTC-----------AAAAAA------ATGTCAGCAAACATTCTTGAAAAGAAAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1844601 111 -   2295209 AAAAGTTTAGAAGATGCTTTTAAAATTGGACAGGAAGAGCCAGGAC----TGGAAGGTGAAAGAAC---TGAGAAATGAGTC-----------AAAAAA------ATGTCAGCAAACATTCTTGAAAAGAAAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2986973 106 +  31815103 GCATATTTGGAAGATACATTTAAAACTAGATAGGAAGAGCCAGGAC----TGAAAGATAAAAGAAC---AGGGAAATCAGTC------------ATAAA------AGGTGGGAAACCATGCTTGGAAAAAA----
i micMur3.chr21             I 1 I 8
s otoGar3.GL873576            4547324 109 -  12054995 GCAGGTTTGAAAGATACACTCAAAATTAGATAGGAAGAGCCAGGAT----CAAAAGATAAAAGAAC----TGGAAATTGGTC------------AAGAA------AGGTAGGCAACCATGCTTGGAAAGAAAAAA
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2391169 102 - 149736546 ACAGGTTTGGAAGATGCATTTAAAATGATACAAGAAGAGCCAAGAC----AGAAAGCTAAAAGACC---TGGGAAAACAGTC--------ACAATAATA------A-----------ACTCCTAAAGGGAGGAA-
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19702402 111 +  45876710 GAAGGTTTGGAAGATGCATTTA-AGTTAGATAAGAAGAATCAGTAC----CGCAAGATAAAAAAAAAAGTTGGAAATCAGGT-------------ATAA------AGGTGGACAAGCATTCTTACAAAGTGAAAA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             902422  74 -   1687904 GTAAGTCTGGAAGAGGCATTTAAA----------------TGAGAT----GGAACGACAGAAG--C---TGGGCAAGCGTTC---TGTAAAAGGATAAA------AAG---------------------------
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5069220 115 +  13104022 I

a score=641862.000000
s hg38.chr12_GL383549v1_alt     54811 60 +    120804 GGATGACTGTGGAA----GGGGAAGAAAGGAGTTCAGGGAGCATGAAGGAGGGGTAAAGGAGTG
s panTro5.chr12              62746295 60 + 137163284 GGATGACTGTGGAA----GGGGAAGAAAGGAGTTCAGGGAGCATGAAGGAGGGGTAAAGGAGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870294 60 + 135337776 GGATGACTGTGGAA----GGGGAAGAAAGGAGTTCAGGGAGCATGAAGGAGGGGTAAAGGAGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085617 60 -  32808036 GGATGACTGTGGAA----GGGGAAGAAAGGAGTTCAGGGAGCATGAAGGAGGGGTAAAGGAGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269754 60 +  34552619 GGATGACTGTGGAA----AGGGAAGAAAGGAATTCAGGGAGCATAAAGGACGGGTAAAGGAGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581706 59 - 133663169 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGGGTAAAGGAGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981218 59 - 137757926 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAC-AAGGAGGGGTAAAGGAGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1358998 59 -   7948249 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGGGTAAAGGAGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260070 58 -  10730278 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGGGTAAAGGA-TG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750709 59 - 128539186 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGGGTAAAAGAGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145778 59 +    435186 GGATGACTGTGGAA----AGGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGGGTAAAGGAGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534062 59 +   9309688 GGATGACTGTGGAA----ATGGAAGAAAGGAACTCAGGGAGCAT-AAGGAGGAGTAAAGGGGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370565 58 -  29834108 GGATGA-CGGGGAA----AGAGAAAAAAGGAATTCAGGGAGCAT-AAGGAGGGGTAAAGGAGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824210 59 -   1015025 GGATGATTGTGGAA----AGGGAAAAAAGGAATTCAGGGAGCAT-AAGGAGGGGTAAAGGAGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1844712 59 -   2295209 GGATGATTGTGGAA----AGGGAAAAAAGGAATTCAGGGAGCAT-AAAAAGGGGTAAAGGAGTG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4547433 63 -  12054995 GGACGGTTGTAGAATGGTGGAATAGAAAGGAATTCAGAAAGCAT-AAGGAGGGGAAAGGGAATG
i otoGar3.GL873576          C 0 I 45
s mm10.chr6                   2391271 50 - 149736546 GGATGGATATGGGA----AGAGAA--------CCCAGGAAGGAT-GAAGAGGTG-AACTGAGAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19702513 57 +  45876710 GGATGAATGTGAAA----AGAAAAGAAAGGAATTCAGAGAGCATTAAAGAGGGGAACAAGA---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             902496 49 -   1687904 GCATGATTTTGGAA-------------AGGAATCCAGGGAGCAT-AAACAGGGA-AAGGGAATG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2987079  8 +  31815103 I
e proCoq1.NW_012140524v1      5069220 115 +  13104022 I

a score=3147823.000000
s hg38.chr12_GL383549v1_alt     54871 270 +    120804 ATAAAAGGAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AA--ATCATATAC---CTTCTAAGCCTGCAAATATGAATTTTGCTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTCCAAATTGGC---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTACCAAAATAGCAATTTATTCGGACCTAATAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
s panTro5.chr12              62746355 269 + 137163284 ATAAAAGGAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGTTTAATGAATGAAAA-AA--ATCATATAC---CTTCTAAGCC-GCAAATATGAATTTTGCTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGC---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAATAGCAATTTATTCGGACCTAATAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870354 268 + 135337776 ATAAAAGGAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AA--ATCATATAC---CTTCTAAGCC-GCAAATATGAATTTTGCTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGC---GATTTCAC---TTAGTCA--TTTTTTC---TACAGTATCAAAATAGCAATTTATTCGGACCTAATAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085677 269 -  32808036 ATAAAAGGAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATG-ATTAAAA-AA--ATCATATAC---CTTCTAAGCCTGCAAATATGAATTTTGCTAACCTTGGATACCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGC---GATTTCAC---TTAGTAA-TTTTTTTC---TACAGTATCAAAATAGCAATTTATTCGGACCTAATAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7269814 266 +  34552619 ATAAAAGAAAAATACATGTAAGC-AAAAATGAGAA-GTAAAAAGTGAATTATT-AAGGAAAGAAAATGATA------CATACAAGGACAGATTAATGAATGAAAA-AA--ATCGTATAC---CTTCTAAGCCTGCAAATATGACTTTTACTAACCTTGGATGACATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGC---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAATAGCAATTTATTCGGACCTAAT---AGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104581765 271 - 133663169 ATAAAAGAAAAATACATGTAAGG-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AAAGATTGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGT---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981277 271 - 137757926 ATAAAAGAAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AAAGATCGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGT---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GACGTAGTA------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359057 271 -   7948249 ATAAAAGAAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATG------CATACAAGGACAGATTAATGAATGAAAA-AAAGATCGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGT---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260128 260 -  10730278 ATAAAAGAAAAATACATGTAAGC-AAAAATCAGAA-GTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGG-CAGATTAATGAATGAAAA-AAAAATCGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGA-GCCGTAA--TAGAATTCC-----------------ACAAC-CTC-ACAGTTCAAATTGGT---GA-TTCAC---TTAGTCA--TTTTTTC---TAC-GTATCAAAAT-GCAA-TTATTCTGACCTAACGGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100750768 271 - 128539186 ATAAAAGAAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AAAAATCGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCTTAAATAGGAATTCC----------------AACAAC-CTCAAGAGTTCGAATTGGT---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTTTCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       145837 271 +    435186 ATAAAAGAAAAATACATGTAAGC-AAAAATCAGAAGGTAGAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AAAAATCGTATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCGTAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGT---GATTTCAC---TTAGTCA-CTTTTTTC---TACAGTATCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534121 270 +   9309688 ATAGAAGAAAAATACATGTAAGC-AAAAATGAGAAGGTAAAAAGTGAATTATT-AAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AAA-ATCATATAC---CTTCTAAGCCTGCAATTATGACTTTTACTAACCTTGGATGCCATAAATAGGAATTCC----------------AACAAC-CTCAACAGTTCAAATTGGT---GATTTCAC---TTAGTCA-TTTTTTTC---TACAGTATCAAAAT-GCAATTTATTCTGACCTAACAGAAGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370623 269 -  29834108 ATAAAAGAAAAATACATGCAAGG-GAAAATGAGAAGG-GAAAGGTGAATTATTAAAAGAAAGAAGATAATA------CATACGAGGATAGATTAATGAATGAAAAGAA--ATCATATAC---CTTCTAAGCCTACAAATATGACTTTTACTAATCTTGGACACCATAAATAGGAATTCC----------------AACAAC-ATCAACAATTCAAATTGGT---GATTTCAC---TTTGGCATTTTTTTTC---TACAGTATCAAAATAGCAATTTATTCTGACCTGAC---AGATCTTGGT------------------------------------------------------------------GATGTAGTA------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824269 270 -   1015025 ATAAAAGAAAAATACATGCACGG-GAAAATGAAAAGG-GAAAGGTGAATTATTAAAGGAAAGAAGATAATA------CATACAAGGACAGATTAATGAATGAAAA-AA--ATCATATAC---CTTCTAAGCCTGCAAATATGACTTTTACTAATCTTGGACGCCATAAATAGGAATTCC----------------AACAAC-CTCGACAGTTCAAATTGGC---GATTTCAC---TTTGGCA-CTTTTTTC---TACAGTATCAAAATAGCAATTTATTCTGACCTGACAGAAGATCTTGGT------------------------------------------------------------------GATGTAGCA------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1844771 271 -   2295209 ATAAAAGAAAAATACATGCAAGA-GAAAATAAGAAGG-AAAAGGTGAATTATTAAAGGAAAGAAGATGATA------CATACAAGGACAGATTAATGAATGAAAA-AA--ATCATATAC---CTTCTAAGCCTGCAAATATGACTTTTACTGATCTTGGACACCATAAATAGGAATTCC----------------AACAAC-CTTGACAGTTCAAATTGGC---AATTTCAC---TTAGGCATTTTTTTTC---TACAGTATCAAAATAGCAATTTATTCTGACCTAACAGAAGGTCTTGGT------------------------------------------------------------------GATGTAGTA------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2987087 279 +  31815103 ATAAGAGGAAAATACATATATGCAAAAAATGAAAAGG-GAAAAGTAAGTTATT-AAGGAAGGACGATGATATTGATACATATG-GGAAAAATCAATGAATGAAAA-GTA-A-CATATAC---CTTCCAACCCTGCAAATAGTACACTTACTAACCTTGATCACTATAAATAGGAATTCC---------------AAAAACC-CTCAACAGTTCAAATTGGC---TATTTCAC---TTAGTCA-TTTTTTTTCCCTACAATATCAGAAGAGCAACTCATTCTGACCTAACTGAGGATCATGCT------------------------------------------------------------------GATGTAATA------
i micMur3.chr21             I 8 C 0
s proCoq1.NW_012140524v1      5069335 278 +  13104022 ATAAGAGGAAAATACATGCATGC-AAAAATGAGAAGG-GAAAAGTGAATTTTT-AAGGAAAGATGATGATATTAATTCATATG-GGAAAAATCAATGAATGAAAA-ATA-ATCTTATAC---CTTCCAAACATGCAAACAGTATTTTCACTAACTTTGATCATTATAAATAGGAATTCC---------------AAAAACC-CTCAACAGTTCAATTTGGC---TATTTCAC---TTAGTCA-TTTTTTTT-CCTATGATATCAAAAGAGCAACTCATTCTGACCTAACAGAGGATCTTGCT------------------------------------------------------------------GATGTAGTA------
i proCoq1.NW_012140524v1    I 115 C 0
s otoGar3.GL873576            4547541 263 -  12054995 ATAAAAGGAAAATACGTGTAAGC-AAAAATGAGAAGG-GAAAAGTGAATCATT-AAAGAAAGATGATGATA------CGTACG-GGAAAGATCAACGAATGAAGA-ATA-ATCTTATAC---CTTCTAAGCCTGCGACTAGTAGCTTTATGAACCTCGATCACTATAAATAAGAATTCC----------------AAAACC-TTCAACAGTTCAAAATGGC---TATTGCAC---TTCGTCA-TTTTTTTC-CCTACAGTATGAGAAGAGCAACTCATTCTGACCTAACAGAGGATC--------------------------------------------------------------------------GTAGTA------
i otoGar3.GL873576          I 45 C 0
s mm10.chr6                   2391321 257 - 149736546 ATAAAA-AGAAATGCACACACAC-AAAA--------GAACCAATTGAATTATT-AAGAAAG--------CA------CATACAGGAAAAGAGCGGTGAATGAAGA-AAA-AT--TCTGC---CTGGCAGTCCTGCAAACAGTGCCTTTTCTGACCATGACCACCACAGGGAAGACTCGG----------------AAAACCACTCCATGGCTCAAACAGGCACAGTTCTTACCCGTCTTTTA-TTTTTCTC----ACACTATCAAAGGAAGAATTCATTCTGACCTACTGAAAGCTCTTGCT------------------------------------------------------------------GACATCA-G------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19702570 344 +  45876710 ATACAAGGAAAATACGTGTGAGC-AAAAATGAGAATG-GAAACATGAATTATG-AAAGAAAGAAGATGGTG---------ACAGGGAATGATTAATGAATGAAGA-AA----CCTCTAC---CTTCTAAGCCTAAAAATCAAA----TACTACTGTTGGTCACTATATATAGGAATTCAAAAACAAAACAAAACAAAAAAC-CTTCCCTGTTCAAATTGGC---TATTTTAC---TTCATCA-TTTTTTTT-TTTACAGTATCAAAAGAGCAACTCATTCTGACCTAACAGAGACTCTTACTGACACTCTTGTGTCTAGCTTAAtttttttaaagattatttatttatttctttgagagagagagagagatgcagaa------
i canFam3.chr27             C 0 I 107
s dasNov3.JH562883             902545 245 -   1687904 ATACAAGG-----ACACATAAGC-AAAAAAAGGGGAGGGCAAAGTGATTTATG-AAGGAAAGAAGATGATG------AGGGTGGGGAAAGATTAACGGGTGAAGA-AAA-ATATTCCACCTTCTTCTACACCTGAATACCT-ATACTTACTAACCTTGGTCGCTATAAA---------------------------------ATCAATAATTCAAATGAAC---TTGTTCAC---TTAGTCA-GTTTTTCCCCCCACA-TATCTAAGGAGTCACT---------------GAGGATTCTACT------------------------------------------------------------------GAAGCAGTTGTGAGT
i dasNov3.JH562883          C 0 C 0

a score=4070417.000000
s hg38.chr12_GL383549v1_alt     55141 328 +    120804 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTAGTAAAGCATCTTCTAGAAATGTCCAGACCAGAGAGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CACCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACACACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAACCACCAAAAGTATTCC-----T-----
s panTro5.chr12              62746624 328 + 137163284 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTAGTAAAGCATCTTCTAGAAATGTCCAGACCAGAGAGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CGCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACACACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAACCACCAAAAGTATTCC-----T-----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870622 328 + 135337776 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTAGTAAAGCATCTTCTAGAAATGTCCAGACCAGAGAGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CGCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACACACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAACCACCAAAAGTATTCC-----T-----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3085946 328 -  32808036 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTAGTAAAGCATCTTCTAGAAATGTCCACACCAGAGAGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CGCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACACACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAACCACCAAAAGTATTCC-----T-----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270080 328 +  34552619 GT-----TGA------GCTTGGTAGGTGA---TATTCTTCTGGTAAGAT-------ATGAAGATTATCCTAGAT--------AAGTAGTGAAGCATCTTCTAGAAATGTCCAGACCAGAGAGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CGCCAAAAATGATTGAACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AGTGCAGTGTCTAACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGTGTGATTTAAAGGCAAAAGAAAGTTCCAACCACCGAAAGTATTCC-----T-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582036 324 - 133663169 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAT---CACCAAAAATGATTGGACTCAAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-TATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAGCCACCAAAAATATTCC-----T-----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981548 324 - 137757926 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAAAGGGAGTAACTATCACTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAT---CACCAAAAATGATTGGACTCAAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-TATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAGCCACCAAAAATATTCC-----T-----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359328 324 -   7948249 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAT---CACCAAAAATGATTGGACTCAAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-TATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAGCCACCAAAAATATTCC-----T-----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260388 318 -  10730278 GT-----TGA------GCTTGGTAGGTGG----ATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAATGGGAGTCACTATTGCTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAA---CGCCAAAAATGATTGGACTCGAGG--CCTATTTCA-GGACTGAGTTTAGTCAGAA-GTTTTCTCAATTAGCAAA-A--ATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACCC-CCTCAACAGCGTGATTTAAAGGCAAAAgaaagttccagccactaaaaatattcc-----t-----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751039 324 - 128539186 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAT---CGCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGGGTCTGACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAGCCACCAAAAATATTCC-----T-----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146108 324 +    435186 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAATGGGAGTCACTATTGCTCTCCATTGTTTTGACCTTGAATT-C-AACTTCTCTAA---CGCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTACCCACCTCAACAGCGTGATTTAAAGGCAAAAGAAAGTTCCAGCCACTAAAAATATTCC-----T-----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534391 324 +   9309688 GT-----TGA------GCTTGGTAGGTGG---TATTCTTCTGGTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACC----AGAGACCTTAGAAACAAAGGGAGTCACTATCAGTCTCCATTGTTTTGACTTTGAATT-C-AACTTCTCTAT---CTCCAAAAATGATTGGACTCGAGG-CCCTATTTCAGGGAATGAGTTTAGTCAGAATGTTTTCTCAATTAGCAGA-A-AATGCAGTGTCTGACAGCTAGTCCCTTGCAGACTATCTACCTCAACAGCATGATTTAAAGGCAAAAGAAAGTTCCAGCCACCAAAAATATTTC-----T-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11370892 312 -  29834108 GT-----TGA------GCTTGGTAGGTAG---TA---TTCCGGTAAGAC-------GCAAAGATTATCCTAGAT--------GAGTGGGAAAGCATCTTCCAGAAATGGCCAGACC----AGAGACCTCAGGAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGACTTGAATT-C-AAGTTCTCTAT---CACCAAAAATGATTGGACTCA-----------TCAGGGACTGAGTTTAGTCAGAATGTTTCCTCAACTAGCAAA-AAAATACAGTGTCTGACAGCTAGTCCCTTGCAGACTTCCCACCTCAACAGCATGATTTAAAGGCAAAAGAAAGTTCCAACCACCAAAAGTACTCC-----T-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824539 322 -   1015025 GT-----TGA------GCTTGGTAGGTGG---TA---TTCTGGTAAGAT-------GTAAAGATTATCCTAGAT--------GAGCGGGAAAGCATCTTCCAGAAATGTCCAGACC----AGAGACTTCAGGAACAAAGGGAGTCACTATCACTCTCCATTGTTTTGGCCTTGAATT-C-AACTTCTCTAT---CACCAAAAATGATTGGACTCAAGG-TCCTATTTCAGGGACTGAGTTTAGTCAGAATGTTTTCTCAATTAGCAAA-AAAATACAGTGTCTGACAGCTAGTCCCTTGCAGACTTCccacctcaacagcgtgatttaaaggcaaaagaaagttccaactaccaaaagtattcc-----t-----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1845042 322 -   2295209 GT-----TGA------GCTTGTTAGGTGG---TA---TTCTGATAAGAC-------ATAAAGATTATCCTAGAT--------GAGTGGTAAAGCATCTTCTAGAAATGTCCAGACT----GGAGACCTCGGGAACAGAGGGAGTCACTATCACTCTCCATTGTTTTGGCTTTGAATT-C-AACTTCTCTAT---CACAGAAAATGATTGGACTCGGGG-CCCTATTTCAGGGACTGAGTTTAGTCACAATGTTTTCTCAATTAGCAAA-AAAACACAGTGTCTGACAGCTAGTCCCTTGCAGACTTCCCACCTCAACAGCATGATTTAAAGGCAAAAGAAAGTTCCAACCACTACAAGTATTCC-----T-----
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2987366 337 +  31815103 GTGAGTGCTG------GCACAGTAGGAACTATTATTCTTCTGTTAAGAC-------GTGAAGATTATCCTAGAT--------GAGTGATAGAGCATCTTCTAGAAATGTCCAGACT----AGGGACATCATGCAAAAAGTGGATCACTGTCACTCTTCATTGTTTTGGCCTTGAATT-C-AAATTCTCCGT---CACCAAGAATGGTGGGACATGAGG-CCCTACTTCAGGGATTACTTTTACTCAGAATGTTTCTTTGATTAACAAC-A-AGTGCAGTGACTGAGAGCTAGCCCCTAGCAGACCATCCACCTAAACAGTGCAATTTAAAGGCAAAAGAGAGTTGCAACCACCAAGAATATTCCTCACTT-----
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5069613 329 +  13104022 GTGAGTGCTG------GCACAGTAGGAAC---TATTCTTCTGTTAAGAC-------ATGAAGATTATCCTAGAT--------GAGTGATACAGCATCTTCTAGAAATGTCCAGACC----AGGGACATCATGCACAAAGTGGGTCACTGTCACTCTTCATTGTCTTGGCCCTGAATT-C-AAATTCTCCAT---CACCAAGAATGGAAGGATGTGAGG-CCCTATTTCAGGGATTACCTTTACTCAGAATGTTTCTTTGATCAGCAAC-A-AGTGCAGTGACTGagagctagcccctcgcagaccatccacctaaacagtgtgatttaaaggcaaaagagagttccaaccaccaaaagtattcc-----t-----
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4547804 313 -  12054995 GTTACCGTGG------GCACAGAAGGAAC---TGTTCTTCTGGTAAGAC-------AGGAAGATTA-CCCAGAT--------GAGTGACAGAGCATCTTCCAGAAAAGTCCA-----------GACATCAGGCATAGTGTGGGTCACTG----TCTTCATTGTTTTGACCTTGAATT-C-AAATTCTCCGT---CACCAAGAATGGTAACACGTGGTG-GCCTATTTCAGAGATT--CTCTAGTCAGAAAGTTTTCTTGATTAGCAAC-A-AGCACAGTGACTAAGAGCTGGCCCCTTGCAGACTGTTCACCTAAAC--tgtgatttaaaggcaaaggagggctccaccagctgaaagtgttcc-----t-----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2391578 296 - 149736546 GT-----CGAGTGTCTGCCTTCCATGAGC---TGTTCCTCTCAGGAAACAGGTCCTATGGAGTCAAGCGAAAATGCTGCAGCGATCAACACAGTAAGTTCTGGAAACATCCAAATT----TGAGGACTGGGAAGAAAG-----------------------GCTTTGGTCTTTAATC-C-AACTTTTCTAT---CACTAAGGATG---GGTCTTGATGTCCCCATTCCGAGG-----------------TGTTTCCTGTATCAGCAAACA-TACACAGTGACTGAGAA-----TCTCTCCAGACTGCCCACGTAAAAAATGAGCTTTAAATTCAAAAGGAAGTCTCTGATACC---AGTGTCCC-----T-----
i mm10.chr6                 C 0 I 14
s canFam3.chr27              19703021 315 +  45876710 GT-----CTA------GCTTAGTAGGGAC---TTTTAGTTTTGTAAGAT-------ACGAACATTATCTTAGAT--------GAGCAACAGAGCATCTTCTAGAAATTTCCAGGCT----TGGGAGCTCAGGAACAAAGTGAGTCACTCTCACTCTCCGTTGTTCTGGCCTTGAATTCC-AACTTCTTT------GCCAAGAATGGTGGCACTCGATG-CTCTATTTCAGGAATTGTGTTTAGTCAAAATG----CAAAATTAGCAAACA-AATGCAGTGACCCAGAGCTAGCCCCCTAAGGACTACCAACCTAAACAGTGTGATTTAAAGG--AAAAAAAGTTCCAACTGCC--AAGTGTTAT-----T-----
i canFam3.chr27             I 107 C 0
s dasNov3.JH562883             902790 275 -   1687904 GT-----CTG------GCTTAGTAGGTAT---TTCCCCTCTGGTAAGAC-------AGGGACATTATCTTAGAT--------GAGCAAGAAGGCATCGTCTAGAAATCTCTAGCCT------------------------GGGCCTCTGCCCCT-GCCATTGTCTCGGTCTTGAACT-CTCACTTCTCCGTTGCTGCCAGGATTGGTGGGACTTGGTA-TTCTCCTGCAGGGCTTGCCTTC--CCGGAAGGCTTCCTC-----------C---TGCGGCGAGTGCGAGCT---TCCTGGCAGACCGCCC--------------------TGGAAAGAGCAGGCCCCCGCGGCCGCCAGGGGTCC-----TTTCCT
i dasNov3.JH562883          C 0 C 0

a score=258515.000000
s hg38.chr12_GL383549v1_alt     55469 20 +    120804 C-A-CTGGTTCTGCCATGATCC
s panTro5.chr12              62746952 20 + 137163284 C-A-CAGGTTCTGCCATGATCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870950 20 + 135337776 C-A-CTGGTTCTGCCATGATCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086274 20 -  32808036 C-A-CTGGTTCTGCCATGATCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270408 20 +  34552619 C-A-CTGGTTCTGCCATGATCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582360 20 - 133663169 C-A-CTGGTTCTGCCATGATCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981872 20 - 137757926 C-A-CTGGTTCTGCCATGATCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359652 20 -   7948249 C-A-CTGGTTCTGCCATGATCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260706 21 -  10730278 c-agttggttctgccatgatcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751363 20 - 128539186 C-A-CTGGTTCTGCCATGATCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146432 21 +    435186 CAA-TTGGTTCTGCCATGATCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534715 20 +   9309688 C-A-CTGGTTCTGCCATGATCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371204 20 -  29834108 C-A-CTAGTTCTGCCGTGATAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824861 20 -   1015025 c-a-ctggttctgccgtgatac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1845364 20 -   2295209 C-A-CTGGTTCTGCCGTGATAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2987703 20 +  31815103 C-A-CTGGTTCTGTCATGACAC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5069942 20 +  13104022 c-a-ctggttctgtcatgatac
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4548117 20 -  12054995 c-a-ctggctctgtcacgatgc
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703336 19 +  45876710 T-A-TTGG-TCTGCCAGGATGC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             903065 20 -   1687904 C-T-CTGCTTGGGCCGTGATAC
i dasNov3.JH562883          C 0 I 412
e mm10.chr6                   2391874 14 - 149736546 I

a score=2572705.000000
s hg38.chr12_GL383549v1_alt     55489 228 +    120804 TTGAAAACACTGACAAGAAGAAG-TTTTGCTGAAATAAGGCAAGAGACGAGGCAACACATAAAGTCAATATTGTTCATGATCTCACTAGAACAGATTGGCTTAGCAGTTCAGATGGCTGTCACCTGGAAGAAGACTCTGTGGGTATAAGACCAGAGCTGGAT-ATGTTTTGTTGTG-------------------------GAGAGAGACAATG----GCAGGTCCAGAACAGCATTGTTA----CTAGAGAAGGCTGGCTTG
s panTro5.chr12              62746972 227 + 137163284 TTG-AAACACTGACAAGAAGAAG-TTTTGCTGAAATAAGGCAAGAGACgaggcaacacataaagtcaatattgttcatgatctcactagaacagattggcttagcagttcagatggctgtcacctggaagaagactctgtgggtataagaccagagctggat-atgttttgttgtg-------------------------gagagagacaatg----gcaggtccaggacagcattgtta----ctagagaaggctggcttg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60870970 227 + 135337776 TTG-AAACACTGACAAGAAGAAG-TTTTGCTGAAATAAGGCAAGAGACTTggcaacacataaagtcaatattgttcatgatctcactagaacagattggcttagcagttcagatggctgtcacctggaagaagactctgtgggtatgagaccagagctggat-atgttttgttgtg-------------------------gagagagacaatg----gcaggtccaggacagcattgtta----ctagagaaggctggcttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086294 227 -  32808036 TTGAAAACACTGACAAGAAGAAG-TTTTGCTGAAATAAGGCAAGAGACgaggaaacacataaagtcaatattgttcatgatctcactagaacagattggcttagcagttcagatggctgtcacctggaagaagactctgtgggtataagaccagagctggat-atgttttgtt-tg-------------------------aagagagacgatg----gcaggtccaggacagcattgtta----ctagagaaggctggcttg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270428 228 +  34552619 TTGAAGACACTGACAACAAGAAG-TTTTGCTGGAATAAGGCAAGAGACGAGGAAACACATAAAGTCAATATTGTTCATGATCTCACTAGAACAGATTGGCTTAGCAGTTCAGATGGCTGTCACCTGGAAGAAGACTCTGTGGGTATAAGACCAGAGCTGGAT-ATGTTTTGTTGTG-------------------------GAGAGAGACGATG----GCAGGTCCAGGACAGCATTGTTG----CTAGAGAAGGCTGGCTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582380 208 - 133663169 TTGaagacactgacaacaagaagtttttgctgaaat-aggcaagagaagaggaaacacataaagtcaatattgttcatgatctcattagaacagattggcttagcagttcaaatggttgtcacctggaag--------------------CTAGAGCTGGAT-ATGTTTTGTTGTA-------------------------GAGAGAGACGATG----GCAGGTCCAGGACAGCATTGTTA----TTAGAGAAGGCTGGCTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108981892 208 - 137757926 TTGAAGACACTGACAACAAGAAGTTTTTGCTGAAAT-AGGCAAGAGAAGAGGAAACACATAAAGTCAATATTGTTCATGATCTCATTAGAACAGATTGGCTTAGCAGTTCAAATGGTTGTCACCTGGAAG--------------------CTAGAGCTGGAT-ATGTTTTGTTGTA-------------------------GAGAGAGACGATG----GCAGGTCCAGGACAGCATTGTTA----TTAGAGAAGGCTGGCTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359672 208 -   7948249 TTGaagacactgacaacaagaagtttttgctgaaat-aggcaagagaagaggaaacacataaagtcaatattgttcatgatctcattagaacagattggcttagcagttcaaatggttgtcacctggaag--------------------CTAGAGCTGGAT-ATGTTTTGTTGTA-------------------------GAGAGAGACGATG----GCAGGTCCGGGACAGCATTGTTA----TTAGAGAAGGCTGGCTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260727 223 -  10730278 ttgaagacactgacaacaag--ggttttgctgaaat-aggcaagagaaga-gaaacacataaagtcaat-ttgtt-atgatctcattagaacagattggcttagcagttcaaatggttgtcacctggaagaagactctgtgggtataagaccagaactggat-atgttttgttgta-------------------------gagagagatgatg----gcaggtccaggacagcattgtta----ctagagaaggctggcttg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751383 208 - 128539186 TTGAAGACACTGACAACAAGAAGTTTTTGCTGAAAT-AGTCAAGAGAAGAGGAAACACATAAAGTCAAAATTGTTCATGATCTCATTAGAACAGATTGGCTTAGCAGTTCAAATGGTTGTCACCTGGAAG--------------------CTAGAGCTGGAT-ATGTTTTGTTGTA-------------------------GAGAGAGACGATG----GCAGGTCCAGGACAGCATTGTTA----TTAGAGAAGGCCGGCTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146453 228 +    435186 TTGaagacactgacaacaagaagtttttgctgaaat-aggcaagagaagaggaaacacataaagtcaatattgttcatgatctcattagaacagattggcttagcagttcaaatggttgtcacctggaagaagactctgtgggtataagaccagaactggat-atgttttgttgta-------------------------gagagagatgatg----gcaggtccaggacagcattgtta----ctagagaaggctggcttg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534735 228 +   9309688 TTGaagacactgacaacaagaagtttttgctgaaat-aggcaagagaagaggaaacacataaagtcagtattgttcatgatctcattagaatagattggcttagcagttcaaatggttgtcacctggaagaagactctgtgggtataagaccagagctggat-atgttttgttgta-------------------------gagagagACGATG----GCAGGTCCAGGACAGCATTGTTA----TTAGAGAAGACTGGCTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371224 223 -  29834108 TTAAAGACACT---AACAAGAAGTTTTTGCTGAAATAAGGCAAGAGAAGAGGAAACATATAAAGTCAATATTGTTCATGATCTCATTAGAACAGATTGGTTTAACAGTTCAGATGGCTGTTACCTGGAAGTAGA--CTGTGGGGATAAGACCAGAACTGGAT-ATGTTTTGTTGTG-------------------------GAGAGAGACGATG----GGAGGTCCAGGACAGCACTGTTA-----TAGAGAAGGCTGGCATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       824881 229 -   1015025 ttgaagacactaacaacaagaagtttttgctgaaataaggcaagagaagaggaaacatataaagtcaatattgttcatgatctcattagaagagattggtttagcagttcagatggctgttacctggaagtagactctgtagggataagaccagaactggat-atgctttgttgtg-------------------------gagagagaagatg----ggaggtccacgacagcactgtta----ctagagaaggctggcatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1845384 229 -   2295209 TTGATGACACTGACAACAAGAAGTTTTTGCTGAAATAAGGCAAGAgaagaggaaacatataaagtcaatattgtacatgatctcattagaacagattggtttagcagttcagatggctgttacctggaagtagactctgtggggataagaccagaactggat-atgttgtgttgtg-------------------------gagggagacgata----ggaggtccaggacagcactgtta----ctagagaaggctggcatg
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2987723 230 +  31815103 TTGAAGATAACAACAGCAAGAAGCTTTTGTTAAGATAAGGCAAGAgaaggggaaacacagaaagccaatattgttcattatctcattagaacagattgatttagcaatttaggtggctgtcacttcagagaagactctgtgggaataagatcagcactagat-atgttttgctatg-------------------------gagagagagaatg---agaaggTGCAGGGCAGGGTTGCTA----CTAGAGAGGGCTGGCTTG
i micMur3.chr21             C 0 I 180
s proCoq1.NW_012140524v1      5069962 230 +  13104022 ttgaagacaataacagcaagaagctttcgctgaaataaggcaagaggaggggaaacacataaagccaatattgttcattatctcattagaacagattggtttagcaatgtcagtggctgtcatctcagagaagactctgtgggtataagaccagcaccagat-atgttttgctgtg-------------------------gagagagagaatg---agaaggtccaggacagggttgcta----ttagagagggctggcttg
i proCoq1.NW_012140524v1    C 0 I 197
s otoGar3.GL873576            4548137 208 -  12054995 ctgaaGACACC----------------------TATACAGCAAGAGAAAGGGAAACAGATGAAGCCAATATTGTTTCTAATCCCATTAGAACAGATTGGCTCAGCAGTGTAGGTGACTGTCACCTGGGAGAA-ACTCTGTGGGGATAAGACCCGTACTCGATAATATTTTGTTGTG-------------------------GAGAAAGAAGATG---AGAACACCCACGACAGGTCTGCTA----CTAAAAAGAGCTGGTTTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703355 235 +  45876710 TATAAGGCACTGACAGCAACAAGTTTTTGTGGAAGTAAGGCAGGAGAAGGAGAAACACATAAAGCCATTGTTGTTCATGATCTCATTCAAACATATTATTTCAGCAGT--------------------------ATCTGGGGGGATTAGGGCAGAGCTGGAT-GTCTTTACGTGTGTGTGTGTATGAGGGGGAGAGAGAGAGAAAGAGAGGATGGTGGGAAGGTCCAC-ACAGGCTTGCTAAGTACTAAAGAGGGCTGGCTTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             903497 187 -   1687904 TTTAAGACTCCGACGCCAAGGAGCTTTTGCTGAGACAAGGTGAGGGACGGGGAAACAT---AACCCAATATTGTT-GTTTTCTTGCGAGAAGAGATTAGTTCAGCAGCTTGGGTG--------TTGGGAAGGGA-------------AAACCAGGTCGGGGC-GCGTTTTGCTGGG-------------------------GAGAGAGG-GCGG----GAAGGTCAAGGCCAGGGTTGCCC----TT----------------
i dasNov3.JH562883          I 412 C 0
e mm10.chr6                   2391874  14 - 149736546 I

a score=857445.000000
s hg38.chr12_GL383549v1_alt     55717 92 +    120804 TGTGGGAGGAGGACTGTAGAGAGAAGTGGGCGGCAGTGCAGTCGGAAGGAAAGGCAATGAGGGACTGAAGGAAAGGCAACATTTG------GTATGTG
s panTro5.chr12              62747199 92 + 137163284 tgtgggaggaggactgtagagagaagtgggcggcagtgcagtcggaaggaaaggcaatgagggactgaaggaaaggcaACATTTG------GTATGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871197 92 + 135337776 tgtgggaggaggactgtagagagaagtgggcggcagtgcagtcggaaggaaaggcaatgagggactgaaggaaaggcaACATTTG------GTATGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086521 92 -  32808036 tgtgggaggaggactgtagacagaagtgggcggcagtgcagtcggaaggaaaggcaatgagggactgaacgaaaggcaACATTTG------GTATGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270656 92 +  34552619 TGCAGGAGGAGGAGTGTAGAGAGAAGTGGGCAGCAGTGCAGTTGGAAGGAAAGGCAATGAGGGACTGAAGGAAAGGCAACATTTG------GTACATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582588 92 - 133663169 TGTGGGATGAGGAGTGTAGAGAGAAATGGGCAGCAGAGCAGTTGGAAGGAAAGGCAATGAGGGACTGAAGGAAAGGCAACGTTTG------GTATGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982100 92 - 137757926 TGTGGGACGAGGAGTGTAGAGAGAAATGGGCAGCAGAGCAGTTGGAAGGAAAGGCAATGAGGGACTGAAGGAAAGGCAACGTTTG------GTATGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359880 92 -   7948249 TGTGGGACGAGGAGTGTAGAGAGAAATGGGCAGCAGAGCAGTTGGAAGGAAAGGCAATGAGGGACTGTAGGAAAGGCAACGTTTG------GTATGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8260950 92 -  10730278 tgtgggacgaggagtgtggagagaaatgggcagtagagcagttggaaggaaaggcaatgagagACTGAAGGAAAGGCAACGTTTG------GTATGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751591 92 - 128539186 TGTGGGATGAGGAGTGTAGAGAGAAATGGGCAGCAGAGCAGTTGGAAGGAAAGGCAATGAGGGACTGAAGGAAAGGCAACGTTTG------GTATGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146681 92 +    435186 tgtgggacgaggagtgtaaagagaaatgggcagcagagcagttggaaggaaaggcaatgagggactgaaggaaaggcaACGTTTG------GTATGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3534963 92 +   9309688 TGTGGGACGAGGAGTATAGGGAGAAATGGGCGGCAGAGCAGTTGAAAGGAAAGGCAATGAGCGACTGAAGGAAAGGCAACGTTTG------GTATGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371447 92 -  29834108 TGCAGGAGGAGGGGTGCACAGAGAAGTGGGTGGCAGGGCAGTTGGAGGGAAAGGCAATGAGGGACTGAAGGAAAGGCAATGTTTG------GTATGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825110 92 -   1015025 tgcaggaggaggggtgcacagagaagtgggtggcagggcagttggagggaaaggcaatgagggACTGAAGGAAAGGCAATGTTTG------GTATGTG
i cebCap1.NW_016107911v1    C 0 I 401
s aotNan1.NW_018488218v1      1845613 85 -   2295209 tgcaggaggaggggtgcacagagaagtgggtggcaggacagttggaaggaaaggcaatgagggactgaaggaaaggcagTGTGTG-------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4548345 76 -  12054995 ---TAGGTGAGATGGGTACAAAAA-----GCCCAGGAGCATTTGGAAGGACAGGCAATGAGGG-CTGAAGAAAGGGCAGTGTTTG-------------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703590 71 +  45876710 --TGGGGGCAAGGGTG-------------------GGACAGTTGGAAGCAGAGGGAATGAGGGACTGAATGAAAGGCAATGATTG------GTACATG
i canFam3.chr27             C 0 I 11
s dasNov3.JH562883             903684 77 -   1687904 --TGGGGGAAGGAGGGGAGGGGA------------------CTGGCAGGAGGGGCAGGGTGGTACTGAGTGAAGGG-AGCGTGTGTGCGGAGTAGGTG
i dasNov3.JH562883          C 0 I 1
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2987953 180 +  31815103 I
e proCoq1.NW_012140524v1      5070192 197 +  13104022 I

a score=447166.000000
s hg38.chr12_GL383549v1_alt     55809 52 +    120804 GTATGTGTGTG----TGAGACAGGCGTGAACATATGTTTCCTCCCACCATGCGCAG
s panTro5.chr12              62747291 52 + 137163284 GTATGTGTGTG----TGAGACAGGCGTGAACATATGTTTCCTCCCACCATGCGCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871289 52 + 135337776 GTATGTGTGTG----TGAGACAGGCGTGAACATATGTTTCCTCCCACCATGCGCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086613 52 -  32808036 GTATGTGTGTG----TGAGACAGGCGTGAACATATGTTTCCTCCCACCATGCGCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270748 52 +  34552619 GTATGTGTGTG----TGAGACAGGCGTGAACATATGTTTCCTCCCACCATGCGCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582680 52 - 133663169 GTATGCGTGTG----TGAGACGGCCATGAACATATGTTTCTTCCCACCATGCACAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982192 52 - 137757926 GTATGCGTGTG----TGAGACGGCCATGAACATATGTTTCTTCCCACCATGCACAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1359972 52 -   7948249 GTATGCGTGTG----TGAGACGGCCATGAACATATGTTTCTTCCCACCGTGCACAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261042 52 -  10730278 GTATGCGTGTG----TGAGACGGGCATGAACATATGTTTCCTCCCACCATGCACAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751683 52 - 128539186 GTATGCGTGTG----TGAGACGGGCATGAACATATGTTTCCTCCCACCATGCACAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146773 52 +    435186 GTATGCGTGTG----TGAGACGGACATGAACATATGTTTCCTCCCACCATGCACAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535055 52 +   9309688 GTATGCGTGTG----TGAGATGAGTATGAACATATGTTTCCTCCCACCATGCACAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371539 41 -  29834108 GTATGTGTGTA----TGAG-----------CATACGTTTCCTCCCACTATGCACAG
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845698 52 -   2295209 GTATGTGTTTA----TGAGACAGGCATGAACATATGTTTCCTCCCACTATGCGCAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4548421 49 -  12054995 GGGTGTGTGAA----TGTGACATGCATGAACATGTGTG---TCCCGTCATGGGCAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703672 52 +  45876710 GCATGTATGTG----TGCCACATGCATGCCTATGTGCACCCTCCCACCATGTGCAG
i canFam3.chr27             I 11 C 0
s dasNov3.JH562883             903762 53 -   1687904 GCACGCGCGTGGGGACGTGACAAGGGTGC---CGTGTGCCCCCCCACTGTGTGCGG
i dasNov3.JH562883          I 1 I 146
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2987953 180 +  31815103 I
e proCoq1.NW_012140524v1      5070192 197 +  13104022 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I

a score=282003.000000
s hg38.chr12_GL383549v1_alt     55861 37 +    120804 TGCAATTA------TATGCATTTCAGGGATAAGAGAAGTGGGA
s panTro5.chr12              62747343 37 + 137163284 TGCAATTA------TATGCATTTCAGGGATAAGAGAAGTGGGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871341 37 + 135337776 TGCAATTA------TATGCATTTCAGGGATAAGAGAAGTGGGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086665 37 -  32808036 TGCAATTA------TATGCATTTCAGGGATAAGAGAAGTGGGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270800 37 +  34552619 TGCAATTA------TATGCATTTCAGGGTTAAGAGAAGTGGGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582732 37 - 133663169 TGCAATTA------TATGCATTTGAGGCATAAGAGGAGTGGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982244 37 - 137757926 TGCAATTA------TATGCATTTGAGGCATAAGAGGAGTGGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360024 37 -   7948249 TGCAATTA------TATGCATTTGAGGCATAAGAGGAGTGGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261094 37 -  10730278 TGCAATTA------CATGCATTTGAGGCGTAAGAGGAGTGGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100751735 37 - 128539186 TGCAATTA------TATGCATTTGAGGCATAAGAGGAGTGGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146825 37 +    435186 TGCAATTA------CATGCATTTGAGGCGTAAGAGGAGTGGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535107 37 +   9309688 TGCAATTA------TATGCATTTGAGGCATAAGAGGAGTGGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371580 37 -  29834108 TGCAATCA------CACGCATTTGAGGGATAAGAGGAGGAGGA
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845750 37 -   2295209 TGCAATCA------TATGCATTTGAGGGATAAGAGGAGTGGGA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4548470 42 -  12054995 TGAAACCAAGAATCTATGCACTTGAGGGATAGGGAGAGGGGC-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703724 40 +  45876710 TGTAACCAAGAATCTGTGCATTTGTGGGATGAGGAAAGGA---
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2987953 180 +  31815103 I
e proCoq1.NW_012140524v1      5070192 197 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I

a score=251767.000000
s hg38.chr12_GL383549v1_alt     55898 20 +    120804 GACAACATGTACCAAGCCCA
s panTro5.chr12              62747380 20 + 137163284 GACAACATGTACCAAGCCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871378 20 + 135337776 GACAACATGTACCAAGCCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086702 20 -  32808036 GACAACATGTACCAAGCCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270837 20 +  34552619 GACAACATGTACCAAGCCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582769 20 - 133663169 GACAACATGTACCAAACCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982281 20 - 137757926 GACAACATGTACCAAACCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360061 20 -   7948249 GACAACATGTACCAAACCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261131 20 -  10730278 AACAACATGTACCAAGCCCA
i cerAty1.NW_011999477v1    C 0 I 150
s chlSab2.chr11             100751772 20 - 128539186 GACAACATGTACCAAGCCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146862 20 +    435186 GACAACATGTACCAAGCCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535144 20 +   9309688 GACAACATGTACCAAGCCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371617 20 -  29834108 GACAACATGTACCAAGCCCA
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845787 20 -   2295209 GACAGCATGTACCAAGCCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988133 20 +  31815103 GACAACATATACCAAACCCA
i micMur3.chr21             I 180 C 0
s proCoq1.NW_012140524v1      5070389 20 +  13104022 GACAACATATACCAAGCCCA
i proCoq1.NW_012140524v1    I 197 C 0
s otoGar3.GL873576            4548512 20 -  12054995 AACGACATATACCATGTCCT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703764 20 +  45876710 GGCAACATACACCAAGGCCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I

a score=295093.000000
s hg38.chr12_GL383549v1_alt     55918 28 +    120804 GACAAGGCTCCACTATGTTTTAAGAGTG
s panTro5.chr12              62747400 28 + 137163284 GACAAGGCTCCACTATGTTTTAAGAGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871398 28 + 135337776 GACAAGGCTCCACTATGTTTTAAGAGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086722 28 -  32808036 GACAAGGCTCCACTATGTTTTAAGAGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270857 28 +  34552619 GACAAGGCTCCACTATGTTTTAAGAGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582789 28 - 133663169 GACAAGGCTCCACTATGTTTAAAGAGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982301 28 - 137757926 GACAAGGCTCCACTATGTTTAAAGAGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360081 28 -   7948249 GACAAGGCTCCACTATGTTTAAAGAGTG
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100751792 28 - 128539186 GACAAGGCTCCACTACGTTTAAAGAGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146882 28 +    435186 GACAAGGCTCCACTATGTTTAAAGAGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535164 28 +   9309688 GACAAGGCTCCACTATGTTTAAAGAGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371637 26 -  29834108 GGTAAGGCTCCACTATGTTTTA--AGTG
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845807 28 -   2295209 GGTAAGGCTCCACTATGTTTTAAGAGTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988153 28 +  31815103 GACAAGGCTCCACTATGTTTTAAAAGTG
i micMur3.chr21             C 0 I 9
s proCoq1.NW_012140524v1      5070409 28 +  13104022 GACAAGGCTCCACTATGTTTTAAGAGTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4548532 26 -  12054995 GAGAAGGCTCCAC--TGTCTTAAGAGCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703784 28 +  45876710 GAAAAGTCTCCACTATATTTTAAGAATG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e cerAty1.NW_011999477v1      8261151 150 -  10730278 I

a score=34920.000000
s hg38.chr12_GL383549v1_alt     55946 3 +    120804 CTC
s panTro5.chr12              62747428 3 + 137163284 CTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871426 3 + 135337776 CTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086750 3 -  32808036 CTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270885 3 +  34552619 CTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582817 3 - 133663169 CTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982329 3 - 137757926 CTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360109 3 -   7948249 CTC
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100751820 3 - 128539186 CTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146910 3 +    435186 CTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535192 3 +   9309688 CTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371663 3 -  29834108 CTC
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845835 3 -   2295209 CTC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5070437 3 +  13104022 CTC
i proCoq1.NW_012140524v1    C 0 I 6
s otoGar3.GL873576            4548558 3 -  12054995 CTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703812 3 +  45876710 CTC
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181 9 +  31815103 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e cerAty1.NW_011999477v1      8261151 150 -  10730278 I

a score=9555.000000
s hg38.chr12_GL383549v1_alt     55949 1 +    120804 A
s panTro5.chr12              62747431 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871429 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086753 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270888 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582820 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982332 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360112 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100751823 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146913 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535195 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371666 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845838 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4548561 1 -  12054995 A
i otoGar3.GL873576          C 0 I 19
s canFam3.chr27              19703815 1 +  45876710 A
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181 9 +  31815103 I
e proCoq1.NW_012140524v1      5070440 6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e cerAty1.NW_011999477v1      8261151 150 -  10730278 I

a score=327445.000000
s hg38.chr12_GL383549v1_alt     55950 50 +    120804 Cggccaggtgcggtggctcacacctgtaatcccagcactttgggaggcca
s panTro5.chr12              62747432 50 + 137163284 Cggccaggtgcggtggctcacacctgtaatcccagcactttgggaggcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871430 50 + 135337776 Tggccaggtgcggtggctcacacctgtaatcccagcactttgggaggcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086754 50 -  32808036 Tggccaggtgcggtggctcacacctgtaatcccagcactttgggaggcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270889 50 +  34552619 Tggccgggtgcggtggctcacacctgtaatcccagcactttgggaggccg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582821 50 - 133663169 Tggccgggcgcggtagctcacacctgtaatcccagcactttgggaggctg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982333 50 - 137757926 Tggccgggcgcggtagctcacacctgtaatcccagcactttgggaggctg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360113 50 -   7948249 Tggccgggcgcggtagctcacacctgtaatcccagcactttgggaggctg
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100751824 50 - 128539186 Tggccgggcgcagtggctcacacctgtaatcccagcactttgggaggctg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146914 50 +    435186 TAgccgggcacagtggctcacacctgtaatcccagcactttgggaggctg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535196 50 +   9309688 TAgctgggcgcggtggctcacacctgtaatcccagcactttgggaggctg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371667 50 -  29834108 Tggctgggtgaggtggctcacgcctgtaatcccagcactttgggaggccg
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845839 50 -   2295209 TAgctgggtgaggtgactcacgcctgtaatcccagcactttgggaggccg
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19703816 28 +  45876710 ---------CAGGTAACTCTCATC-------------CTTTTATAAGCCA
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181  9 +  31815103 I
e proCoq1.NW_012140524v1      5070440  6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e cerAty1.NW_011999477v1      8261151 150 -  10730278 I

a score=195507.000000
s hg38.chr12_GL383549v1_alt     56000 31 +    120804 aggcaggcaaatcacaaggtcaggagttcaa
s panTro5.chr12              62747482 31 + 137163284 aggcaggcaaatcacgaggtcaggagttcaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871480 31 + 135337776 aggcaggcaaatcacgaggtcaggagttcaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086804 31 -  32808036 aggcaggcaaatcacgaggtcaggagttcaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270939 30 +  34552619 aggca-gcaaatcacgaagtcaggagttcaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582871 31 - 133663169 aggcgggcaaatcacgaagtcaggagttcaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982383 31 - 137757926 aggcgggcaaatcacgaagtcaggagttcaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360163 31 -   7948249 aggcgggcaaatcacgaagtcaggagttcaa
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100751874 31 - 128539186 aggcgggcgaatcacaaagtcaggagttcaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       146964 31 +    435186 aggcgggcgaatcacgaagtcaagagttcaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535246 31 +   9309688 aggcgggtgaatcatgaagtcaggagttcaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371717 31 -  29834108 aggtgggcaaatcatgaggtcaggagttcaa
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845889 31 -   2295209 aggtgggcaaatcatgtggtcaggagttcaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181  9 +  31815103 I
e canFam3.chr27              19703844  0 +  45876710 C
e proCoq1.NW_012140524v1      5070440  6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e cerAty1.NW_011999477v1      8261151 150 -  10730278 I

a score=297520.000000
s hg38.chr12_GL383549v1_alt     56031 38 +    120804 gaccagcctggccaacatggtgaaaccccgtctctact
s panTro5.chr12              62747513 38 + 137163284 gaccagcctggccaacatggtgaaaccccgtctctact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871511 38 + 135337776 gaccagcctggccaacatggtgaaaccccgtctctact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086835 38 -  32808036 gaccaacctggccaacatggtgaaaccccgtctctact
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7270969 38 +  34552619 gaccagcctggccaacatggtgaaaccccatctctact
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104582902 38 - 133663169 gaccagcttggccaacatggtgaaaccctgtctctact
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982414 38 - 137757926 gaccagcttggccaacatggtgaaaccctgtctctact
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360194 38 -   7948249 gaccagcttggccaacatggtgaaaccctgtctctact
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261301 38 -  10730278 gaccagcttggccaacatggtgaaatcctgtctctgct
i cerAty1.NW_011999477v1    I 150 C 0
s chlSab2.chr11             100751905 38 - 128539186 gaccagcttggccaacatggtgaaaccctgtctctact
i chlSab2.chr11             C 0 I 1132
s manLeu1.NW_012101287v1       146995 38 +    435186 gaccagcttggccaacatggtgaaaccctgtctctgct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535277 38 +   9309688 gaccagcttggccaacatggtgaaaccctgtctctacc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11371748 38 -  29834108 gaccagcctggccaacatagggaaattccgtctctact
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1845920 38 -   2295209 gaccagcctggccaacatagggaaatcctgtctctact
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181  9 +  31815103 I
e canFam3.chr27              19703844  0 +  45876710 C
e proCoq1.NW_012140524v1      5070440  6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I

a score=961430.000000
s hg38.chr12_GL383549v1_alt     56069 164 +    120804 aaaaatac----aaaaaaa-----------------------ttagccgggcatggtggtgggtgcctgtagtcccagctactcaggaggctgaggtaggagaatcacttgaacctgggaggcggaggttgcagtgagccgaagattgcgccactgcactccagcct-ggtgacagaatgagattccgtctc
s panTro5.chr12              62747551 164 + 137163284 aaaaatac----aaaaaaa-----------------------ttagccgggcatggtggtgggcgcctgtagtcccagatactcaggaggctgaagtaggagaatcacttgaacctgggaggcggaggttgcagtgagccgaagattgcgccactgcactccagcct-ggcgacagagtgagattccgtctc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871549 163 + 135337776 aaaaatac----aaaaaaa-----------------------ttagccgggcatggtggtgggcgcctgtagtcccagatactcaggaggctgaagtaggagaatcacttgaacctgggaggcagagattgcagtgagccgaagattgcgccactgcactccagcct-ggcgacagagtgagattccgtct-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3086873 164 -  32808036 aaaaatac----aaaaaaa-----------------------ttagccgggcgtggtggtgggcgcctgtagtcccagctactcaggaggctgaggcaggagaatcacttgaacctgggaggcggaggttgcagtgagccaaagattgcgccactgcactccagcct-ggcgacagagtgagattccgtctc
i gorGor5.CYUI01000003v1    C 0 I 2
s nomLeu3.chr23               7271007 163 +  34552619 aaaaatac-----aaaaaa-----------------------ttagccagacgtggtggcaggcgcctgtagtcccagctactcaggaggctgaggcaggagaatcacttgaacctgggaggcagaggttgcagtgagccgaagattgcgccactgcactctagcct-gggaacagagtgagattccgtctc
i nomLeu3.chr23             C 0 I 1
s rheMac8.chr11             104582940 162 - 133663169 aaaaatac-----acaaaa-----------------------ttagtggggcgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatcacttgaacccgggaggcggaggttgcagtgagccg-agattgtaccactgcactccagcct-ggcaacagagtgagactccatctc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982452 162 - 137757926 aaaaatac-----acaaaa-----------------------ttagtggggcgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatcacttgaacccgggaggcggaggttgcagtgagccg-agattgtaccactgccctccagcct-ggcaacagagtgagactccatctc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360232 162 -   7948249 aaaaatac-----acaaaa-----------------------ttagtggggtgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatcacttgaacccgggaggcggaggttgcagtgagccg-agattgtaccactgcactccagcct-ggcaacagagtgagactccatctc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261339 162 -  10730278 aaaaatac-----acaaaa-----------------------ttagcggggcgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatcacttgaacccgggaggcggaggttgcagtgagccg-agattgtaccactgcactccagcct-ggcaacagagtgagactccatctc
i cerAty1.NW_011999477v1    C 0 I 5
s manLeu1.NW_012101287v1       147033 162 +    435186 aaaaatac-----acaaaa-----------------------ttagcggggcgtggtggcaggcgcctgtagtcccagctacttgggaggctgaggcaggagaatcacttgaacccaggaggcggaggttgcagtgagccg-agattgtaccactgcactccagcct-ggcaacagagtgagactccatctc
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3535315 162 +   9309688 aaaaatac-----acaaaa-----------------------ttagcggggcgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatcactggaacccaggaggcagaggttacagtgagccg-agattgtaccactgcactccaacct-ggcaacagagtgagactccatctc
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11371786 191 -  29834108 aaaaatacaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaggtagctgggcttagtagcaggtgcttgtaatcccagctactcaggaggctgaggcagcagaatcacttgaacccagaggacagaggttgcagtgaacca-ccatgacaccactgcactccagcctgggtgatagagtgagactctgcctc
i saiBol1.JH378123          C 0 I 1
s aotNan1.NW_018488218v1      1845958 168 -   2295209 aaaaatacaaaaaaaaaaa-----------------------gtagctgggcttagtggcagatgcttgtaatcccagctactcaagaggctgaggcagcagaatcgcttgaacccaggggacagaggttgcagtgagccg-acatcacaccactgcactccagcctgggtgacaaagtgagactctgcctc
i aotNan1.NW_018488218v1    C 0 I 4
e otoGar3.GL873576            4548562  19 -  12054995 I
e mm10.chr6                   2391874  14 - 149736546 I
e micMur3.chr21               2988181   9 +  31815103 I
e canFam3.chr27              19703844   0 +  45876710 C
e proCoq1.NW_012140524v1      5070440   6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e cebCap1.NW_016107911v1       825202 401 -   1015025 I
e chlSab2.chr11             100751943 1132 - 128539186 I

a score=1911.000000
s hg38.chr12_GL383549v1_alt     56233 1 +    120804 a
s panTro5.chr12              62747715 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087039 1 -  32808036 a
i gorGor5.CYUI01000003v1    I 2 C 0
s nomLeu3.chr23               7271171 1 +  34552619 a
i nomLeu3.chr23             I 1 C 0
s saiBol1.JH378123           11371978 1 -  29834108 a
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       825603 1 -   1015025 a
i cebCap1.NW_016107911v1    I 401 C 0
s aotNan1.NW_018488218v1      1846130 1 -   2295209 a
i aotNan1.NW_018488218v1    I 4 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181 9 +  31815103 I
e canFam3.chr27              19703844 0 +  45876710 C
e proCoq1.NW_012140524v1      5070440 6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I
e colAng1.NW_012114364v1      3535477 1 +   9309688 I
e manLeu1.NW_012101287v1       147195 1 +    435186 I
e chlSab2.chr11             100751943 1132 - 128539186 I
e cerAty1.NW_011999477v1      8261501 5 -  10730278 I
e macNem1.NW_012011422v1      1360394 0 -   7948249 C
e macFas5.chr11             108982614 0 - 137757926 C
e rheMac8.chr11             104583102 0 - 133663169 C
e panPan2.chr12              60871712 0 + 135337776 C

a score=194168.000000
s hg38.chr12_GL383549v1_alt     56234 29 +    120804 aaaaaaaaaaaaaaagaaTGCTTATACAA
s panTro5.chr12              62747716 29 + 137163284 aaaaaaaaaaaaaaagaaTGCTTATACAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871712 28 + 135337776 -acaaaaaaaaaaaagaaTGCTTATACAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087040 29 -  32808036 aaaaaaaaaaaaaaagaaTGCTTATACAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7271172 29 +  34552619 aaaaaaaaaaaaaaaGAGGGCTCATACAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583102 29 - 133663169 aaaaaaaaaaaaaaaaaGTGCTCATACAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982614 27 - 137757926 --aaaaaaaaaaaaaaaGTGCTCATACAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360394 27 -   7948249 --aaaaaaaaaaaaaaaGTGCTCATACAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261506 29 -  10730278 aaaaaaaaaaaaaaaaaGGGCTCATACAA
i cerAty1.NW_011999477v1    I 5 C 0
s chlSab2.chr11             100753075 29 - 128539186 aaaaaaaaaaaaaaaaaGTGCTCATACAA
i chlSab2.chr11             I 1132 C 0
s manLeu1.NW_012101287v1       147196 20 +    435186 ---------aaaaaaaaGGGCTCATGCAA
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3535478 24 +   9309688 -----agaaaaaaaaaaGTGCTCATACAA
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11371979 29 -  29834108 aaaaaaaaaaaaTGGGAGTGCTCATACGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825604 29 -   1015025 aaaaaaaaaaaaaGGGAGTGCTCATATGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846131 29 -   2295209 aaaaaaggaaaaTGGGAGTGCTCATACGA
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2988181  9 +  31815103 I
e canFam3.chr27              19703844  0 +  45876710 C
e proCoq1.NW_012140524v1      5070440  6 +  13104022 I
e dasNov3.JH562883             903815 146 -   1687904 I

a score=113192.000000
s hg38.chr12_GL383549v1_alt     56263 14 +    120804 TAAGCTTCA-TTTTT
s panTro5.chr12              62747745 14 + 137163284 TAAGCTTCA-TTTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871740 14 + 135337776 TAAGCTTCA-TTTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087069 14 -  32808036 TAAGCTTGA-TTTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7271201 14 +  34552619 TAAGCTCCA-TTTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583131 13 - 133663169 T-AGCTTCA-TTTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982641 13 - 137757926 T-AGCTTCA-TTTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360421 13 -   7948249 T-AGCTTCA-TTTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261535 13 -  10730278 T-AGCTTCA-TTTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753104 14 - 128539186 T-AGCTTCATTTTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       147216 13 +    435186 T-AGCTTCA-TTTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535502 13 +   9309688 T-AGCTTCA-TTTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372008 14 -  29834108 TAAGCTTCA-GTTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825633 14 -   1015025 TAAGCTTCG-TTTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846160 14 -   2295209 TAAGTTTCA-TTTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988190 14 +  31815103 TAAGCTTCA-TCTTC
i micMur3.chr21             I 9 C 0
s proCoq1.NW_012140524v1      5070446 14 +  13104022 TAAGCTTCA-TCTTT
i proCoq1.NW_012140524v1    I 6 C 0
e otoGar3.GL873576            4548562 19 -  12054995 I
e mm10.chr6                   2391874 14 - 149736546 I
e canFam3.chr27              19703844  0 +  45876710 C
e dasNov3.JH562883             903815 146 -   1687904 I

a score=102546.000000
s hg38.chr12_GL383549v1_alt     56277 10 +    120804 TT-ATCAGCCA
s panTro5.chr12              62747759 10 + 137163284 TT-ATCAGCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871754 10 + 135337776 TT-ATCAGCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087083 10 -  32808036 TT-ATCAGCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7271215 10 +  34552619 TT-ATCAGCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583144 10 - 133663169 TT-ATCAGCCG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982654 10 - 137757926 TT-ATCAGCCG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360434 10 -   7948249 TT-ACCAGCCG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261548 10 -  10730278 TT-ATCAGCCG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753118 10 - 128539186 TT-ATCAGCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       147229 10 +    435186 TT-ATCAGCCG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535515 10 +   9309688 TT-ATCAGCCG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372022 11 -  29834108 TTTATTAGCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825647 11 -   1015025 TTAATTAGCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846174 10 -   2295209 TT-ATTAGCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988204 10 +  31815103 TT-ATCAGATA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5070460 10 +  13104022 TT-ATCAGCTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4548581 10 -  12054995 TT-ATCACCCA
i otoGar3.GL873576          I 19 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e canFam3.chr27              19703844  0 +  45876710 C
e dasNov3.JH562883             903815 146 -   1687904 I

a score=1900536.000000
s hg38.chr12_GL383549v1_alt     56287 151 +    120804 CCACAAATGCCAATTTCATTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
s panTro5.chr12              62747769 151 + 137163284 CCACAAATGCCAATTTCATTATAACGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871764 147 + 135337776 CCACAAATGCCAATTTCATTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGC----TTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087093 151 -  32808036 CCACAAATGCCAATTTCATTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7271225 151 +  34552619 CCACAAATGCCAATTTCATTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACTTAGGATCATTGTTCATAATAATTTCTTTTAGAGATTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583154 151 - 133663169 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAATAATGCTGCTTAATCAAGCTTGTTTGACAGCAGAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CGTTCTATCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982664 151 - 137757926 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAATAATGCTGCTTAATCAAGCTTGTTTGACAGCAGAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CGTTCTATCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360444 151 -   7948249 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAATAATGCTGCTTAATCAAGCTTGTTTGACAGCAGAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAACGGAGGTAAATA-CATTCTATCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261558 150 -  10730278 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAA-AATGCTGCTTAATCAAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CGTTCTATCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753128 151 - 128539186 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAATAATGCTGCTTAATCAAACTTGTTTGACAGCAGAAACCTAGGATCATTGTTCATAATAATTTATTGTAGAGGTTGCTTTAAATGAATAGAGGTAAATA-CGTTCTATCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       147239 150 +    435186 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAA-AATGCTGCTTAATCAAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAATAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CGTTCTATCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535525 151 +   9309688 CCACAAATGCCAATTTCATTATAATGCCAGTTGATATTCTGAATAACGCTGCTTAATCAAGCTTGTTTGACAGCAAAAACCTAGGATCATTGTTCATAAAAATTTCTTGTAGAGGTTGCTTTAAATGAATGGAGGTAAATA-CATTCTATCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372033 151 -  29834108 CCACAAATGCCAATTTCATTGCAATGCCAGAATAAGTTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACCTCTGATCATTGTTCATGATAACTTCTTGTAGAGGTTGCTTAAAATGAATGGAGGTGAATA-CATTCTAACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825658 151 -   1015025 ACACAAATGCCAATTTCATTATAATGCCAGAATATGTTCTGAATAATGCTGCTTAATCCAGTTTGTTTGACAGCAAAAACCTATGATCATTGTTCATGATAATTTCTTGTAGAAGTTGCTTAAAATGAATGGAGGTGAATA-CATTCTATTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846184 151 -   2295209 CCACAAATGCCAATTTCATCATAATGCCAGAATATGTTCTGAATAATGCTGCTTAATCCAGCTTGTTTGACAGCAAAAACCTATGATCATTGTTCATGATAATTTCTTGTAGAGGTTGCTTAAAATGAATGGAGGTGAATA-CATTCTATCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988214 152 +  31815103 CCACAAATGCCCATTTCATTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGGTTGTTTGACAGCAAAAACCGAGAGTCATTGTTCACTATAATCTCTTGCAGAGGTTACTGTAAATAAATGGAGGTGAATACCACTCTATTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5070470 152 +  13104022 CGACAAATGCCCACTTCAGTATAATGCCAGTCTATATTCTGAATAATGCTGCTTAATCCAGGTTTTTTGACAGCAAAAACCTAGAGTCATTGTTCACAGTAATCTCTTGCAGAGGTTACTGTAAATAAATGGAGATGAATAGCACTGCATCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4548591 150 -  12054995 CCACAAATGCCCATTTCATTAAAATACCAGTTTGTATTCTGAATAATGCTACTTAATCCAGGTTGTTTGACAGCTGAAACCTAGAGTTATCATTCACCATCCTTCTGCACAGAGGCTGCTGTAAATAAGTGGTGGTGAATACCACTCCCT--
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703844 135 +  45876710 CCACAAATGCCAGTTTCATCACAATGCTAGT-----------------CTGCTTAATCCAAGTTGTTTGACAGCACAGACCTAGAGTCATCGTCCATCATCATCTATTTCAGAAGTGACTTTAAATAAATAGAGGTGAACATTGCTCTGTCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874  14 - 149736546 I
e dasNov3.JH562883             903815 146 -   1687904 I

a score=8776551.000000
s hg38.chr12_GL383549v1_alt     56438 655 +    120804  
s panTro5.chr12              62747920 654 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60871911 649 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087244 654 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7271376 654 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583305 654 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108982815 654 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1360595 654 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8261708 654 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753279 653 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       147389 654 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3535676 654 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372184 649 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       825809 654 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846335 654 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2988366 657 +  31815103  
i micMur3.chr21             C 0 I 253
s proCoq1.NW_012140524v1      5070622 659 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4548741 585 -  12054995  
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19703979 655 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             903961 617 -   1687904  
i dasNov3.JH562883          I 146 C 0
e mm10.chr6                   2391874  14 - 149736546 I

a score=308001.000000
s hg38.chr12_GL383549v1_alt     57093 25 +    120804 GGTTGCATTTACT--GGAT--TTAAGAAG
s panTro5.chr12              62748574 25 + 137163284 GGTTGCATTTACT--GGAT--TTAAGAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60872560 25 + 135337776 GGTTGCATTTACT--GGAT--TTAAGAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087898 25 -  32808036 GGTTGCATTTACT--GGAT--TTAAGAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272030 25 +  34552619 GGTTGCATTTACT--GGAT--TTAAGAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583959 25 - 133663169 GGTTGCATTTACT--GGAT--TTAAGAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983469 25 - 137757926 GGTTGCATTTACT--GGAT--TTAAGAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361249 25 -   7948249 GGTTGCATTTACT--GGAT--TTAAGAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262362 25 -  10730278 GGTTGCATTTACT--GGAT--TTAAGAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753932 25 - 128539186 GGTTGCATTTACT--GGAT--TTAAGAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148043 25 +    435186 GGTTGCATTTACT--GGAT--TTAAGAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536330 25 +   9309688 GGTTGCATTTACT--GGAT--TTAAGGAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372833 25 -  29834108 GGTTGCATTTACT--GGAT--TTAGGAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826463 25 -   1015025 GGTTGCATTTACT--GGAT--TTAGGAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1846989 25 -   2295209 GGTTGCATTTACT--GGAT--TTAGGAAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5071281 25 +  13104022 GGTTGCATTTACC--GGAT--TTTATGAA
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4549326 25 -  12054995 GGTTGCATTTACC--AGAT--TCTATGAA
i otoGar3.GL873576          C 0 I 1
s canFam3.chr27              19704634 27 +  45876710 GGTTGCATTTACCTAGTAT--TTAGGAGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             904578 26 -   1687904 GGCTAC-TCTACC--AGATAGTTAGAAAT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2989023 253 +  31815103 I

a score=842684.000000
s hg38.chr12_GL383549v1_alt     57118 58 +    120804 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGAAATGCACATCTCCAAAGTGTC
s panTro5.chr12              62748599 58 + 137163284 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGAAATGCACATCTCCAAAGCGTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60872585 58 + 135337776 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGAAATGCACATCTCCAAAGTGTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087923 58 -  32808036 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGAAATGCACATCTCCAAAGTGTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272055 58 +  34552619 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGAAATGCACATCTCCAAAGTGTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104583984 58 - 133663169 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983494 58 - 137757926 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361274 58 -   7948249 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262387 58 -  10730278 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100753957 58 - 128539186 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148068 58 +    435186 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536355 58 +   9309688 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTCTGACATGCACATCTCCAAAGTGTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372858 58 -  29834108 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTTTGAAATGCAAATCTCCAAAGTGTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826488 58 -   1015025 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTTTGAAATGCAAATCTCTGAAGTGTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847014 58 -   2295209 TTAT-CCTAATTGAATTCAGATCCTAAATAATTTTTGAAATGCAAATCTCCAAAGTGTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2989276 58 +  31815103 TTAT-CCCGATTAAATTCAGATCCTAAATAATTTTTGAAATGCACATCTCTAACGTGTC
i micMur3.chr21             I 253 I 64
s proCoq1.NW_012140524v1      5071307 58 +  13104022 TCAT-CCCAATTGAGTTCAGATCCTAAATAATTTTTGAAATGCACATCTCTAAAGTGTC
i proCoq1.NW_012140524v1    I 1 I 1
s otoGar3.GL873576            4549352 58 -  12054995 TTAT-CCCAGTGAAATTCAGGTCCTAAATCATTTCTGAAATACACATCTCTATCGTGTC
i otoGar3.GL873576          I 1 I 1
s canFam3.chr27              19704661 58 +  45876710 TTAT-CCCAACTGAATTCAGATTCCAAATAATCTTTGGAATACATATCTCTTATGTGCC
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             904604 58 -   1687904 TTATCCCCGATCGAATGGAGAGCCCAGATGATTT-TGCTGTGTGCATCCCTGAAGCGCC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I

a score=15282.000000
s hg38.chr12_GL383549v1_alt     57176 3 +    120804 -AAG
s panTro5.chr12              62748657 3 + 137163284 -AAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60872643 3 + 135337776 -AAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087981 3 -  32808036 -AAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272113 3 +  34552619 -AAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584042 3 - 133663169 -AAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983552 3 - 137757926 -AAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361332 3 -   7948249 -AAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262445 3 -  10730278 -AAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754015 3 - 128539186 -AAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148126 3 +    435186 -AAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536413 3 +   9309688 -AAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372916 3 -  29834108 -AAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826546 3 -   1015025 -AAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847072 3 -   2295209 -AAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5071366 2 +  13104022 -AA-
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4549411 2 -  12054995 -AA-
i otoGar3.GL873576          I 1 C 0
s canFam3.chr27              19704720 2 +  45876710 -AA-
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             904662 3 -   1687904 CAA-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2989334 64 +  31815103 I

a score=4318781.000000
s hg38.chr12_GL383549v1_alt     57179 324 +    120804 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTAGAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAATGTCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATTATAGGAAGAAAGTAAAACAATTATGTCCACGTAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTCCACTGACAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC--AAAG
s panTro5.chr12              62748660 324 + 137163284 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTAGAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAATGTCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATTATAGGAAGAAAGTAAAACAATTATGTCCACGTAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTCCACTGACAGGAACAATTT-TTCACTTTCTATAAGCAGTACAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC--AAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60872646 324 + 135337776 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTAGAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAATGTCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATTATAGGAAGAAAGTAAAACAATTATGTCCACGTAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTCCACTGACAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC--AAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3087984 324 -  32808036 TTGCTGAAATATTTACAAACGAGCCTAACGTTTAGTTGTTAGAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAATGTCTATATTTT----AAAGAGGTGCCTTCAAATGATTTAATCAATTAAAGGAAGAAAGTAAAACAATTACGTCCACATAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTCCACTGACAGGAGCAATTT-TTCACTTTCTATAAGGAGTACAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAACAGAGAT---AA--G--AGCC--AAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272116 324 +  34552619 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTAGAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAATGTCTATATTTT----AAAGAGCTGCCTTCAAATTATTTAATCAATTAAAGGAAGATAGTAAAACAATTATGTCCACATAAGCACTTGGACTGTTTTGCAGCCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGGT---AA--G--AGCC--AAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584045 322 - 133663169 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAAGGCCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAATTCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983555 322 - 137757926 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAAGGCCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAATTCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361335 322 -   7948249 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAAGGCCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTACAGAAATTCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262448 322 -  10730278 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCGGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAACGTCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAACACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTATAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754018 322 - 128539186 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCTGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAAGGTCTATATTTT----AAAGAGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAGCACTTGGACTGTTTTGCAACCAGCTATGGTATTTCAGTATACTGATAGGAACAATTT-TTCACTTTCTATGAGGAGTACAGAAATTCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148129 322 +    435186 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGCGGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAACGTCTATATTTT----AAAGAGGTGCCTTCAAACTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAACACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTATAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536416 322 +   9309688 TTGCTGAAATATTTACAAATGAGCCTAACGTTTAGTTGTTACAGAAAAATCTAGGTGGCTATACAAACTGTCCTAGGCTTTCTGGATGGATAAACGTCTATATTTT----AAAGCGGTGCCTTCAAATTATTTAATCAATAAAAGGAAGAAAGTAAAACAATTATGTCCACATAAGTACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGATAGGAACAATTT-TTCACTTTCTATAAGGAGTATAGAAAATCTGATTATAGAATGGAGGAAAGGAACTAACAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AA--G--AGCC----AG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11372919 327 -  29834108 TTGCTGAAATACTTACAAATCATCCTAACGTTTAGTTGTTAGAGAAAAATCCTGCCTGCTGTAAAGACTGGCCTAGATTTTCTGGATGGAAAAACATCTATATTTT----AAAGAGATGTCTTCAAATTATTTAATCAATTAAAGGAAGAAAGTAAAACAATTACGACCACGTAAGCATTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGGACACTGATAGGAACCATTTCCTCACTTTCTATAAGGAGTGCGGAAAATCTGATTATAGAATAGAGGAAAGGAGCAAAAAGGAAATCAGA--------------------------------------AAGATTAACAGAGAT---AA--GAGAGCC--AAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826549 329 -   1015025 TTGCTGAAATATTTACAAATCAGCCTAACGTTTAGTTGTTAGAGAAAAATCTTGCCTGCTGTAAAGACTGGCCTAGGTTTTCTGGATGGAAAAACATCTATATTTT----AAAGAGGTGTCTTCAAATTATTTAATCAATTAAAGGAAGAAAGTAAAATAATTACGTCCACGTAAGCATTTGGACTGTTTTGCAGCCAGCTATTGTATTTCAGTACACTGATAGGAACAATTTCCTCACTTTCTATAAGGAGTGCAGAAAATCTGATTATAGAATGGAGGAAAGGAACAAAAAGGAAATCAGA--------------------------------------AAGATTAACAGAGAT---AA--GAGAGCCAAAAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847075 327 -   2295209 TTGCTGAAATATTTACAAATCAACCTAATGTTTAGTTGTTAGAGAAAAATCTTGCCTGCTGTAAAGACTGGCCTAGGTTTTCTGGATGGAAAAACATCTATATTTT----AAAGAGATGTCTTCAAATTATTTAATCAATTGAAGGAAGAAAGTAAAACAATTACATCCACGTAAGCACTTGGACTGTTTTGCAACCAGCTATTGTATTTCAGGGCACTGATAGAAACAATTTCCTCACTTTCTATAAGGAGTGCAGAAAATCTGATTATACAATGGAGGAAAGGAACAAAAAGGAAATCAGA--------------------------------------AAGATTAACAGAGAT---AA--GACAGCC--AAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2989398 325 +  31815103 TTGCTGAAATCTTTACAAATGAGCCTAATGTTTAGTTGTTGGAGAAAACCCTA-GTTGCTGTGCAAACTGCACTAAGTTTT-TGGGTGGACAAACTTCTATATTTC----AAAGAGGTACCTTCCAATCATTTGATCAATTAAAGGAAGGAAGTAAAACAATTATGTCCTTGTAAGCACTTGCACTGTTTTGCAACCAGCTATTGTATTTCAGTACACCGTTAAGAACAATTTCTTCACTTTCTATAAGGAGTGTAGAAAATCTGATGACAGGATAGAGAAAAGGAGCAAATAGGAAATCAGA--------------------------------------AAGACTAATAGAGAT---AA--GGGTACC--AAAG
i micMur3.chr21             I 64 C 0
s proCoq1.NW_012140524v1      5071368 327 +  13104022 TTGCTGAAATCTTTACAAATGAGCCTCATGTTTAGTTGTTGGAGAAAAACCTAGGTTACTGTGCAAACTGTACTAAGTTTTCTGGGTGGACAAACTTCTATATTTT----AAAGAAGTACCTTCTAATCATTTGATCAATTAAAGGAAGGAAGTAAAACAATTATGTCCTTGTAAGGACTTGCACTATTTTGCAACCAGCTATTGTATATCAGTACACTATTAGGAACAGTTTCTTCACTTTTTGTAAGGAGTGTAGAAAATCTGATGACAGGATAGAGAAAAGGAACAAATAGGAAGTCAGA--------------------------------------AAGACTAACAGAGGT---AA--GGGAGCC--AAAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4549413 325 -  12054995 TTTCTAAAATCTTTACAAATCAGCCTAATCTTTAGTTGTCGGAGAAAAATCTAGGTTGCTGTACAAACTGTGCTAAGTTTTCTGGGTGTACAAACTTTGATATTTT----AAAGAGGCATTTTCCGACCGTTTTATC----AAAGGAAGAAAGTAAAACAATTGTGTCCTTGTGAGCATTTGTACTGTTTTGCAACCAGCTATTGTATTTCAGTACACTGTTAGGAACGACTTCTTCACTTTTTATAAAGAGGGTAGAAAATCTGATGATGGCACAGAGGAAAGGGACAAATAGGAAATCAGA--------------------------------------AAGATTAATAGAGAT---AATCTATTAAC--AAAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19704722 324 +  45876710 TTGCTGAAATCTTTACAAATGGGCCTAA-------TTCTTAAAGAGAAATCCAGGGTGTCATGCATACTGTATTAGGTTTTCTTGATAGATAAACTTCTGTACTTTAAGGAAAGAGATACCTCTAAATTACTTGATCAATTAAAGGAAGAGAGTAAGACAATTAAGTCCAAGAAAGCACATTGGCTATCTTGCAGCCTGATACTGTATTTCAATATGCTGTTAGGAACACTTTCCTCTCTTGCCATAAAGAGTGCAGAAAACCTGATTACAGGATGGAGAGAAGGAAGAAATAGGAAATCAGA--------------------------------------AAGATTAATAAAGAT---AA--GGGAGCC--AAAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             904665 337 -   1687904 TTGCTGAGATCTTTACAAAGAA--------CTTCTGTGTTAGAGAGAAATCCAGGCTGCTGTACATGCTGCGCTAGGTTTTCTTGACAGACA--------CACTTT----------GTACCTTTAAACCATTTCATCAATTAAAGGAAGAGAATAAGAACAGTAGGTCCACGAAAGCACCGGGACTCCCTTGCATCCAGGTATTATATTCCA-------GATAGAAACAATGTTCTTCCTTTCCAGAAGGAGAGCAGAATACCTGGTGACCGGGTAGAAAGAAGAAAGTAATAGGGTCTAAGAGCCAATGGTTGGACATGGAGCTAGAACTTAGCTATGGGAAGACTCAGAGAAGTCAAAA--G--GGCA--AAAG
i dasNov3.JH562883          C 0 I 295
e mm10.chr6                   2391874  14 - 149736546 I

a score=454874.000000
s hg38.chr12_GL383549v1_alt     57503 38 +    120804 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
s panTro5.chr12              62748984 38 + 137163284 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60872970 38 + 135337776 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088308 38 -  32808036 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGCAATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272440 37 +  34552619 AGTTAATTGTTAAAAC-TGTAGCAGGAACTTAGTAATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584367 38 - 133663169 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983877 38 - 137757926 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361657 38 -   7948249 AGTCAATTGTTAAAACATGTATCAGGAACTTAGTAATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262770 38 -  10730278 AGCCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754340 38 - 128539186 AGTCAATTGTTAAAACATGTAGCAGGAACTTAGTAAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148451 38 +    435186 AGCCAATTGTTAAAACATGTAGCAGGAACTTAGTAATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536738 38 +   9309688 AGTCAATTGTTAAAACACGTAGCAGGAACTTAGTAATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373246 33 -  29834108 AGTCCATTGTT-AAACACATA----GAACTTAGAAATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826878 37 -   1015025 AGTCCATTGTT-AAACACATAGCAGGAACTCAGTAATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847402 37 -   2295209 AGTCCACTGTT-AAACACAGAGCAGGAACTTAGTAATG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2989723 38 +  31815103 GGTCAATTGTTGAAACATGTAGCAGGAGTTTAGTAATG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5071695 38 +  13104022 GGTCAATTGCTGAAACATGTAGCAGGAATTTAGCAATG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4549738 38 -  12054995 GGTCCTTTGTTAAAACATGTAGCAGGAATTTAGCAATG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19705046 38 +  45876710 GGTCAATGGTTGAAATACGTAACAAGAACATAGCAAAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e dasNov3.JH562883             905002 295 -   1687904 I

a score=310923.000000
s hg38.chr12_GL383549v1_alt     57541 24 +    120804 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
s panTro5.chr12              62749022 24 + 137163284 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873008 24 + 135337776 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088346 24 -  32808036 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272477 24 +  34552619 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584405 24 - 133663169 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983915 24 - 137757926 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361695 24 -   7948249 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262808 24 -  10730278 AGAAGA-ATTGGAGAA-------------------GTTAGGAGG---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754378 24 - 128539186 AGACGA-ATTAGAGAA-------------------GTTAGGAGG---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148489 24 +    435186 AGAAGA-ATTGGAGAA-------------------GTTAGGAGG---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536776 24 +   9309688 AGAAGA-ATTAGAGAA-------------------GTTAGGAGG---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373279 24 -  29834108 AGAAAA-GTTAGAGAA-------------------GTTTAGAGG---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826915 24 -   1015025 AGAAAA-GTTAGAGGA-------------------GTTTAGAGG---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847439 24 -   2295209 AGAAAA-GTTAGAGAA-------------------GTTTAGAGG---
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2989761 25 +  31815103 AGAAGATTTTAGAGAA-------------------GTTAAGAGG---
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5071733 24 +  13104022 AGAAGA-TTTAGAGAA-------------------GTTAAGAGG---
i proCoq1.NW_012140524v1    C 0 I 10161
s otoGar3.GL873576            4549776 24 -  12054995 AGAAGA-TTTAGAGAA-------------------GTTAAGAGG---
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19705084 24 +  45876710 AGAAGA-ATCAGAGTA-------------------GTTAAGAGG---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             905297 46 -   1687904 aaaaga-cacagagaacagacaacccgggggggggggggggaggcgg
i dasNov3.JH562883          I 295 C 0
e mm10.chr6                   2391874 14 - 149736546 I

a score=2463399.000000
s hg38.chr12_GL383549v1_alt     57565 236 +    120804 ACAAAAATATGGG-TACCATTCTTTAAAGAGTAATA-------------------Gattcctcagatataccaagatcaa-aaagatacagaaaggttgaaaaactattatagattaaagaagcttaaaaagacatggcaagt-----------------------------aatgctatatgtgattctggactgcattctgtatggtaag---aaaaaaa-tactgcaaaagacactatt---tgaacaatt-aaatt-tggaatatggattgttgattaaatacaagtttga
s panTro5.chr12              62749046 237 + 137163284 ACAAAAATATGGG-TACCATTCTTTAAAGAGTAATA-------------------Gattcctcagatataccaagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaagaagcttaaaaagacatggcaagta----------------------------aatgctatatgtgattctggactgcattctgtatggtaag---aaaaaaa-tactgcaaaagacactatt---tgaacaatt-aaatt-tggaatatggattgttgattaaatacaagtttga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873032 237 + 135337776 ACAAAAATATGGG-TACCATTCTTTAAAGAGTAACA-------------------Gattcctcagatataccaagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaagaagcttaaaaagacatggcaagta----------------------------aatgctatatgtgattctggactgcattctgtatggtaag---aaaaaaa-tactgcaaaagacactatt---tgaacaatt-aaatt-tggaatatggattgttgattaaatacaagtttga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088370 237 -  32808036 ACAAAAATATGGG-TACCATTCTTTAAAGAGTAATA-------------------Gattcctcagatataccaagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaagaagcttaaaaagacatggcaagta----------------------------aatgctatatgtgattctggactgcattctgtatggtaag---aaaaaaa-tactgcaaaagacactatt---tgaacaatt-aaatt-tggaatatggattgttgattaaatacaagtttga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272501 238 +  34552619 ACAAAAATATGGG-TACAATTCTTTAAAGAGTAATA-------------------Gattcctcaaatataccaagatcaa-aaagatacagaaaggttgaaaaagtattacagattaaagaagcttaaaaagacatggcaagta----------------------------aatgctgtatgtgattctggaatgcattccgtatggtaag---aaaaaaagtactgcaaaagacactatt---tgaacaatt-aaatt-tggaatatggattgttgattaaatacaagtttga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584429 265 - 133663169 ACAAAAGTCAGGG-TACCATTCTTTAAAGAGTAATA-------------------Gattcctca-atatacccagatcaa-aaagatacagaaaggttgaaaaagtactatagattaaggaaacttaaaaagacatggcaagtaatgctatatgtgattctggactgcaagtaatgctatatgtgattctggactgcattctgcatggtaag--aaaaaaaa-tactgcaaaagacactatt---cggacaatt-aaaat-tggaatatggattgttgattaaatacaaatgtga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108983939 265 - 137757926 ACAAAAGTCAGGG-TACCATTCTTTAAAGAGTAATA-------------------GATTCCTCA-ATATACCCagatcaa-aaagatacagaaaggttgaaaaagtatgatagattaaggaaacttaaaaagacacggcaagtaatgctatatgtgattctggactgcaagtaatgctatatgtgattctggactgcattctgcatggtaag--aaaaaaaa-tactgcaaaagacactatt---cggacaatt-aaaat-tggaatatggattgttgattaaatacaaatgtga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361719 266 -   7948249 ACAAAAGTCAGGG-TACCATTCTTTAAAGAGTAATA-------------------Gattcctca-atatacccagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaggaaacttaaaaagacacggcaagtaatgctatatgtgattctggactgCAAGTaatgctatatgtgattctggactgcattctgcatggtaag-aaaaaaaaa-tactgcaaaagacactatt---cggacaatt-aaaat-tggaatatggattgttgattaaatacaaatgtga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8262832 266 -  10730278 AAAAAAGTCAGGG-TACCATTTTTTAGAGAGTAATA-------------------Gattcctca-atataccgagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaggaaacttaaaaagacacagcaagtaatgctatatgtgattctggactgcaagtaatgctatatgtgattctggactgcattctgcatggcaag-aaaaaaaaa-tactgcaaaagacagtatt---tggataatt-aaaat-tggaatatggattgttgattaaatacaagtttga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754402 235 - 128539186 ACAAAAGTCAGGG-TACCATACTTTAAAGAGTAATA-------------------GATTCCTCA-GTATA-AGagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaggaaacttaaaaagacacg-----------------------------gcaagtaatgctatatgtgattctggactgcattctgcatggtaag--aaaaaaaa-tactgcaaaagacagtatt---tagacaatt-aaaat-tggaatatggattgttgattaaatataagtttga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148513 267 +    435186 AAAAAAGTCAGGG-TACCATTCTTTAGAGAGTAATA-------------------Gattcctca-atataccgagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaggaaacttaaaaagacacagcaagtaatgctatatgtgattctggactgCAAGTaatgctatatgtgattctggactgcattctgcatggcaagaaaaaaaaaa-tactgcaaaagacagtatt---tggataatt-aaaat-tggaatatggattgttgattaaatacaagtttga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3536800 266 +   9309688 AAAAATGTCAGGG-TACCATTCTTTAAAGAGTAATA-------------------GATTCCTCA-ATATACTGagatcaa-aaagatacagaaaggttgaaaaagtattatagattaaggaaacttaaaaagacatggcaagtaatgctataggtgattctggactgcaagtaatgctatatgtgattctggactgcattctgcatggtaag-aaaaaaaaa-tactgcaaaagacactatt---tggacaatt-aaaat-tggaatatggattgttgattaaatacaagtttga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373303 241 -  29834108 ACAAAAGTAAGGG-TACCATTCTTTAAAGAGTAATA---------------GAGGGattcctcaaatataccaagatcag-aaagataaagaaaggttgaaaaagtattctagattaaggaagattaaaaagacatgacaagta----------------------------aatgctatatgtgactctggacaggattctgtatggcaag---aaaaaaa-tactgcaaaggatgctatt---gtgacaatt-aaaat-tggaatatgggttgttgattaaatacaagtttga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       826939 241 -   1015025 ACAAAAGTAAGGG-TACCATTCTTTAAAGAGCAATA---------------GAGAGattcctcaaatataccaagatcaa-aaagataaataaaggttgaaaaagtattctagattaaggaagattaaaaagacatgacaacta----------------------------aatgctatatgtgattctggacaggattctgtgtggcaag---aaaaaaa-tactgcaaaggacgctatt---gcgacaatt-aaaat-tggaatatgggttgttgattaaatacaagtttga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847463 241 -   2295209 ACAAAAGTAAGGG-TACCATTCTTTAAAGAGTAATA---------------GAGAGattcctcaaatataccaagatcaa-aaagataaagaaaggttgaaaaagtattctagattcaggaagattaaaaagacatgacaacta----------------------------aatgctatatgtgattctggactggattctgtatggcaag---aaaaaaa-tactgcaaaggacgatatt---gcgacaatt-aaaat-tgaaatatgggttgttgattaaatacaagtttga
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2989786 240 +  31815103 CTAACAGTAGGGGATACCACACTTTTGAGAGCTATA---------------CAG-Gattcctcaaagatgtcaagatcaagaaagat----aaaggctaaagaactattacagattaaaggaaactcaagagacatgacaacta----------------------------aatgctaaatgtgaccctggactggattctgtatagtaaa--gaaaaaaa-tagtgtaaaggacactatt---gggacaattaaaaat-tggaatatgaattatagatttttaaaaagtttaa
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4549800 236 -  12054995 ATAAAAGTTGGGG-TACCACACTTTTAGGAATAATA---------------CAGAGattcctcaaataaatcaggatcaagaaaggtaaagaaaggctaaagaactatgatagattaaag---acccaagagatatgacaacta----------------------------aatggtacatgtgatcctggtctggattctgtatagtaaa--gaaaaaca------taaaggacactact---gggacaattaaaaat-tagaatatgaattacagattaaataaaagtttaa
i otoGar3.GL873576          C 0 I 115
s canFam3.chr27              19705108 235 +  45876710 ACAGAAGTAGGAG-TATCATATTTTTAAGAGTAAGA---------------TAGAGatttttcaaatatatcaaggtcaagaaagacaaagaaaggctgaagaactattacagattaaaggagactacagagacgagaccact-----------------------------ggcactatacagaatcctaggctagattctgtgtagtaga--gaaaaaaa-tcctataaaggataccatt---gggacaat--aaact-tggaatatggatagt------agttaaagtttag
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             905343 255 -   1687904 aattaaataaata-aataaatctttaaaaaaaaAAAAGGGCAAAAGTAGTCCAGAGTTtcttcaattatatcaaggtcaagaaaggtacaga----ctggagaactctcccagattaaaagacactgaagagaaatggcaacca----------------------------aatgctctacaggaccctggatatgagtctgtcttggagg---gaaaaaa-ttctacaaaggacacaattaaagggacaatt-aaaatgcagactatggacagtaga--ggctataagctttg
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874  14 - 149736546 I
e proCoq1.NW_012140524v1      5071757 10161 +  13104022 I

a score=1688015.000000
s hg38.chr12_GL383549v1_alt     57801 153 +    120804 tattaatgttaattttccagaacctgataactatactgtagttata-----tatattcat-gttcttacataccgaaatatttaggcataaagggtcaagatagctccaacttgctttcaaataactcagaataaaaatagg-----aataggtatacatatat
s panTro5.chr12              62749283 153 + 137163284 tattaatgttaattttccagaacctgataactatactgtagttata-----tatattcat-gttcttacataccaaaatatttaggcataaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtacacatatat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873269 153 + 135337776 tattaatgttaattttccagaacctgataactatactgtagttata-----tatattcat-gttcttacataccaaaatatttaggcataaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtacacatatat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088607 153 -  32808036 tattaatgttaattttccagaacctgataactatactgtagttata-----tatattcat-gttcttacataccaaaatatttaggcataaagggtcaagatagctctaacttgctttcaaatagctcggaataaaaatagg-----aataggtatacatatat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272739 152 +  34552619 tattaatgttaattttccagaacctgataactatactgtagttata-----tatattctt-gttcttacataccaaaatatttaggcataaagggtcaagatagctccaacttgctttcaaatagctcag-ataaaaacagg-----aataggcatacatatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584694 153 - 133663169 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----actaggtacacatatat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108984204 153 - 137757926 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----actaggtatacatatat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1361985 153 -   7948249 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----actaggtatacatatat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8263098 153 -  10730278 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtatacatatat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754637 153 - 128539186 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtatacaTATAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148780 153 +    435186 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcacaaagggtcaagatagctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtatacatatat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3537066 153 +   9309688 tattaatgttaattttccagaacctgataactatactgtaattata-----tatattctt-gttcttacatactgaactatttaggcataaagggtcaagatagctccagcttgctttcaaatagctcagaataaaaatagg-----aataggtatacatatat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373544 152 -  29834108 tattaatgttaa-tttccagaacctgataattatactatgattata-----tgtattctt-gttcttacatactgaaatatttaggcataaagggtcaagacacctccaacttgctttcaaatagctcagaataataataag-----aataggtataAATATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       827180 152 -   1015025 tattaatgttaa-cttccagaacctgataattatactatgattata-----tgtattctt-gttcttacatactgaaatatttaggcataaaggttcaagacacctccaacttgctttgaaatagctcagaataaaaatagg-----aataggtataaatATAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847704 152 -   2295209 tattaatgttaa-tttccagaacctgataactatactatgattata-----tgtattctt-gttcttacatactgaaatatttaggcataaagggtcaagacacctccaacttgctttcaaatagctcagaataaaaatagg-----aataggtataaatatat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2990026 158 +  31815103 tattaatgttaattttccttaacctgataactgtactatggttacagaaggtatgttctt-gttcttacacactgtaatccgtaggcataaagagtcaagatacctctgccctgttttcaaatagcttaggaaaaaaaTAGG-----GATAAGtataaatatat
i micMur3.chr21             C 0 I 473
s otoGar3.GL873576            4550151 152 -  12054995 tattaatgttaattttctttaacctgatcactatacagtggttata-----tatgttctt-gctcttacacaatgaaataggtaggtataaagagtcaagaga-ctatgatctgctggcagacagttcaggaaaacagtagg-----gataaatataaatatgt
i otoGar3.GL873576          I 115 I 7
s canFam3.chr27              19705343 119 +  45876710 tattaatattaattttcctgaacctgataactgtattaaggatata-----tata-----------tatatatatatatatatagacaca-------------------------cttcatgtatat----gtagagatatgtatgtattatgtatgtatgtgt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             905598 151 -   1687904 ggtggatgctggtgctcctgaacttgagagctgtgattgcgttaga-----ggtgctcctggttcttacactctgaactatctagga--gaagagacataatactgtcaac-tattttccaatgattccaggaaaaaatagg-----gagagagagaatgacaa
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874  14 - 149736546 I
e proCoq1.NW_012140524v1      5071757 10161 +  13104022 I

a score=11849.000000
s hg38.chr12_GL383549v1_alt     57954 1 +    120804 a
s panTro5.chr12              62749436 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873422 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088760 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272891 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104584847 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108984357 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1362138 1 -   7948249 a
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8263251 1 -  10730278 a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754790 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       148933 1 +    435186 a
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3537219 1 +   9309688 a
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373696 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       827332 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1847856 1 -   2295209 a
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4550310 1 -  12054995 g
i otoGar3.GL873576          I 7 C 0
s canFam3.chr27              19705462 1 +  45876710 a
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             905749 1 -   1687904 a
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2391874 14 - 149736546 I
e micMur3.chr21               2990184 473 +  31815103 I
e proCoq1.NW_012140524v1      5071757 10161 +  13104022 I

a score=603699.000000
s hg38.chr12_GL383549v1_alt     57955  76 +    120804 tccatatataaatttattttcc-------------tatatatgtaaatatTTTTCTCCATAGGAAA----------------------AAATATTCATTTTA-TCAGTGAAT
s panTro5.chr12              62749437  76 + 137163284 tccatatataaatttattttcc-------------tatatatgtaaatatttttctctataGGAAA----------------------AAATATTCATTTTA-TCAGTGAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873423  76 + 135337776 tccatatataaatttattttcc-------------tatatatgtaaatatttttctctataGGAAA----------------------AAATATTCATTTTA-TCAGTGAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088761  76 -  32808036 tccatatataaatttattttcc-------------tatatatgtaaatatttttctctataGGAAA----------------------AAATATTCATTTTA-TCAGTGAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7272892  78 +  34552619 tccatatataaatttattttccta-----------tatatatgcaaatatttttctgtataGGAAA----------------------AAATATTCATTTTA-TCAGTGAAT
i nomLeu3.chr23             C 0 M 100
s rheMac8.chr11             104584848  75 - 133663169 tccatatataaatttgttttcc-------------tatatatgtaaatacttttctctatagg-aa----------------------aaatattcatttta-tcagtgaat
i rheMac8.chr11             C 0 I 6
s macFas5.chr11             108984358  75 - 137757926 tccatatataaatttgttttcc-------------tatatatgtaaatacttttctctatagg-aa----------------------aaatattcatttta-tcagtgaat
i macFas5.chr11             C 0 I 6
s macNem1.NW_012011422v1      1362139  75 -   7948249 tccatatataaatttgttttcc-------------tatatatgtaaatacttttctctatagg-aa----------------------aaatattcatttta-tcagtgcat
i macNem1.NW_012011422v1    C 0 I 6
s cerAty1.NW_011999477v1      8263252  76 -  10730278 tccgtatataaatttgttttcc-------------tatatgtgtaaatacttttctctataggaaa----------------------aaatattcattttg-tcagtgaat
i cerAty1.NW_011999477v1    C 0 I 6
s chlSab2.chr11             100754791  76 - 128539186 TCCATATATAAATTTGTTTTCC-------------TATATATGTAAATACTTTTCTCTATAGGAAa----------------------aaatattcattttg-tcagtgaat
i chlSab2.chr11             C 0 I 6
s manLeu1.NW_012101287v1       148934  76 +    435186 tccatatataaatttgttttcc-------------tatatgtgtaaatacttttctctataggaaa----------------------aaatattcattttg-tcagtgaat
i manLeu1.NW_012101287v1    C 0 I 6
s colAng1.NW_012114364v1      3537220  76 +   9309688 tccatatataaatttgttttcc-------------tatatatgtaaatacttttctctataggaaa----------------------aaatattcatttta-tcagtgaat
i colAng1.NW_012114364v1    C 0 I 6
s saiBol1.JH378123           11373697  77 -  29834108 -CCATATATAAATTTATTTTCCTA-----------TATATATGCAAATGTTTTCCTCTATAGGAAA----------------------ATATATTCATTTTA-TCAGCAAAT
i saiBol1.JH378123          C 0 I 6
s cebCap1.NW_016107911v1       827333  78 -   1015025 TCCATATATAAATTTATTTTCCTA-----------TATATATGCAAATGTTTTCCTCTATAGGACA----------------------ATATATTCATTTTA-TCAGCGAAT
i cebCap1.NW_016107911v1    C 0 I 6
s aotNan1.NW_018488218v1      1847857  78 -   2295209 tccatatataaatttattttccta-----------tatatatgcaaatgtttttctctataggaca----------------------atatattcatttta-ccagcaaat
i aotNan1.NW_018488218v1    C 0 I 6
s otoGar3.GL873576            4550311  43 -  12054995 acactctataaatttatcttcc-------------t-------------------------------------------------------cactcctatca-tcagtaaac
i otoGar3.GL873576          C 0 I 6
s mm10.chr6                   2391888 112 - 149736546 TCCATCTACAGATTTTTCTTTCCACACAATACCTTTGCATCTGTATATATACACACATATGGGAAAGAGAGAAAGATTATTTCACACGAAACATTCACTTTAGCCAGTAAGC
i mm10.chr6                 I 14 I 4
s canFam3.chr27              19705463  74 +  45876710 tgtatgcatggagacagagaga-------------cacagatgagaatgataaaccaaatagatca----------------------aactataaata--a-tcagtgaat
i canFam3.chr27             C 0 I 6
s dasNov3.JH562883             905750  35 -   1687904 ------------------------------------------gcaa------------gtagggct----------------------aaactttaaaactg-tctgtggat
i dasNov3.JH562883          C 0 I 6
e micMur3.chr21               2990184 473 +  31815103 I
e proCoq1.NW_012140524v1      5071757 10161 +  13104022 I

a score=1266868.000000
s hg38.chr12_GL383549v1_alt     58031 114 +    120804 AAAGGATATAT----ATCAGTTCCTTGTGCTAGTCTTC-------CAATTTTTAAAATGATT--TTTAAATTATAACAA---CATATAAAGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
s panTro5.chr12              62749513 114 + 137163284 AAAGGATATAT----ATCAGTTCCTTGTGCTAGTCTTC-------CAATTTTTAAAATGAGT--TTTAAATTATAACAA---CATATAAAGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873499 114 + 135337776 AAAGGATATAT----ATCAGTTCCTTGTGCTAGTCTTC-------CAATTTTTAAAATGAGT--TTTAAATTATAACAA---CATATAAAGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088837 114 -  32808036 AAAGGATATAT----ATCAGTTCCTTGTGCTAGTCTTC-------CAATTTTTAAAATGATT--TTTAAATTATAACAA---CATATAAAGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104584929 114 - 133663169 aaaggatatgt----atcagttctttgtgctatccttc-------caatttttaaaataatt--tttaaattataacaa---agtataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i rheMac8.chr11             I 6 C 0
s macFas5.chr11             108984439 114 - 137757926 aaaggatatgt----atcagttctttgtgctatccttc-------caatttttaaaataatt--tttaaattataacaa---agtataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i macFas5.chr11             I 6 C 0
s macNem1.NW_012011422v1      1362220 114 -   7948249 aaaggatatgt----atcagttctttgtgctatccttc-------caatttttaaaataatt--tttaaattataacaa---agtataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i macNem1.NW_012011422v1    I 6 C 0
s cerAty1.NW_011999477v1      8263334 114 -  10730278 aaaggatatgt----atcagttccttgtgctattcttc-------caatttttaaaataatt--tttaaattataacaa---aggataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i cerAty1.NW_011999477v1    I 6 C 0
s chlSab2.chr11             100754873 114 - 128539186 aaaggatatgt----atcagttccttgtgctattcttc-------caatttttaaaataatt--tttaaattataacaa---aggataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i chlSab2.chr11             I 6 C 0
s manLeu1.NW_012101287v1       149016 114 +    435186 aaaggatatgt----atcagttccttgtgctattcttc-------caatttttaaaataatt--tttaaattataacaa---aggataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i manLeu1.NW_012101287v1    I 6 C 0
s colAng1.NW_012114364v1      3537302 114 +   9309688 aaagcatatgt----atcagttccttgtgctattcttc-------caatttttaaagtaatt--tttaaattataacaa---aatataaaGTTACCAAGAGTTAACACAGAGTGGAGGAACTAAGCAGTT
i colAng1.NW_012114364v1    I 6 C 0
s saiBol1.JH378123           11373780 114 -  29834108 AAAGGATACAT----ATCAGTTCCTTGTTGTGTTCTTC-------Caatttttaaaatagtt--tttaaattataaCAA---AGTATAAAGTTACCAAGAGTTAACACAGAGTAGAGGAACTAAGCAGTT
i saiBol1.JH378123          I 6 C 0
s cebCap1.NW_016107911v1       827417 114 -   1015025 AAAGGATACAT----ATCAGTTCCTTGTTCTGTTCTTC-------CAATTTTTAAAATAGTT--TTAAAATTATAACAA---AGTATAAAGTTACCAAGAGTTAACGCAGAGTAGAGGAACTAAGCAGTT
i cebCap1.NW_016107911v1    I 6 C 0
s aotNan1.NW_018488218v1      1847941 114 -   2295209 aaaggatacat----atcagttccttgttctgttcttc-------caacttttaaaataggt--tttaaattataacaa---agtataaaGTTACCAAGAGTTAACACAGAGTAGAGGAACTAAGCAGTT
i aotNan1.NW_018488218v1    I 6 C 0
s proCoq1.NW_012140524v1      5081918 114 +  13104022 aaagggtatat----atcacttccttgtcctattcttg-------caacttttTAAAAAACAATTTTAAGTTACAACAA---AGTAAAAAGTTACCAA-AGTTAACAGAGAGTAGAGG-ACTGACCAAGT
i proCoq1.NW_012140524v1    I 10161 C 0
s otoGar3.GL873576            4550360 116 -  12054995 aaaggatatacctagatcacttccttgtcctattcttg-------ctacttcttaaataata--tttaaattactataa---agtaaaaaGTTCCTGA-AGTTTAACGGGAGTAGAGG-ACTAACCAGTT
i otoGar3.GL873576          I 6 C 0
s mm10.chr6                   2392004 115 - 149736546 agaggatatgt----g--agttctttgtaccattcatg-------caacttttctataaatt--ttaaaAAGACAATGAAGTAGTAGGAAGTTCTGAAAAGTTATCAGAGAGTGGAGGAACTAACCAATT
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19705543 114 +  45876710 aaaggatacat----aggagctccttgtcctatttctt-------gtaacttttcaacattt--aaaaaattataacaa---agtaaaaaGTCACAAAAAGTTAACACAGAGTAAAGGAACTAACCAATT
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             905791 120 -   1687904 aaagtgccttt----gtcacttccttgcgccactctttgctcctgcaatttttcta-taatt--ttgaaattataacaa---aataaaaaGTTACAAAAAGTTAACACAGAGTAGAGGAACTAGCCAATT
i dasNov3.JH562883          I 6 C 0
e micMur3.chr21               2990184 473 +  31815103 I
e nomLeu3.chr23               7272970 100 +  34552619 M

a score=503306.000000
s hg38.chr12_GL383549v1_alt     58145 33 +    120804 TCTTAAACAAACAGCCTACTGTATTCTTAAACA
s panTro5.chr12              62749627 33 + 137163284 TCTTAAACAAACAGCCTACTGTATTCTTAAACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873613 33 + 135337776 TCTTAAACAAACAGCCTACTGTATTCTTAAACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088951 33 -  32808036 TCTTAAACAAACAGCCTACTGTATTCTTAAACA
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104585043 33 - 133663169 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108984553 33 - 137757926 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1362334 33 -   7948249 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8263448 33 -  10730278 TCTTAAACAAACAGCCTACTGTATGCTTAACCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100754987 33 - 128539186 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       149130 33 +    435186 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3537416 33 +   9309688 TCTTAAACAAACAGCCTACTGTATGCTTAAACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373894 33 -  29834108 TCTTAAACAAACAACCTACTGTATGCTTAAACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       827531 33 -   1015025 TCTTAAACAAACAACCTACTGTATGCTTAAACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1848055 33 -   2295209 TCTTAAACAAACAACCTACTGTATGCTTAAACA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2990657 33 +  31815103 TCTTAAACAAACAGCCTATTGTATGCTTAAACA
i micMur3.chr21             I 473 C 0
s proCoq1.NW_012140524v1      5082032 33 +  13104022 TCTTAAACAAACAGCCTATTGTATGCTTAAACA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4550476 29 -  12054995 TCTT----AAACAGTCTGTTGTATGCTTAAACA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2392119 33 - 149736546 TCTTAAACAAACACCCTATTGTATGCTTAACCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19705657 33 +  45876710 TCTTAAACACACAGCCTGTTGTATGCTTATACA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             905911 33 -   1687904 TCTTAAACAAACAGTCTATTGTGTGCTTAAGTG
i dasNov3.JH562883          C 0 C 0
e nomLeu3.chr23               7272970 100 +  34552619 M

a score=13746006.000000
s hg38.chr12_GL383549v1_alt     58178 898 +    120804  
s panTro5.chr12              62749660 898 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60873646 898 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3088984 898 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7273073 898 +  34552619  
i nomLeu3.chr23             M 100 C 0
s rheMac8.chr11             104585076 898 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108984586 898 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1362367 898 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8263481 900 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100755020 897 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       149163 896 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3537449 900 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11373927 894 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       827564 895 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1848088 894 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2990690 912 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5082065 898 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 21
s otoGar3.GL873576            4550505 896 -  12054995  
i otoGar3.GL873576          C 0 I 5
s mm10.chr6                   2392152 839 - 149736546  
i mm10.chr6                 C 0 I 16
s canFam3.chr27              19705690 899 +  45876710  
i canFam3.chr27             C 0 I 15
s dasNov3.JH562883             905944 893 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=-44059.000000
s hg38.chr12_GL383549v1_alt     59076 4 +    120804 --------CATT
s panTro5.chr12              62750558 4 + 137163284 --------CATT
i panTro5.chr12             C 0 I 3
s panPan2.chr12              60874544 2 + 135337776 --------CA--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3089882 4 -  32808036 --------CATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7273971 4 +  34552619 --------CTCt
i nomLeu3.chr23             C 0 I 7
s rheMac8.chr11             104585974 2 - 133663169 --------CA--
i rheMac8.chr11             C 0 I 4
s macFas5.chr11             108985484 2 - 137757926 --------CA--
i macFas5.chr11             C 0 I 4
s macNem1.NW_012011422v1      1363265 2 -   7948249 --------CA--
i macNem1.NW_012011422v1    C 0 I 4
s cerAty1.NW_011999477v1      8264381 1 -  10730278 --------c---
i cerAty1.NW_011999477v1    C 0 I 4
s chlSab2.chr11             100755917 4 - 128539186 --------CAtt
i chlSab2.chr11             C 0 I 4
s manLeu1.NW_012101287v1       150059 1 +    435186 --------c---
i manLeu1.NW_012101287v1    C 0 I 4
s colAng1.NW_012114364v1      3538349 4 +   9309688 --------CAtt
i colAng1.NW_012114364v1    C 0 I 4
s saiBol1.JH378123           11374821 2 -  29834108 --------Ca--
i saiBol1.JH378123          C 0 I 4
s cebCap1.NW_016107911v1       828459 2 -   1015025 --------CA--
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1848982 2 -   2295209 --------GT--
i aotNan1.NW_018488218v1    C 0 I 4
s micMur3.chr21               2991602 4 +  31815103 --------CATT
i micMur3.chr21             C 0 I 4
s otoGar3.GL873576            4551406 4 -  12054995 --------CGCT
i otoGar3.GL873576          I 5 I 8
s mm10.chr6                   2393007 1 - 149736546 --------C---
i mm10.chr6                 I 16 C 0
s canFam3.chr27              19706604 1 +  45876710 --------C---
i canFam3.chr27             I 15 C 0
s dasNov3.JH562883             906837 9 -   1687904 TAGCAGTGC---
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5082963 21 +  13104022 I

a score=3564219.000000
s hg38.chr12_GL383549v1_alt     59080 281 +    120804 TTTTTT-------TTTTTTTAAGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------TTGATACGCTTATCGCCCACCCTGTATTCT--------CACCTTCTCTGGGCTTATTCATATCTACTGCTGCCTTCCAAACACTATGAAAACATTCTTCTAGAAAGTCTCCA-------CAAATCTGCCTCA-TTGATCCTGCCCACAACTCTCTTTTATATCCTC--TCAAGACTTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGCTGAATGTAAAAGTAATTTT
s panTro5.chr12              62750565 281 + 137163284 TTTTTT-------TTTTTTTAAGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------TTGATACGCTTATCACCCATCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTATGAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACAACTCTCTTTTATATCCTC--TCAAGACTTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGCTGAATGTAAAAGTAATTTT
i panTro5.chr12             I 3 C 0
s panPan2.chr12              60874546 281 + 135337776 TTTTTT-------TTTTTTTAAGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------TTGATACGCTTATCACCCATCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTATGAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACAACTCTCTTTTATATCCTC--TCAAGACTTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGCTGAATGTAAAAGTAATTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3089886 280 -  32808036 TTTTTT-------TTTTTTTAAG-A----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------TTGATATGCTTATCACCCACCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTATGAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGACTCTCTTTTATATCCCC--TCAAGACTGAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGCTGAATGTAAAAGTAATTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7273982 281 +  34552619 tttttt-------tttttttAAGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGGC-CAGGCTGTATGTAA--------------------CTGATATGCTTATCACTTGCCCGGTATTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTAATCCTGCCCACGACTCTCTTTTATATCCCC--TCAAGGCTTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATTTTCCCTTACAAAACATGTATTCTTGAAAAGCTGAGTGTAAAAGTAATTTT
i nomLeu3.chr23             I 7 C 0
s rheMac8.chr11             104585980 277 - 133663169 TTTTTC-------TTTTTTTAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATG------------------------TAAGGTGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGGCTCCCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTAAAAAACATGTATTCTTTAAAAGTTGAATGTAAAAGTAATTTT
i rheMac8.chr11             I 4 C 0
s macFas5.chr11             108985490 277 - 137757926 TTTTTC-------TTTTTTTAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATG------------------------TAAGGTGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGGCTCCCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTAAAAAACATGTATTCTTGAAAAGTTGAATGTAAAAGTAATTTT
i macFas5.chr11             I 4 C 0
s macNem1.NW_012011422v1      1363271 277 -   7948249 TTTTTC-------TTTTTTTAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATG------------------------TAAGGTGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGGCTCCCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTAAAAAACATGTATTCTTGAAAAGTTGAATGTAAAAGTAATTTT
i macNem1.NW_012011422v1    I 4 C 0
s cerAty1.NW_011999477v1      8264386 281 -  10730278 tttttt-------tttttttAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGCAA--------------------CTGATATGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTCCCAAACACTATCAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGACTCTCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------aggtgtatctttccttacaaaacatgtattcttgaaaagttgaatgtaaaggtaatttt
i cerAty1.NW_011999477v1    I 4 C 0
s chlSab2.chr11             100755925 281 - 128539186 tttttt-------tttttttAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------CTGATATGCTTATCAGCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGCTCCTGCCCACGACTCTCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGTTGAATATAAAAGTAATTTT
i chlSab2.chr11             I 4 C 0
s manLeu1.NW_012101287v1       150064 281 +    435186 tttttt-------tttttttAAGAA----TTGTTTATTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGCAA--------------------CTGATATGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGGGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGATCCTGCCCACGACTCTCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------aggtgtatctttccttacaaaacatgtattcttgaaaagttgaatgtaaaggtaatttt
i manLeu1.NW_012101287v1    I 4 C 0
s colAng1.NW_012114364v1      3538357 281 +   9309688 tttttt-------tttttttAAGAA----TTATTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------CTGATATGCTTATCACCTGCCCTGTATTCT--------CACCTTCTCTGAGCTTATCCATATCCACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAAATCTGCCTCA-TTGCTCCTGCCCACAACTCTCTTTTATATCCCC--TCAAGATGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTATTCTTGAAAAGTTGAATGTAAAAGTAATTTT
i colAng1.NW_012114364v1    I 4 C 0
s saiBol1.JH378123           11374827 288 -  29834108 ttttttatttttatttttttaaGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------CTGATATGCTTATCACCTGTCCTGTGTTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTGTGAAAATATTCTTCTAGAAAGTCTCTA-------CAGATTTGCCTCA-TGGATCCTGCCCACGACTCTCTTTTATATCCCT--GCAAGGCGTAA-----------------------------------------------------------------------------------GCAT-------------------------AGGTGTATCTTTCCTTACAAAACATGTGTTCTTGACAAGTTGAATGTAAAAGTAATCTT
i saiBol1.JH378123          I 4 C 0
s cebCap1.NW_016107911v1       828464 275 -   1015025 -------------TTTTTTTAAGAA----TTGCTTCTTTTAAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------CTGATATGCTTACCACCTGTCCTGTGTTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTATTAAAATATTCTTCTAGAAAGTCTCTA-------CAGATTTGCCTCA-TGGATCCTGCCCACGACTCTCTTTTATATCCCT--GCAACGCTTAA-----------------------------------------------------------------------------------GCAT-------------------------aggtgtatctttccttacaaaacatgtgttcttgaaaagttgaatgtaaaagtaatttt
i cebCap1.NW_016107911v1    I 3 C 0
s aotNan1.NW_018488218v1      1848988 280 -   2295209 TTTTT--------TTTTCTTAAGAA----TTGCTTCTTTTGAAGGAT-----------------CCAGGAC-CAGGCTGTATGTAA--------------------CTGATATGCTTATCACCTGTCCTGTGTTCT--------CACCTTCTCTGGGCTTATCCATATCTACTGCTGCCTTCCAAACACTTTTAAAATATTCTTCTAGAAAGTCTCTA-------CAGATTTGCCTCA-AGGATCCTGCCCACAACTCTCTTTTATATCCCT--GCAAGGCTTAA-----------------------------------------------------------------------------------GCAT-------------------------AAGTGTATCTTTCCTTACAAAACATGTGTTCTTGAAAAGTTGAATGTAAAAGTAATTTT
i aotNan1.NW_018488218v1    I 4 C 0
s micMur3.chr21               2991610 276 +  31815103 TTTTTT-------TTTTTTAAAGAA----TTGTTCTTTTTAAAGGAG-----------------CTGGAAC-CAGGCTGGGTATGA--------------------CTGATGTGCTTACCACCTGCCCTGTGTCCC---------ACCTTCTCCAGGCTTATCCATTGCTCTTGGTGCCTTACAAACACTATGAAAACATTCTTCTGGAAAGGGCCTA-------CAGATCAACCGAA-----GCCTGTCCACTACTCTCCTTTACAGCCCC--TCAATACTTAA-----------------------------------------------------------------------------------GCAT-------------------------aggtgtatctctcctcacaaaacatgtgctcctgaaaagttgaatgtacatgtaatttt
i micMur3.chr21             I 4 C 0
s proCoq1.NW_012140524v1      5082984 276 +  13104022 TTCTTT-------TTTTTTAAAGAA----TTGTTCCTTCTAAAGGAG-----------------CTGGAAC-CAGGCTGGGTATGA--------------------CTGATGTGCTTACCACCTGCCCTGTGTCCC---------ACCTTCTCCAGGCTTATCCATAGCCCTTGGTGCCTTGCAAACACTATGAAAACATTCTTCTGGAAAGGCTCTA-------CAGATCAACTGAA-----GCCTCTCCACTAATCTCCTTTATAGCCCC--TCAATACTTAA-----------------------------------------------------------------------------------TCAT-------------------------aggtgtatctttcctcacaaaacatgtgttcctgaaaagttgaatgtaaatgtaatttt
i proCoq1.NW_012140524v1    I 21 C 0
s otoGar3.GL873576            4551418 285 -  12054995 GTTATT-------CTTTTTAAAGAA----TTGCTCCTTTTAAAGGAG-----------------CCAGAAC-CAGACTGGATATGG--------------------TTGGTGTGCTTA-CACCTGCCCTCCATCCC--------TATCCTCTCCAGGCTTATCCATACCCCTTGGTGCCTTGAAAACACTATTAAAACGTTCTTCTGGGAGGTCTGTACAGATCGCAGATCAACTTCA-CTG-GCCTGTCCTCT-TTCATCTTTATAGTCCC--TGAACACTTAA-----------------------------------------------------------------------------------GCAT-------------------------ATGTGTATCTTTCCTGATAAATCATGTACTCCTGAAAAGTTGGATGTAAATGTAATTTT
i otoGar3.GL873576          I 8 C 0
s mm10.chr6                   2393008 260 - 149736546 ---TTC-------TGTTCC----------CTGTTCCTTT--AAGGAA-----------------CTAGTGC-CAAGATGGAGACAGTTCATTGGCTCAAAGCTCGTCTCATAGGCTCATAGTTCGTCCTGTCTTTT---------ACCCTCTCAGGATTGATGCAC--------------------CATTAAAAAGACAT--TTCCTGAACATCCCAG-------CAGATTTACCCCA-CAGATC---TCTGCTTCTCTCCTTTATATCCCT--ACAAAACTGAA-----------------------------------------------------------------------------------ACAT-------------------------AGCTTTATCTTTTCTCCCAAA----GGCTCCTTCAAAGATCCAGTACAAATGTAATTCT
i mm10.chr6                 C 0 I 377
s canFam3.chr27              19706605 304 +  45876710 -TCTCA-------TTCTCCTCAGAAAGATTTGCTCCTTTTAAAGAAT--------TTTCATGAACTGGAAC-TGGGCTGGATATAA--------------------CTGACATGTCTACCGCAAGCCTGGAGAATTTGGGAAGACAAACTCTCGAGGCTGATCCATGTCTGTTGGTGCTTCACAAACCTTTTTAAAACATACTTCTGGGAAGTCTCTA-------CAGATGAACTTCACTTGAACTTGTCCACTGCTCTCCCTTATATCCCCCTTCCATACTTAA-----------------------------------------------------------------------------------ACGT-------------------------AAGTGTGTCTTTCCTTACAAAACATGAACTCTTTAAAAGTTGAATGTAAATGTGATTTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             906846 406 -   1687904 TCGTCT-------TCTTTTAAAGAC----CTGCTCCTTGTAAAGAACGCTCACATCTTCATGA-GCAGGACGCGGGCTGGATATAA--------------------CTGATGTGCTGACCGCCTGCCCAGGCTCCC--------CACCCTCTCCAGGCTTAGCCATATAGACAGGGGCCTTCAAAACCCTATTAAAACTTACTTCTGGGGAGTCCCTT-------CAGGCCAACTTCCCTTGGTGCTATCCACTACTCTCCTTTATATCCCC--TCGAAATTTAAATAAAAGGGGGGGGAGaaataaataaaacaaatctttaaaaaataaataaataaaGATCATTGTCAAAAAAAATAAAATAAATGCATGGGAAGCAAAAAATAAATTAAATAAAGGTGTATCTAACCTCAAAAAGCATATATTCTTGAAAAGTTGACAGCAAATTCATTTT-
i dasNov3.JH562883          C 0 C 0

a score=260016.000000
s hg38.chr12_GL383549v1_alt     59361 20 +    120804 TAAAAACTC------AACAtgtttga
s panTro5.chr12              62750846 20 + 137163284 TAAAAACTC------AACAtgtttga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60874827 20 + 135337776 TAAAAACTC------AACAtgtttga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090166 20 -  32808036 TAAAAACTC------AACAtgtttga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274263 20 +  34552619 TTAAAACTC------AATAtgtttga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586257 20 - 133663169 TAAAAACTC------AATAtgtttga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985767 20 - 137757926 TAAAAACTC------AATAtgtttga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363548 20 -   7948249 TAAAAACTC------AATAtgtttga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264667 20 -  10730278 taaaaaCTC------CATAtgtttga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756206 20 - 128539186 TAAAAACTC------AATAtgtttga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150345 20 +    435186 taaaaaCTC------CATAtgtttga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538638 20 +   9309688 TAAAAACTC------AGTAtgtttga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375115 20 -  29834108 TAAAAACTC------AATATGTTGGa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828739 20 -   1015025 taaaaactc------aatatgtttga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849268 20 -   2295209 TAAAAACTC------AATAtgtttga
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2991886 20 +  31815103 taaaaaCTC------AATATGTATCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5083260 20 +  13104022 taaaaaCTC------AATATGTATCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4551703 20 -  12054995 AAAAAACTC------TATATGTATCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19706909 20 +  45876710 TAAAAATTC------AATAtgtatta
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907252 26 -   1687904 TGAAAACCCTCAAATAGTAGgcatta
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2393268 377 - 149736546 I

a score=345888.000000
s hg38.chr12_GL383549v1_alt     59381 20 +    120804 gtcaggtcttagttgcaagc
s panTro5.chr12              62750866 20 + 137163284 gtcaggtcttagttgcaagc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60874847 20 + 135337776 gtcaggtcttagtttcaagc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090186 20 -  32808036 gtcaggtcttagttgcaagc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274283 20 +  34552619 gtcaggtcttagttgcaagc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586277 20 - 133663169 gtcaggtcttggttgcaagc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985787 20 - 137757926 gtcaggtcttggttgcaagc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363568 20 -   7948249 gtcaggtcttggttgcaagc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264687 20 -  10730278 gtcaggtcttggttgcaagc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756226 20 - 128539186 gtcaggtcttggttgcaagc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150365 20 +    435186 gtcaggtcttggttgcaagc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538658 20 +   9309688 gtcaggtcttggttgcaagc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375135 20 -  29834108 gtcaagtcttagttgcaagc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828759 20 -   1015025 gtcaggtcttagttgcaagc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849288 20 -   2295209 gtcaggtcttagttgcaagc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2991906 20 +  31815103 GTCGGGTCTTGGTTGCAAGC
i micMur3.chr21             C 0 I 148
s proCoq1.NW_012140524v1      5083280 20 +  13104022 GTCGGGTCTTGGTTGCAAGC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4551723 20 -  12054995 GTCAGATTTTGGTAGCAAGC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2393645 20 - 149736546 GTCAGGTGTTGGCAGCAAAC
i mm10.chr6                 I 377 I 2
s canFam3.chr27              19706929 20 +  45876710 gtcaggtcttggttgcaagc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907278 20 -   1687904 gccaagtcttagtggcaagc
i dasNov3.JH562883          C 0 C 0

a score=787629.000000
s hg38.chr12_GL383549v1_alt     59401 66 +    120804 caaagaaatactctcagactt-----a-----acaaaagaggaaattactagaagtatatgtgatttagacgacac
s panTro5.chr12              62750886 66 + 137163284 caaagaaatactctcagactt-----a-----acaaaagaggaaattactagaagtatatgtgatttagacgacac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60874867 66 + 135337776 caaagaaatactgtcagactt-----a-----acagaagaggaaattactagaagtatatgtgatttagacgacac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090206 66 -  32808036 caaagaaatactctcagactt-----a-----acaaaagaggaaattactagaagtatatgtgatttagatgacac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274303 66 +  34552619 aaaagaaatactctcagactt-----a-----acaaaagaggaaattactagaagtatatgtgatttagataacac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586297 66 - 133663169 aaaagaaatactctcggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985807 66 - 137757926 aaaagaaatactctcggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363588 66 -   7948249 aaaagaaatactctcggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264707 66 -  10730278 aaaagaaatactctcggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756246 66 - 128539186 aaaagaaatagtcttggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150385 66 +    435186 aaaagaaatactctcggactt-----a-----acaaaagaggaaactactagaagtatatgtgatttagatgacac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538678 65 +   9309688 aaaagaaatactctcagactt-----a-----acaaaagaggaaactactagaaatatatgtgatttagatgaca-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375155 66 -  29834108 aaaagaaatattcttggactt-----a-----acaaaagaggaaattactagaagtatatgcgatttagatgacac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828779 66 -   1015025 aaaagaaatatttttggactt-----a-----acaaaagaggaaattactagaagtatatgcgatttagatgacac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849308 66 -   2295209 aaaagaaatattcttggactt-----a-----acaaaagaggaaattactagaagtatatgcgatttagatggcac
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5083300 66 +  13104022 AATAGAAACATATGCTGACTT-----A-----AGAAAAGAGGATATTATTAGAGGTACATAGGATTTAGATGACAC
i proCoq1.NW_012140524v1    C 0 I 82
s otoGar3.GL873576            4551743 60 -  12054995 AATAGAAACACATTATGACAT-----A-----AGAAAAGAGAATATTATCAGAA------AGGGTTTAGAAGACAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2393667 65 - 149736546 AAAAAACGTATTCCAAAGTTT-----A-----A-AAGAAAGAAACGGATTAGAAACAAATGTGATTTAGAAGACAC
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19706949 71 +  45876710 aatagaaatacattctgacttacttaa-----acaaaaaaggaaATCATGGGGAGTATGCATACTTTACATGACAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907298 71 -   1687904 agtagaaacacattctgactt-----acttaggcaaaaagcaagattatttaaagtgcatatcgtttagattacac
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2991926 148 +  31815103 I

a score=364757.000000
s hg38.chr12_GL383549v1_alt     59467 31 +    120804 aatccataagagagctggagaaGAAAAACTT
s panTro5.chr12              62750952 31 + 137163284 aatccataagagagctggagaaGAAAAACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60874933 31 + 135337776 aatccataagagagctggagaaGAAAAACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090272 31 -  32808036 aatcaataagagagctggagaaGAAAAACTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274369 31 +  34552619 aatcaataagagagctggagaagaaaaactt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586363 31 - 133663169 aatcaataagagagctggagaacaaaaactt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985873 31 - 137757926 aatcaataagagagctggagaacaaaaactt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363654 31 -   7948249 aatcaataagagagctggagaataaaaactt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264773 31 -  10730278 aatcaataagagagctggagaacaaaaactt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756312 31 - 128539186 aatcaataagagagctggagaacaaaaactt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150451 31 +    435186 aatcaataagagagctggagaacaaaaactt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538743 31 +   9309688 aatcaataagagagctggagaacaaaaactt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375221 31 -  29834108 aatcaatacgagagctggagaacAAAAAGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828845 31 -   1015025 aatcaataggagagctggagaacAAAAAGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849374 31 -   2295209 aatcaataggagagctggagaacaaaaattt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4551803 27 -  12054995 ----AATATGAGGACTGGAGAACAAAACCTT
i otoGar3.GL873576          C 0 I 351
s mm10.chr6                   2393732 31 - 149736546 AATCAGTGCAAGGGTTGAAGAAATAAAATCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707020 27 +  45876710 AATAAATAGGAAAGCAGGCGAACAAAA----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907369 31 -   1687904 aatcgataggagagctggaggaGAAAAGCTG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2991926 148 +  31815103 I
e proCoq1.NW_012140524v1      5083366 82 +  13104022 I

a score=423886.000000
s hg38.chr12_GL383549v1_alt     59498 47 +    120804 GGGGTAGGGGGAAA-AGGCCAAAGTCAAGGAAG--CAGTCAGTA-----GGACCA--------
s panTro5.chr12              62750983 47 + 137163284 GGGGTAGGGGGAAA-AGGCCAAAGTCAAGGAAG--CAGTCAGTA-----GGACCA--------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60874964 47 + 135337776 GGGGTAGGGGTAAA-AGGCCAAAGTCAAGGAAG--CAGTCAGTA-----GGACCA--------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090303 47 -  32808036 GGGGTAGGGGGAAA-AGGCCAAAGTCAAGGAAG--CAGTCAGTA-----GGACCA--------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274400 49 +  34552619 gggatagggggaaa-aggccaaagtcaaggaagaccagtcagta-----ggacca--------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586394 49 - 133663169 ggggtagggagaaa-aggccaaagtcaaggaagaccattcagta-----ggacca--------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985904 49 - 137757926 ggggTAGGGAGAAA-AGGCCAAAGTCAAGGAAGACCATTCAGTA-----GGACCA--------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363685 49 -   7948249 ggggtagggagaaa-aggccaaagtcaaggaagaccattcagta-----ggacca--------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264804 49 -  10730278 ggggtagggagaaa-aggccaaagtcaagaaagaccattcagta-----ggacca--------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756343 49 - 128539186 ggggtagggagaaa-aggccaaagtcaaggaagaccattcagta-----ggacca--------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150482 49 +    435186 ggggTAGGGAGAAA-AGGCCAAAGTCAAGAAAGACCATTCAGGA-----GGACCA--------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538774 49 +   9309688 ggggtagggagaaa-aggccaaagtcatggaagaccattcagta-----ggacca--------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375252 49 -  29834108 GAGGATGGGGGGAA-AGGCCAAAGTCAAGGAAGACCAGTCAGTA-----GGACCA--------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828876 49 -   1015025 GAGAACGGGGGGAA-AGGCCAAAGTCAAGGAAGACCAGTCAGTA-----GGACCA--------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849405 49 -   2295209 gaggACGGGGGGAA-AGGCCAAAGTCAAGGAAGACCAGTCAGTA-----GGACCA--------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4552181 45 -  12054995 gggaaaggaagaga-agggaagaa-aaaagaagaCAACTGTGAA-----TGA-----------
i otoGar3.GL873576          I 351 C 0
s mm10.chr6                   2393763 51 - 149736546 ----TGGGGACAAACAGATTGGAACTGAGACAGACCATGCAGTGACAGTGGATTA--------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707047 42 +  45876710 -GGTTGAGGGAAAA-AAGCCAGAACCAAGGAAAAT------GAA-----GAACCA--------
i canFam3.chr27             C 0 I 7
s dasNov3.JH562883             907400 51 -   1687904 ------GCACAAAA-AGGCGGGTATCGAGGAAGATGAAGCGGCA-----GTATCCACGGATGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2991926 148 +  31815103 I
e proCoq1.NW_012140524v1      5083366 82 +  13104022 I

a score=652170.000000
s hg38.chr12_GL383549v1_alt     59545 48 +    120804 ATCCACAGGAAGAATCTGTGGAAGACATTGCCACTGACACCCCCACCC
s panTro5.chr12              62751030 48 + 137163284 ATCCACAGGAAGAATCTGTGGAAGACATGGCCACTGACACCTCCACCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875011 48 + 135337776 ATCCACAGGAAGAATCTGTGGAAGACATTGCCACTGACACCTCCACCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090350 48 -  32808036 ATCCACAGGAAGAATCTGTGGAAGACATTGCCACTGACACCTCCACCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274449 48 +  34552619 atccacatgaagaatctgtggaagacattgccactgacacctccaccc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586443 48 - 133663169 atccacatgaagaacctgtggaagacattgccactgacacctccatcc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108985953 48 - 137757926 ATCCACATGAAGAACCTGTGGAAGACATTGCCACTGACACCTCCATCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363734 48 -   7948249 atccacatgaagaacctgtggaagacattgccactgacacctccatcc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264853 48 -  10730278 atccacatgaagaatctgtggaagacattgccactgacacctccatcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756392 48 - 128539186 atccacatgaagaatctgtggaagacattgccactgacacctccatcc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150531 48 +    435186 ATCCACATGAAGAATCTGTGGAAGACATTGCCACTGACACCTCCATCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538823 48 +   9309688 atccacatgaagaatctgtggaagacattgccactgacacctccatcc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375301 45 -  29834108 ACCCACATGAGGAATCTGTGGAAGGTATTGCCACTGA---CACCACCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828925 48 -   1015025 ACTTACATGAGGAATCTATAGAAGGTATTGCCACTGACACCACCACCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849454 48 -   2295209 ACCCACATGAGGAATCTGTGGAAGGTATTGCCACTGACACATTCACCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2992074 48 +  31815103 ATCCACATGAAGAACCTGTGGAAGACATTGCCACTGACATCTCCACCC
i micMur3.chr21             I 148 I 48
s proCoq1.NW_012140524v1      5083448 48 +  13104022 ATCCACATGAAAAACCTGTGGAAGATATTGCCACTGACATCTCCACCC
i proCoq1.NW_012140524v1    I 82 I 53
s otoGar3.GL873576            4552226 42 -  12054995 ATCTGCATGAAGAATCTGTAGAAGACTTTGTCACTAACATCT------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2393814 47 - 149736546 TCCCACACATGGTCCCCATAT-AGACTTAGCCACCAACACTTTCGCTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707096 48 +  45876710 TTCCACATGAATAATCTGTGCACAACACTGCCACTGGCATCTCCACCA
i canFam3.chr27             I 7 C 0
s dasNov3.JH562883             907451 45 -   1687904 AGCCATACCAAAGAGCT---TAAGACGCTGCCAGTGACATCTCCATCC
i dasNov3.JH562883          C 0 I 4

a score=1622047.000000
s hg38.chr12_GL383549v1_alt     59593 161 +    120804 ATGCCACAGCAACACACAGCTACACTAGACAATAGTTACTACTGCCCCTGGG-AAAAATTTCTTAACCAACTTT--------GTAAGTTTGAACCATTCCCTCAAAGTTCAGAGTCCCAGTTG-GGAGCATCCAGGTGGCTGAGCCTAGGTCATAT---GCTTCTGTGCTACCT
s panTro5.chr12              62751078 161 + 137163284 ATGCCACAGCAACACACAGCTACACTAGACAATAGTTACTACTGCCCCTGGG-AAAAATTTCTTAACCAACTTT--------GTAAGTTTGAACCATTCCCTCAAAGTTCAGAGTCCCAGTTG-GGAGCATCCAGGTGGCTGAACCTAGGTCATAT---GCTTCTGTGCTACCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875059 161 + 135337776 ATGCCACAGCAACACACAGCTACACTAGACAATAGTTACTACTGCCCCTGGG-AAAAATTTCTTAACCAACTTT--------GTAAGTTTGAACCATTCCCTCAAAGTTCAGAGTCCCAGTTG-GGAGCATCCAGGTGGCTGAGCCTAGGTCATAT---GCTTCTGTGCTACCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090398 161 -  32808036 ATGCCACAGCAACACACAGCTACACTAGACAGTAGTTACTACTGCCCCTGGG-AAAAATTTCTTAACCAACTTT--------GTAAGTTTGAACCATTCCCTCAAAGTTCAGAGTCCCAGTTG-GGAGCATCCAGGTGGCTGAGCCTAGGTCATAT---GCTTCTGTGCTACCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274497 161 +  34552619 acgccacagcaagacacagctacactaaacaatagttactacagcccctggg-aaAAATTTCTTAACCAACTTT--------GTAACTTTGAACCATTCCCTCAAAGTTCAGAGTCCCAGTTG-GGAGCATCCAGGTGGCTGAGCCTAGGTCATAT---GCTTCTGTGCTAGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586491 161 - 133663169 atgccacagcaagacacagctacactagacaatagttactattgcccctggg-aaACATTTCTTAACCAATTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986001 161 - 137757926 ATGCCACAGCAAGACACAGCTACACTAGACAATAGTTACTATTGCCCCTGGG-AAACATTTCTTAACCAATTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363782 161 -   7948249 atgccacagcaagacacagctacactagacaatagttactattgcccctggg-aaACATTTCTTAACCAATTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8264901 161 -  10730278 atgccacagcaagacacagctacactagacaatagttactattgcccctggg-aaACATTTCTTAACCAACTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756440 160 - 128539186 atgccacagcaagacacagctacactagacaatagttactattgcccc-ggg-aaacATTTCTTAACCAACTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150579 161 +    435186 ATGCCACAGTAAGACACAGCTACACTAGACAATAGTTACTATTGCCCCTGGG-AAACATTTCTTAACCAACTTT--------GTAACTTTGAAACATTCCCCCAAAGTTCAGAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCCGTGCTTGCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3538871 161 +   9309688 atgccacagcaagacacagctacactagacaatagttactattgcccctggg-aaACATTTCTTAACCAACTTT--------GTAACTTTGAAACATTCTCTCAAAGTTCACAGTCCTAGTTG-GGAGCATCCAGGTGACTGAGCCTAGGTCATAT---GCTTCTGTGCTTGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375346 162 -  29834108 ATGCCACAGCAAGACGCTGCTATACCAGACAATAGTTACTACCACCCCTGGGAAAAAATTTCTTAACCATCTTT--------GTAACTTTGAACCATTCCCTCAAAGttcagagtcctaggtg-ggagcatctgggtggctgagcctaggtcatac---gcttctgtgctagct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       828973 162 -   1015025 ATGCCACAGAAAGACGCTGCTATGCCAGACAATAGTTACTACCACCCCTGGGAAAAAATTTCTTAACCATCTTT--------GTAACTTTGAACCATTCCCTCAAAGttcagagtcctaggtg-ggagcatctgggtggctgagcctaggtcatat---gcttctgtgctagct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849502 162 -   2295209 ATGCCGCAGCAAGACGCTGCTACGCCAGACAACAGTTACTATCACCCCTGGGAAAAAATTTCTTAACCTTCTTT--------GTAACTTTGAACCATTCCCTCAAAGTTCAGAGTCTCGGGTG-GGAGCAACCGGGTGGCTGAGCCTAGGTCATAT---ACTTCTGTGCCAGCT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4552268 150 -  12054995 --------GCTGGACATCACTGTGCTAAACAATAGTCACCACAGCTGCTGGG-AATAAT---TTAACCAACTCT--------GTGACTTTTAATCATTTTCTCAAATATCAGATTCATAGATA-GGAGCACCCAGGTGGCTGAGCGGAGGTCATAG---GCTTCAACCTTAGTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2393861 116 - 149736546 --------------------------------------CAACCACTTCTAGG-TACCAT------AGCAACTTC-----TGAGAGGCCTTGAATCAGTATTTCCAAATTC----CCCTACAGGTAGAAAATCCAGGTAGCTGGGTTTAGGTCACACAGGGCATC----CTAGCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707144 165 +  45876710 GGGCTACAGCTGGACA---CTACACTAGATGACAGCAACTGCTGTCCC-AGG-AATAACTTCTAATCTGTTTTTTTGTGTGTGTGTCTTTGCCCCATTCCCTCAAAATTCAGAGTCCCACATG-GGAGCGTCCAAGAGGCTCACTGTAGGTTATAA---GCTTCAACTGTAGGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907500 155 -   1687904 CTGGGACAG-AGGCCACGAC--CTCCAGACAACAGCGACCGCAGCTCT--GG-AAGAGTCGCTCCGTTGTGTCT--------GCGTCTTTGACCCACTC-CTCAAAATTCAGAGTCCCAGGTG-GGGACTTCCGGGGGGCTGAGCCCAGGTCAGAG---GCGTCAGCTCTGTCT
i dasNov3.JH562883          I 4 I 58
e micMur3.chr21               2992122  48 +  31815103 I
e proCoq1.NW_012140524v1      5083496  53 +  13104022 I

a score=978916.000000
s hg38.chr12_GL383549v1_alt     59754 88 +    120804 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAATAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
s panTro5.chr12              62751239 87 + 137163284 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAATAAATGCCCACACA-TTTAAAA---CTTCAAGGGAATTAAAATTGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875220 87 + 135337776 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAATAAATGCCCACACA-TTTAAAA---CTTCAAGGGAATTAAAATTGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090559 88 -  32808036 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAATAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274658 88 +  34552619 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGAGAATTAAAGTTGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586652 88 - 133663169 ATCTTCACCCTAATAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986162 88 - 137757926 ATCTTCACCCTAATAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1363943 88 -   7948249 ATCTTCACCCTAATAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265062 88 -  10730278 ATCTTCACCCTAATAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756600 88 - 128539186 ATCTTCACCCTAACAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTCAAAA---CTTCAAGGGAATTAAAATTGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150740 88 +    435186 ATCTTCACCCTAATAGAAAGGGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539032 88 +   9309688 ATCTTCACCCTAATAGAAAGTGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCAAGGGAATTAAAATTGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375508 88 -  29834108 ATCTTCACCCTAAGAGAAAGTGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCGAGGGAATTAAAATGGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829135 88 -   1015025 ATCTTCACCCTAAGAGAAAGTGGTTCCAATTATGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCGAGGGAATTAAAACTGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849664 88 -   2295209 ATCTTCACCCTAAGAGAAAGTGGTTCCAATCCTGAGAAGCAAGAACAAATGCCCACACATTTTAAAA---CTTCGAGGGAATTAAAATTGA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4552418 88 -  12054995 CTCTGTACCCTAATAAGGAGTGGCTCAGATTCTGTGGTGCAAAAACAAATATCAACACATTAAAAAA---CTTCAAGGGAACTGAAATTTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2393977 89 - 149736546 AATAGGGCTGTAATGGAAG--GGTTTGTACTCAGAGGAATAAGCACAAATGACAAAACATTTAAAAAAATCTTCAAGGTAACAAAAGTTGA
i mm10.chr6                 C 0 I 97
s canFam3.chr27              19707309 90 +  45876710 ATGTGTACCCTCACCAGAAGAGGCTCAGATTCTGAGGAATAAAAACAAGTGCCAACACACTAAAAAAAA-CTTCAAGGGAACTAAAATTGA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2992122 48 +  31815103 I
e proCoq1.NW_012140524v1      5083496 53 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=342040.000000
s hg38.chr12_GL383549v1_alt     59842 36 +    120804 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
s panTro5.chr12              62751326 36 + 137163284 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875307 36 + 135337776 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090647 36 -  32808036 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274746 36 +  34552619 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586740 36 - 133663169 -GAAC-----------TTCATTTGCAAATTGAAAATCCATATTTTAAA--
i rheMac8.chr11             C 0 I 2
s macFas5.chr11             108986250 36 - 137757926 -GAAC-----------TTCATTTGCAAATTGAAAATCCATATTTTAAA--
i macFas5.chr11             C 0 I 2
s macNem1.NW_012011422v1      1364031 36 -   7948249 -GAAC-----------TTCATTTGCAAATTGAAAATCCATATTTTAAA--
i macNem1.NW_012011422v1    C 0 I 2
s cerAty1.NW_011999477v1      8265150 36 -  10730278 -GAAC-----------TTCATTTGCAAATTGAAAATCCATATTTTAAA--
i cerAty1.NW_011999477v1    C 0 I 2
s chlSab2.chr11             100756688 36 - 128539186 -GAAC-----------TTCATTTGCAAATTGAAAATCCTTATTTTAAA--
i chlSab2.chr11             C 0 I 2
s manLeu1.NW_012101287v1       150828 36 +    435186 -GAAC-----------TTCATTTGCAAATTGAAAATCCATATTTTAAA--
i manLeu1.NW_012101287v1    C 0 I 2
s colAng1.NW_012114364v1      3539120 36 +   9309688 -GAAC-----------TTCATTTGCAAATTGAAAATCCTTATTTTAAA--
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11375596 36 -  29834108 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i saiBol1.JH378123          C 0 I 2
s cebCap1.NW_016107911v1       829223 36 -   1015025 -GAAC-----------TTCATGTGCAAATTGAAAACTCTTATTTTAAA--
i cebCap1.NW_016107911v1    C 0 I 2
s aotNan1.NW_018488218v1      1849752 36 -   2295209 -GAAC-----------TTCATTTGCAAATTGAAAACTCTTATTTTAAA--
i aotNan1.NW_018488218v1    C 0 I 2
s otoGar3.GL873576            4552506 31 -  12054995 -AA----------------CTTTGCAAATTTTAAAATCTAATTCCTAA--
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              19707399 50 +  45876710 GAAACACTATTCCTAACTCATTTGCAAATTGAGAATTGTTATTTTTAAAT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2394066 97 - 149736546 I
e micMur3.chr21               2992122 48 +  31815103 I
e proCoq1.NW_012140524v1      5083496 53 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=103300.000000
s hg38.chr12_GL383549v1_alt     59878 9 +    120804 AGTTGCCCT
s panTro5.chr12              62751362 9 + 137163284 AGTTGCCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875343 9 + 135337776 AGTTGCCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090683 9 -  32808036 AGTTGCCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274782 9 +  34552619 AGTTGCCCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586778 9 - 133663169 AGTTGCCCT
i rheMac8.chr11             I 2 C 0
s macFas5.chr11             108986288 9 - 137757926 AGTTGCCCT
i macFas5.chr11             I 2 C 0
s macNem1.NW_012011422v1      1364069 9 -   7948249 AGTTGCCTT
i macNem1.NW_012011422v1    I 2 C 0
s cerAty1.NW_011999477v1      8265188 9 -  10730278 AGTTGCCCT
i cerAty1.NW_011999477v1    I 2 C 0
s chlSab2.chr11             100756726 9 - 128539186 AGTTGCCCT
i chlSab2.chr11             I 2 C 0
s manLeu1.NW_012101287v1       150866 9 +    435186 AGTTGCCCT
i manLeu1.NW_012101287v1    I 2 C 0
s colAng1.NW_012114364v1      3539158 9 +   9309688 AGTTGCCCT
i colAng1.NW_012114364v1    I 2 C 0
s saiBol1.JH378123           11375634 9 -  29834108 AATTGCCCT
i saiBol1.JH378123          I 2 C 0
s cebCap1.NW_016107911v1       829261 9 -   1015025 AGTTGCCTT
i cebCap1.NW_016107911v1    I 2 C 0
s aotNan1.NW_018488218v1      1849790 9 -   2295209 AGTTGCCCT
i aotNan1.NW_018488218v1    I 2 C 0
s micMur3.chr21               2992170 9 +  31815103 AGTTTCCCT
i micMur3.chr21             I 48 C 0
s otoGar3.GL873576            4552539 9 -  12054995 AGCCTTCCC
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19707449 9 +  45876710 ATCTGCCCC
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2394066 97 - 149736546 I
e proCoq1.NW_012140524v1      5083496 53 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=966372.000000
s hg38.chr12_GL383549v1_alt     59887 91 +    120804 CTTGATTGAACTCTTTCCTGAACTCCCATTCTTGGCCCACGGGATTTATTCAGTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
s panTro5.chr12              62751371 91 + 137163284 CTTGATTGAACTCTTCCCTGAACTCCCATTCTTGGCCCACAGGATTTATTCAGTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875352 91 + 135337776 CTTGATTGAACTCTTTCCTGAACTCCCATTCTTGGCCCACGGGATTTATTCAGTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090692 91 -  32808036 CTTGATCAAACTCTTTCCTGAACTCCCGTTTTTGGCCCGCGGGATTTATTCAGTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274791 91 +  34552619 CTTGATTGAACTCTTTCCTGAACTCCCATTCTTGGCCCACGGGATTTATTCAGTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586787 87 - 133663169 CTTGATTGAATTCTTTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCATC------TC--TGAGCCCCTCTATTCCCATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986297 87 - 137757926 CTTGATTGAATTCTTTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCATC------TC--TGAGCCCCTCTATTCCCATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364078 87 -   7948249 CTTGATTGAATTATTTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCATC------TC--TGAGCCCCTCTATTCCCATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265197 87 -  10730278 CTTGATTGAATTCTTTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCATC------TC--TGAGCCCCTCTATTCCCATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756735 93 - 128539186 CTTGATTGAATTCTCTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCTTTTATCAGTC--TGAGCCCCTCTATTCCCATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150875 87 +    435186 CTTGATTGAATTCTTTCCTGAACTCCCATTCTTGGCCCAGTTGATTTATTCAGTCAATG-----CCCATC------TC--TGAGCCCCTCTATTCCCATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539167 88 +   9309688 CTTGATTGAACTCTTTCCTGAATTCCCATTCTTAGCCCAGTTGATTTATTCAGTCAATG----CCCCATC------TC--TGAGCCCCTCTGTTCCCATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375643 91 -  29834108 CTTGATTGAACTCTTTCCTGAACTCCCATTCTTGGCTCACTGGATTTATTCACTCAATGC---CCCCATC------TCTGTGAGCCCCTCTATTCCCTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829270 91 -   1015025 CTTGATTGAACTCTTTCCTGAACCCCCATTCTTGGCTCACTGGATGTATTCACTCAATGC---CCCCATC------TCTGTGAGCTCCTCTATTCCCTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849799 91 -   2295209 CTTGATTGAACTCTTTCCTGAACTCCCATTCTTGGCTCACTGGATTTATTCACTCAATGT---CCCCATC------TCTGTAAGCCCCTCTATTCCCTTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2992179 91 +  31815103 CTTGATTGAACTCTCTCATAAACTCTTATTTTGGTCCCACTTGATTTATTCACCCATGCC---CCCCATC------TCTGTAATCTCCTTTATTCCCTTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5083549 91 +  13104022 CTTGATTGAACTCTCTCATAAACTCTTATTTTGGTCCCACTAGATTTATTCACCCACTCC---CGCCATC------TCTGTAATCTCCTTTATTCCCTTC
i proCoq1.NW_012140524v1    I 53 C 0
s otoGar3.GL873576            4552548 90 -  12054995 CTTGACTGAGCCCTCTCATAAACTCTTATTTTGGGCACACTGGATTGATGCATTCACTTC---C-CCATC------TCTATAATCTCCTTTACTCCCTTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19707458 93 +  45876710 CTTGATGGAACTCTTTCATAAACTCATATTTTTGGCACCCTGGATCTATTCACTCAACACTTTCCCCATT------TCTGTAATATCCTTTATTCTCTC-
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2394066 97 - 149736546 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=4560486.000000
s hg38.chr12_GL383549v1_alt     59978 365 +    120804 TATGTTCACTCTAAAGTAGAGAGAAAATTATTT--------------CAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATATATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAGAATTGACAGTAACTGACCTCTTCCTTTGCATT-TCCCTGGACAGA-GG--TGTCAGATTATCACATTTTCTAATGCATCTCCTGCTCTGTCTAGTAGAGGGAAGAGCTGCAGCAG---TTGGCTGGTCCTTTTCCTGTATCTGAAGGTTCA-TTATAAGCCTTGAAGACGAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAGGATATCTCCTC---ATACACA-CAGATGAGGCCCCAAAA
s panTro5.chr12              62751462 365 + 137163284 TATGTTCACTCTAAAGTAGAGAGAAAATTATTT--------------CAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATATATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAGAATTGACAGTAACTGACCTCTTCCTTTGCATT-TCCCTGGACAGA-GG--TGTCAGATTATCACATTTTGTAATGCATCTCCTGCTCTGTCTAGTAGAGGGGAGAGCTGCAGCAG---TTGGCTGGTCCTTTTCCTGTATCTGAAGGTTCA-TTATAAGCCTTGAAGACGAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAGGATATCTCCTC---ATACACA-CAGATGAGGCCCCAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875443 365 + 135337776 TATGTTCACTCTAAAGTAGAGAGAAAATTATTT--------------CAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATATATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAGAATTGACAGTAACTGACCTCTTCCTTTGCATT-TCCCTGGACAGA-GG--TGTCAGATTATCACATTTTCTAATGCATCTCCTGCTCTGTCTAGTAGAGGGGAGAGCTGCAGCAG---TTGGCTGGTACTTTTCCTGTATCTGAAGGTTCA-TTATAAGCCTTGAAGACGAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAGGATATCTCCTC---ATACACA-CAGATGAGGCCCCAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3090783 365 -  32808036 TATGTTCACTCTAAAGTAGAGAGAAAATTATTT--------------CAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTGCATCCATATATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTGATTAGAATTGACAGTAATTGACCTCTTCCTTTGCATT-TCCCTGGACAGA-GG--TGTCAGATTATCACATTTTCTAATGCATCTCCTGCTCTGTCTAGTAGAGGGGAGAGCTGCAGCAG---TTGGCTGGTCCTTTTCCTATATCTAAAGGTTCA-TTATAAGCCTTGAAGACGAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAGGATATCTCCTC---ATACGCA-CAGATGAGGCCCCAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7274882 378 +  34552619 TATGTTCACTCTAAAGTAGAGAGAAAATTATTT--------------CAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTATCCATGTGTCATCATTTTCATCCACGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAGAACTGACAGTAATTGACCTCTTCCTTTGCATT-TCCCTGGGCAGAGGG--TGTCAGATTATCACATTTTCTAATGCATCTCCTGCTCTGTCTAGTAGAGGGGAGAGCTGAAGCAG---TTGGCTGGTCCTTTTCCTATATCTAAAGTTTCA-TCATAAGCCTTGAAGACAAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAGGATATCTCCTC---ATACACA-CAGATGAGGCCCCAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104586874 379 - 133663169 TAAGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGACCAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTGACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATCGCCTGCTCTGTCTAGTAGAGGGGAGAGCTCAAACAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-TAATAAGCCTTGAAGATGAA--AAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATGCACA-CATATAAGGCCTCAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986384 379 - 137757926 TAAGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGACCAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTAACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATCGCCTGCTCTGTCTAGTAGAGGGGAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-TAATAAGCCTTGAAGATGAA--AAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATGCACA-CATATAAGGCCTCAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364165 379 -   7948249 TAAGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGACCAACACCCTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTAACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATCGCCTGCTCTGTCTAGTAGAGGGGAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-TAATAAGCCTTGAAGATGAA--AAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATGCACA-CATATAAGGCCTCAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265284 379 -  10730278 TAAGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGACCAGCACCTTGGTCTT--AGCTTACTAAAATACTTGTG------------AATTTTCATCCATGTATCATCATTTCAATGGGCCAAAGAGCGGGAATAAATGAATCTAATTAAAATTGACAGTAATTGACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATTGCCTGCTCTGTCTAGTAGAGGGGAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-CAATAAGCTTTGAAGATGAA--AAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATGCACA-CATATAAGGCCTCAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100756828 379 - 128539186 TAAGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGACCAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATATATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTGAGCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATCGCCTACTCTGTCTAGTAGAGGGGAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-TAATAAGCCTTGAAGATGAA--AAAAAAT-GAATATGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATACACA-CATATAAGGCCTCAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       150962 379 +    435186 TAAGTTCACTTTAAAGTAGAGAGAACATAGATTTAGTAAGCTAAGACCAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATCCATGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTGACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCAGATTATCACAATTTCTAATGCATTGCCTGCTCTGTCTAGTAGAGGGGAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGGTTCA-TAATAAGCCTTGAAGATGAA--AAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATGCACA-CATATAAGGCCTCAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539255 380 +   9309688 TATGTTCACTTTAAAGTAGAGAGAACATAGCTTTAGTAAGCTAAGATCAGCACCTTGGTCTT--AGCTTACTAAAATATTTGTG------------AATTTTCATTCATGTATCATCATTTCAATGGGCCAAAGAGCAGGAATAAATGAATCTAATTAAAATTGACAGTAATTGACCTCTTCCTTTGCATT-TTCCTGGGCAGAGGG--TGTCACATTATTACAATTTCTAATGCATCGCCTGCTCTATCTAGTAGAGGGAAGAGCTCAAGCAG---TTGGCTGGTCCTTTTTCTATATCTAAAGATTCA-TAATAAGCTTTGAAGATGAA-TAAAAAAT-GAATGTGTTCCATCTAAACCGTTGCAGGATATCTCCTC---ATACACA-CATATAAGGCCTCAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11375734 366 -  29834108 TGTGATCACTCTACAGTAGAGAGAAAAGTATTT--------------CAGTACCTTGGTCGT--AGCTTACTAAAATATTTGTG------------AATCTTCATCCATGTATCATCATCTCAGTGGGCCAGAAAGTAGGAATAAATGTATCTAatcagaattgacagtaattggcctcttccttcgcatt-ttcctgagcagaggg--TGTCAGATCATCACATTTTCGGATGCATCGCCTGCTCTGTCTGGTAGAGGAGAGAGATGAAGCAG---TTGGCCGGTCCTTTTCCTGTATCTAAAGGTTCA-TAATAAGTCTTGAAGACAAA-TAATAAAT-GAATGTGTTCCATCTAAACCATTGCAAGATATCTCCTC---ATACACA-CCGATGAGACCTCAAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829361 367 -   1015025 TGTGATCACTCTACAGTAGAGAGAAAAGTATTT--------------CAGTGCCTTGGTTGT--AGCTTACTAAAATATTTGTG------------AATCTTCATCCATGTATCATCATCTCAGTGGGCCAAAAAGTAGGAATAAATGTATCTAATTAGAATTGACAGTAATTGGCCTCTTCCTTTGCATT-TTCCTGAGCAGAGGG--TGTCAGATCATCACATTTTCGGATGCATCTCCTGCTCTGTCAGGTAGAGGGGAGAGCTGAAGCAG---TTGGCTGGTCCCTTTCCTGTATCTAAAGGTTCA-TAATAAACCTTGAAGATAAATTAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAAGATATCTCCTC---ATACACA-CTGATGAGACCTCAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1849890 368 -   2295209 TGTGCTCACTCTAAAGTAGAGAGAAAAGTATTT--------------CAGTACCTTGGTCATGGGGCTTACTAAAATATTTGTG------------AATCTTCATCCATGTATCATCATCTCAGTGGGCCAAAGAGTAGGAATAAATGTATCTAATTAGAATTGACAGTAATTGGCCTCTTCCTTTGCATT-TTCCTGAGCAGAGGG--TGTCAGATCATCACATTTTCGGAGGCATCTCCTGCTCTGTCTAGTAGAGGGGAGAGCTGAAGCAG---TTGGCTGGTCCTTTTCCTGTATCTAAAGGTTCA-TAATAAACCTTGAAGACAAA-TAAAAAAT-GAATGTGTTCCATCTAAACCATTGCAAGATATCTCCTC---ATACACA-CCGATGAAACCTCAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2992270 371 +  31815103 TGTGTTCACCCTAAGGTAGGGAGAAAATTATTT--------------CAGCACGTTGGGCTT--AGTTTACTAAAATATTTGTG------------AATTTTCATTCATTTATCATCATTTCAATGGGTCAAAGAGCAGGAAGGAGTGTGTATAATCAGACATGATATGAATTGGCCTCTTCCTTTGCATT-TCCCTGGGCAAAGGGTATATAGGTTTGTCACATTTTCTAATCGATCTTCTGCTCTGTCTAGTAGACATAAGATCTGAAGCAG---TTGGCTGGTTCTTTTCCTGTATTTAAAGGTTCA-TAATAATCCTTGAAGAGAAA-TGGAAAAC-TAATGTGTTACATCTAAACCATTGTAGAATATCTCCTTCACATACACA-CAAATGAGATCTCAAAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5083640 369 +  13104022 TGTGTTCACCCTAAAATAGGGAGAAAATTATTT--------------CAGCACGTTCGTCTT--AGTTTACTAAAATATTTGTG------------CATTTTCATTCATTTACCATCATTTCAATGGGCCAAAGAGCAGGAATGAATGTGTATAATCAGAAATGATATTAATTGGCCTCTTCCTTTGCATT-GCCCTGGGCAGAGGG--TATAGGTTTGTCACATTTTCTAATGCATCTTCTGCTCTGTCTAGTAAACATAAGATCTGAAGCAG---TTGGCTGGTTCTTTTCCTGTATTTAAAGGTTCA-TAACAAGCCTTGAAGAGAAA-TGAAAAAC-TAATGTATTACATCTAAACCATTGCAGAATATCTCCTTCACAAACACA-CAAATGAGATCTCAAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4552638 350 -  12054995 TGTGTTCATTTTAAAATAGGGAGAAAATTGTTT--------------CAGTACTTTGGTCTT--AGTTTACTAAAATATTTATA------------CATTTTTATCCATTTATCATCATTTCAAAGGGCCAAAGAACAGGAATAAATGTATATTATCAGAAATGACCTTAATTGTCATCTTCTTTTGCATT-TCTCTGAGTAAAAGG--TGCAGGATCGTCACA-CTTCTAACACA---TCTGTTCTGTCTGCTGG-----AGAGCTGAAGCAG---TTGCCTGGTTCTTTCCCTGTACTTAAAGGTGCA-CAGTAGACCTTGCAGAGAAA-TGAAACAC-TAATGTCTTCCATCTAAACCATTGCAGAATATGTCCTT-----------CAGATGAAATCTCAAAA
i otoGar3.GL873576          C 0 I 167
s mm10.chr6                   2394163 320 - 149736546 TGTGTCCATTCTAAAACA-AGCTGAAGTCACTG--------------CTGT-CACTGGCCTT--AACTTACTAAAATGTTTGTA------------CATTTCAGTCTACTTATCATCATTTT-GTAAGCTAAAGAATGAGAATAAGTATATTTAACAAGAAACACAATTAATCGGTTTCCTTCTGTGCTTTCTCCCTCTGTAGGGGT--TGAGAGATTATCA-GGTTTCCAAT-----------------------------------AAGCAGAACCTGAGTGGGCCTTCTCTTATATTTAGAGGTTAAGTGATAAGTCCTGCAGAGAAA---ATTAAG-CAATATAGTCCAACTAA--TATGG------ATTTCCCT---A-ACATG-CACATGAGGTCTCAAA-
i mm10.chr6                 I 97 C 0
s canFam3.chr27              19707551 369 +  45876710 TGTGTTCACTCTAAAATAGGGAGAAAATTATTT--------------CAACACTTTGGTCTT--AGCTTACGAAAATATTTGAG------------AATTTGTGTCCATTTATCATTATGTCAGCAGGCTAAAGAGCAGGAGTAAATATCTCTAATCAGAAGCAAAACAAATTGACCCCCTCCTTTTA--T-TTCCTTGGTGGGGGC--TGCAAGATTAGCAAGTTTTCTAATGCATCTCCTCTTCTGTCTAGTGGAGGTGGAAGCTAAAGCTG---TTAGCTTGTCCTTCTCCTGTAATTAAAAGCTCA-TAGTAAGTCTTGAAGAAAAA-TAAAAAATCTAATGTATTCCATTTAAACCTTTACTGAATATCTCCTTCACACACACACCAGATGAGGCCTAAAAA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             907655  58 -   1687904 I

a score=1042092.000000
s hg38.chr12_GL383549v1_alt     60343 80 +    120804 TTTCTTAGTTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
s panTro5.chr12              62751827 80 + 137163284 TTTCTTAGTTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875808 80 + 135337776 TTTCTTAGTTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091148 80 -  32808036 TTTCTTAGTTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275260 80 +  34552619 TTTCTTAGCTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAC-TTTAGAATATCTGTTTTCCAATTATC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587253 80 - 133663169 TTTCTTAGTTCCTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986763 80 - 137757926 TTTCTTAGTTCCTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364544 80 -   7948249 TTTCTTAGTTCCTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265663 80 -  10730278 TTTCTTAATTCCTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100757207 80 - 128539186 TTTCTTAGTTCCTTTTCATGTACTGTTTTCAAGTTGCCAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151341 80 +    435186 TTTCTTAATTCCTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539635 80 +   9309688 TTTCTTAGTTCCTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATTATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376100 80 -  29834108 TTCCTTACTTTGTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGCCAGAGAT-TTTAGAATATCTGTTTTCCAATTAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829728 80 -   1015025 TTCCTCAGTTTGTTTTCACGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAAAT-TTTAGAATATCTGTTTTCCAATTATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850258 80 -   2295209 TTCCTTAGTTTGTTTTCATGTACTGTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTAGAATATCTGTTTTCCAATGATC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2992641 64 +  31815103 TAACTTAGTG----------------TTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTATAATATCTATTTTCCAATTATC
i micMur3.chr21             C 0 I 875
s proCoq1.NW_012140524v1      5084009 66 +  13104022 TATCTTAGTA--------------GTTTTCAAGTTGCTAAATGAAGGCAGAGAT-TTTATAATATCTATTTCCCGATTATC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4553155 80 -  12054995 tgCCTTAGTCAGTTTTCAAGTACTATTTTCAAGTTGTTAAATGAAGGCAGAGAT-CTTATAGTACCTATCTTCGGATGATC
i otoGar3.GL873576          I 167 C 0
s mm10.chr6                   2394483 66 - 149736546 ------AATATCTTTT---------TTTATAAGCTGCCAAACAAAGGCAGAGATATTTTGGATATCAGTTTTACAACTGCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707920 78 +  45876710 TACCTTAGTCAACTTTCAAGGCTAGTTTTCAAATTACTAAATGAAG--ATAGAC-TTTAGGATAACTATTTTCTAATTACT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             907655 58 -   1687904 I

a score=97936.000000
s hg38.chr12_GL383549v1_alt     60423 9 +    120804 CTCCCTTCT
s panTro5.chr12              62751907 9 + 137163284 CTCCCTCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875888 9 + 135337776 CTCCCTCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091228 9 -  32808036 CTCCCTCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275340 9 +  34552619 CTCCCTCCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587333 9 - 133663169 CTCCCTCCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986843 9 - 137757926 CTCCCTCCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364624 9 -   7948249 CTCCCTCCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265743 9 -  10730278 CTCCCTCCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100757287 9 - 128539186 CTCCCACCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151421 9 +    435186 CTCCCTCCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539715 9 +   9309688 CTCCCTCCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376180 9 -  29834108 TTCCCTCCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829808 9 -   1015025 TTCCCTCCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850338 9 -   2295209 TTCCCTCCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5084075 8 +  13104022 TGCCCTCT-
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4553235 8 -  12054995 TGCCCTCC-
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2394549 9 - 149736546 TCCCCTTCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19707998 9 +  45876710 TGCCCTCCT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=-2558.000000
s hg38.chr12_GL383549v1_alt     60432 1 +    120804 T
s panTro5.chr12              62751916 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875897 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091237 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275349 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587342 1 - 133663169 G
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986852 1 - 137757926 G
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364633 1 -   7948249 G
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265752 1 -  10730278 G
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100757296 1 - 128539186 G
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151430 1 +    435186 G
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539724 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376189 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829817 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850347 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5084084 1 +  13104022 T
i proCoq1.NW_012140524v1    I 1 C 0
s mm10.chr6                   2394558 1 - 149736546 T
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19708007 1 +  45876710 T
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4553243 1 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e dasNov3.JH562883             907655 58 -   1687904 I

a score=97168.000000
s hg38.chr12_GL383549v1_alt     60433 12 +    120804 AGAAAGGCATCA
s panTro5.chr12              62751917 12 + 137163284 AGAAAGGCATCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875898 12 + 135337776 AGAAAGGCATCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091238 12 -  32808036 AGAAAGGCATCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275350 12 +  34552619 AGAAAGGCATCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587343 10 - 133663169 AGAA--GCATCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986853 12 - 137757926 AGAAAGGCATCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364634 12 -   7948249 AGAAAGGCATCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265753 12 -  10730278 AGAAAGGCATCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100757297 12 - 128539186 AGAAAGGCATCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151431 12 +    435186 AGAAAGGCATCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539725 12 +   9309688 AGAAAGGCATCA
i colAng1.NW_012114364v1    C 0 C 0
s proCoq1.NW_012140524v1      5084085 12 +  13104022 AGAGAGACATCA
i proCoq1.NW_012140524v1    C 0 I 842
s mm10.chr6                   2394559 11 - 149736546 -AAAAGGCAGCA
i mm10.chr6                 C 0 I 500
s canFam3.chr27              19708008 12 +  45876710 AGGGAGGCATCA
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4553243  1 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e aotNan1.NW_018488218v1      1850348  0 -   2295209 C
e dasNov3.JH562883             907655 58 -   1687904 I
e cebCap1.NW_016107911v1       829818  0 -   1015025 C
e saiBol1.JH378123           11376190  0 -  29834108 C

a score=1125671.000000
s hg38.chr12_GL383549v1_alt     60445 215 +    120804 TAggccaggcacggtggctcacacgcctgtaatcccaacactttgggaggccgaggcgggtggatcacgaggtcaggaattccagagcagcctggccaatatggtgaaaccccgtctctactaaaaatacaaaaattagccgggcatggtggcatgtgcctgtagtcccagctactcgggaggctgaggcgggagaattgcttgaacccgggagg
s panTro5.chr12              62751929 215 + 137163284 TAggccaagcacagtggctcacacgcctgtaatcccaacactttgggaggccgaggcgggtggatcacgaggtcaggaattccagagcagcctggccaatatggtgaaaccccgtctctactaaaaatacaaaaattagccaggcatggtggcatgtgcctgtagtcccagctactcgggaggctgaggcgggagaattgcttgaacccgggagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60875910 215 + 135337776 TAggccaggcacggtggctcacacgcctgtaatcccaacactttgggaggccgaggcgggtggatcatgaggtcaggaattccagagcagcctggccaatatggtgaaaccccgtctctactaaaaatacaaaaattagccaggcatagtggcatgtgcctgtagtcccagctactcgggaggctgaggcgggagaattgcttgaacccgggagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091250 215 -  32808036 TAggccaggcacagtggctcacacgcctgtaatcccaacactttgggaggccgaggcgggtggatcacgaggtcaggaattccagagcagcctggccaatatggtgaaaccccatctctactaaaaatacaaaaattagccgggcgtggtggcatgtgcctgtagtcccagctactcgggaggctgaggcgggagaattgcttgaacctgggagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275362 213 +  34552619 TAggctaggcacagtggct--cacgcctgtaatcccagcactttgggaggccgaggtgggtggacgacaagatcaggaattccagagcagcctggccaatatggtgaaaccccgtctctactaaaaatacaaaaattagccggtcgtggtggcatgtgcctgtagccccagctactcgggaggctgaggcaggagaatttcttgaagtcgggagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587353 213 - 133663169 TAggcccagcgtggtggct--cacgcctgtaatctcagcaatttgggaggccgaggcgggtggatcatgaggtcaggaattccagagcagccttgtcaatatagtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcttgttcctatagtcccagctactcgggaggctgaggtgggagaattgcttgaacccgggagg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108986865 213 - 137757926 TAggcccagcgtggtggct--cacgcctgtaatctcagcaatttgggaggccgaggcgggtggatcatgaggtcaggaattccagagcagccttgtcaatatagtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcatgttcctatagtcccagctactcgggaggctgaggtgggagaattgcttgaacccgggagg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364646 213 -   7948249 TAggcccagcgtggtggct--cacgcctgtaatctcagcaatttgggaggccgaggcgggtggatcatgaggtcaggaattccagagcagccttgtcaatatagtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcatgttcctatagtcccagctacttgggaggctgaggtgggagaattgcttgaacccgggagg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8265765 213 -  10730278 TAggcccagcgtagtggct--cacgcctgtaatctcagcactttgggaggccgaggcaggtggatcatgaggtcaggaattccagagcagcctggtcaatatggtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcatgttcctgtagtcccagctactcgggaggctgaggtgggagaattgcttgaacccaggagg
i cerAty1.NW_011999477v1    C 0 I 894
s chlSab2.chr11             100757309 210 - 128539186 TAggcccagcgtggtggct--cacgcctgtaatctcagcactttgggaggctgaggcgggtggatcatgaggtcaggaattccagagcagcctggtcaatatggtgaaatcccatctctactaaaactacaacaattagccaggtgtggtggcatgttcct---gtcccagctactcgggaggctgaggtgggagaattgcttgaacccgggagg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151443 213 +    435186 TAggcccagcgtggtggct--cacgcctgtaatctcagcactttgggaggccgaggcaggtggatcatgaggtcaggaattccagagcagcctggtcaatatggtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcatgttcctgtagtcccagctactcgggaggctgaggtgggagaattgcttgaacccgggagg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539737 213 +   9309688 CAggcccagcgtggtggct--cacgcctgtaatctcagcactttgggaggctgaggcgggtgaatcatgaggtcaggaattccagagcagcctggtcaatatggtgaaatcccatctctactaaaactacaaaaattagccaggtgtggtggcatgttcatgtagtcccagctactcgggaggctgaggtgggataattgcttgaacctgggagg
i colAng1.NW_012114364v1    C 0 C 0
s canFam3.chr27              19708020  56 +  45876710 -------------------------------------------------------------------------------------------------TATATAGTA------TATCTCCCCTACGGACCTAGAA------------------CATGGTTACATAGTCA----------------------AGGagaact----------------
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4553243   1 -  12054995 I
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e aotNan1.NW_018488218v1      1850348   0 -   2295209 C
e dasNov3.JH562883             907655  58 -   1687904 I
e cebCap1.NW_016107911v1       829818   0 -   1015025 C
e saiBol1.JH378123           11376190   0 -  29834108 C

a score=190499.000000
s hg38.chr12_GL383549v1_alt     60660 40 +    120804 cggaggttacagtcagccgagat--ggtgcc-actgcactcca
s panTro5.chr12              62752144 40 + 137163284 cggaggttacagtcagccaagat--ggtgcc-actgcactcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876125 40 + 135337776 cggaggttacagtcagccgagat--ggtgcc-actgcactcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091465 40 -  32808036 cagaggttacagtcagccgagat--ggtgcc-actgtattcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275575 40 +  34552619 cagaggttgcagtcagccaacat--ggtgcc-actgcactcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587566 40 - 133663169 cagaggttgcagtgagccaagat--ggtgcc-actgcactcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987078 40 - 137757926 cagaggttgcagtgagccaagat--ggtgcc-actgcactcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364859 40 -   7948249 cagaggttgcagtgagccaagat--ggtgcc-actgcactcca
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757519 40 - 128539186 cagaggttacagtcagccgagat--ggtgcc-actgcactccg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151656 40 +    435186 cagaggttgcagtgagccaagat--ggtgcc-actgcactcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539950 40 +   9309688 cagaggttgcagtcagctgagat--ggtgcc-actgcactctg
i colAng1.NW_012114364v1    C 0 C 0
s canFam3.chr27              19708076 29 +  45876710 --------------aaccaatattgagtgcctactgtactcca
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4553243  1 -  12054995 I
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e aotNan1.NW_018488218v1      1850348  0 -   2295209 C
e dasNov3.JH562883             907655 58 -   1687904 I
e cebCap1.NW_016107911v1       829818  0 -   1015025 C
e saiBol1.JH378123           11376190  0 -  29834108 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=38005.000000
s hg38.chr12_GL383549v1_alt     60700 7 +    120804 gcctggg
s panTro5.chr12              62752184 7 + 137163284 gcctggg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876165 7 + 135337776 gcctggg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091505 7 -  32808036 gcctggg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275615 7 +  34552619 gcctggg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587606 7 - 133663169 gcctggg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987118 7 - 137757926 gcctggg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364899 7 -   7948249 gcctggg
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757559 7 - 128539186 gcctggg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151696 7 +    435186 gcctggg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3539990 7 +   9309688 gcctggg
i colAng1.NW_012114364v1    C 0 C 0
e otoGar3.GL873576            4553243 1 -  12054995 I
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708105 0 +  45876710 C
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e aotNan1.NW_018488218v1      1850348 0 -   2295209 C
e dasNov3.JH562883             907655 58 -   1687904 I
e cebCap1.NW_016107911v1       829818 0 -   1015025 C
e saiBol1.JH378123           11376190 0 -  29834108 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=77079.000000
s hg38.chr12_GL383549v1_alt     60707 27 +    120804 tgatagagcgagactctgtctc---a-------aaa-----a
s panTro5.chr12              62752191 32 + 137163284 tgatagagcgagactctgtctc---a--acaacaac-----a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876172 33 + 135337776 tgatagagcgagactctgtctc---aa-acaaaaaa-----a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091512 34 -  32808036 tgatagagcgagactctgtctc---aacaaaaaaaa-----a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7275622 27 +  34552619 tgatagagtgagactctgtcta---a-------aaa-----a
i nomLeu3.chr23             C 0 I 5760
s rheMac8.chr11             104587613 30 - 133663169 tgatagagtgagactctgtctcaaaa-------aaa-----a
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             108987125 28 - 137757926 tgatagagcgagactctgtctc--aa-------aaa-----a
i macFas5.chr11             C 0 I 1
s macNem1.NW_012011422v1      1364906 27 -   7948249 tgatagagcgagactctgtctc---a-------aaa-----a
i macNem1.NW_012011422v1    C 0 I 1
s chlSab2.chr11             100757566 32 - 128539186 tgacagagcgagactctgtctc---a-------aaaaaaaga
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       151703 27 +    435186 tgatagagcgagactctgtctc---a-------aaa-----a
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3539997 26 +   9309688 tgatagagcgagactctgtctc---a-------aaa------
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4553244  6 -  12054995 TGATGG------------------------------------
i otoGar3.GL873576          I 1 C 0
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708105  0 +  45876710 C
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e aotNan1.NW_018488218v1      1850348  0 -   2295209 C
e dasNov3.JH562883             907655 58 -   1687904 I
e cebCap1.NW_016107911v1       829818  0 -   1015025 C
e saiBol1.JH378123           11376190  0 -  29834108 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=103500.000000
s hg38.chr12_GL383549v1_alt     60734 27 +    120804 aaaaaaagaaagaaagaaaaagaaaAG
s panTro5.chr12              62752223 27 + 137163284 aaaaaaagaaataaagaaaaAGAAAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876205 27 + 135337776 aaaaagaaaaagaaagaaaAAGAAAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091546 27 -  32808036 aaagaaagaaagaaagaaAAAGAAAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281409 27 +  34552619 aaagaaagaaagaaagaaagaaagaag
i nomLeu3.chr23             I 5760 C 0
s rheMac8.chr11             104587644 27 - 133663169 aaagaaaagaaaaaagaaaaagaaaag
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             108987154 27 - 137757926 aaaaaaaaaaaaaaagaaaaaGAAAAG
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1364934 27 -   7948249 aaaaaaaagaaaaaagaaaaagaaAAG
i macNem1.NW_012011422v1    I 1 C 0
s chlSab2.chr11             100757599 27 - 128539186 aaaaaaaagaaaaaagaaagagaaaag
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       151731 27 +    435186 aaaaaaaagaaaaaataaaaagaaAAG
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3540023 20 +   9309688 -------agaaaaaagaaaaagaaaag
i colAng1.NW_012114364v1    C 0 C 0
e otoGar3.GL873576            4553250  0 -  12054995 C
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708105  0 +  45876710 C
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e aotNan1.NW_018488218v1      1850348  0 -   2295209 C
e dasNov3.JH562883             907655 58 -   1687904 I
e cebCap1.NW_016107911v1       829818  0 -   1015025 C
e saiBol1.JH378123           11376190  0 -  29834108 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=748082.000000
s hg38.chr12_GL383549v1_alt     60761 95 +    120804 AGAAAGGCATCATAGACACAG-GGTGTCTCTCCTCTAGGACATTGAAAATGCTCATGGAGTTCAGGAG-ACTAACattgagcgtttccagcgctcca
s panTro5.chr12              62752250 95 + 137163284 AGAAAGGCATCATAGACACAG-GGTGTCTCTCCTCTAGGACATTGAAAATGCTCATGGAATTCAGGAG-ACTAACattgagcgtttccagcgctcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876232 95 + 135337776 AGAAAGGCATCATAGACACAG-GGTGTCTCTCCTCTAGGACATTGAAAATGCTCATGGAGTTCAGGAG-ACTAACattgagcgtttccagcgctcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091573 94 -  32808036 AGAAAGGCATCATAGACACAG-GGTGTCTCTCCTCTAGGACATTGAAAATGCTCATGGAGTTCAGGAG-ACTAACA-tgagcgtttccagtgctcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281436 95 +  34552619 agaaagGCATCATAGACACAG-GGCATCTCTCCTCTAGGACATTGAAAATTCTCATGGAGTCCAGGAG-ACTAACattgagcgtttccagcactcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587671 96 - 133663169 agaaaGGCATCATAGACACAGGGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGGAG-ACTAAtattgagcgtttccagctctcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987181 96 - 137757926 AGAAAGGCATCATAGACACAGGGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGGAG-ACTAAtattgagcgtttccagctctcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1364961 96 -   7948249 AGAAAGGCATCATAGACACAGGGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGGAG-ACTAAtattgagcgtttccagctctcca
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757626 96 - 128539186 agaaagGCATCATAGACACAGGGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGGAG-ACTAAtattgagcgttttcagctctcca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151758 96 +    435186 AGAAAGGCATCATAGACACAGAGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGGAG-ACTAAtattgagcgtttctagctctcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3540043 96 +   9309688 agaaaGGCATCATAGACACAGGGGTGTCTCTCCTCTAGGACACTGAAGATGCTCATGGAGTCCAGAAG-ACTAAtattgagcgtttccagctctcca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376190 95 -  29834108 AGAAAGGCATCATGGAAATAG-GGTGTCTCTCTTCCAGGACATTGAAGATATTCACAGAGTCCAAGAG-ACTAACattgagcgtttccagtgctcca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829818 95 -   1015025 AGAAAGGCATCATAGACATAG-GGTGTCTCTCTTCTAGGACATTGAAGATACTCACAGAGTCCAAGAG-ACTAACattgagcgtttccagtgctcca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850348 95 -   2295209 AGAAAGGCATCATAGACATAG-GATGTCTCTCCTCTAGGACATTGAAGATACTCACGGAGTCCAAGAG-ACTAACattgagcgtttccagtgctcca
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553250 89 -  12054995 ----AGACAGCACAGACACAG---TGTGCCTCCTCCAGGCGCCCCAGGATGCTGATGGAGTCGAAGAGCACAAACACCGCTcgcctct-gtgctcca
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708105  0 +  45876710 C
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=1719391.000000
s hg38.chr12_GL383549v1_alt     60856 198 +    120804 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccatgg-aaagtaatggtatgccctcttttcaggtgattaaatggaaactaaaataacta-aatggcccaaag-tacagagcagtaaataagaaagccaggattcaaacacatactccccagaactcctgctcttttcactcat-acca
s panTro5.chr12              62752345 198 + 137163284 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccatgg-aaagtaatggtatgccctcttttcagatgagtaaatggaaacaaaaataacta-aatggcccaaag-tacagagcagtaaataagaaagccaggattcaaacacatactccccagaactcctgctcttttcactcat-acca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876327 199 + 135337776 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccatggaaaagtaatggtatgccctcttttcagatgagtaaatggaaactaaaataacta-aatggcccaaag-tacagagcagtaaataagaaagccaggattcaaacacatactccccagaactcctgctcttttcactcat-acca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091667 198 -  32808036 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccatgg-aaagtaatggtatgccctcttttcagatgagtaaatggaaactaaaataacga-aatggcccaaag-tacagagcagtaaataagaaagccacgattcaaacacatactccccagaactcctgctcttttcactcat-atca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281531 199 +  34552619 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccgtgg-aaagtaatggtacgccctcttttcaggtgagtaaatggaaactaaaataacta-aatggcccaaagttacagagcagtaaataagaaagccaggattcaaacacatactccccagaacccctgctcttttcactcat-acca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587767 190 - 133663169 ggtgttgtcctaggtactgcatgtattttagcacgttttatccatacaatgacccatgg-aaagtaatggcatgcccccttttcagatgag---------actaaaataacta-aatggtccaaagttacagtgcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987277 190 - 137757926 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccgtgg-aaagtaatggcatgcccccttttcagatgag---------actaaaataacta-aatggtccaaagttacagagcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365057 190 -   7948249 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccgtgg-aaagtaatggcatgcccccttttcagatgag---------actaaaataacta-aatggtccaaagttacagagcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757722 199 - 128539186 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccatgg-aaagtaatggtatgcccccttttcagatgagtaaatggaaactaaaataacta-aatggtccaaagttacagagcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       151854 199 +    435186 agtgttgtcctaggtactgcatgtattttagcacattttatccatacaatgacccgtgg-aaagtaagggcatgcccccttttcagatgagtaaatggaaactaaaataacta-aatggtccaaagttacagagcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3540139 196 +   9309688 agtgttgtcctaggtactgcaca---tttagcacattttatccatacaatgacccatgg-aaagtaatggtatgcccccttttcagatgagtaaatggaaactaaaataacta-aatggcccaaggttacagagcagtaaataggaaagccaggattcaaacacatattccccagaacccctgctcttttcactcat-acca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376285 199 -  29834108 agtgttgtcctaggtactgcatatattttagagcattttatccatacaacgacccatag-aaagtaatggtattccctgttttcagataagtaaatggaaactacaatagcta-aatggcccaacgttacagagcagtaaataagaaagccaggattcaaacacatactctccagaacccctgctgttttcactcat-actg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       829913 199 -   1015025 agtgttgtcctgggtactgcatatattttagagtattttatccatacaacgacccatgg-aaagtaatggtattccctcttttcagataagtaaatggaaactacaacagcta-aatggcccgaagttacagagcagtaaataagaaagccaggattcaaacacatactctccagaagccctgctgttttcactcat-accg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850443 196 -   2295209 agtgttgtcctgggtactgcatgaattttagatcattttatccatacaacgacccacgg-aaagtaac-gtattccctcttttcagataa--aaatggaaactgtaatagcta-aatggcccaaagttacagagcagtaaacaagaaagccaggattcaaacacatactctccagaacccctgctgttttcactcat-accg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553339 198 -  12054995 agctttgccctaggcat--cacgtgtgttagtgtaccttaccctcacaatgatacctgg-aaagtaatagtgtgtcctcttttcagatgagtaaacacatgcaaaaataactgcagtttcccatagtcacagagcagtgcataagaaagccaagattcaaatacatac-caccagaactcctgcacttttcactCATGACCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19708105 196 +  45876710 agttttgtcctgggtgcttcatgtgtactattgcactgaatccttctgataatagaagg-aaaataatagtatgccttctcttcagatgcatagacttaagctaaaataagta-tatga-cagaagttacagagcagtaaataagaaagtcaagattcaaacacatact--ccataactcctactcttttcactcat-acca
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2394570 500 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655  58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=143673.000000
s hg38.chr12_GL383549v1_alt     61054 15 +    120804 tgataccTTGA-ATTA
s panTro5.chr12              62752543 15 + 137163284 tgataccTTGA-ATTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876526 15 + 135337776 tgataccTTGA-ATTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091865 15 -  32808036 tgataccTTGA-ATTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281730 15 +  34552619 tgataccTTGG-ATTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587957 15 - 133663169 tgataccTTGG-ATTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987467 15 - 137757926 tgataccTTGG-ATTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365247 15 -   7948249 tgataccTTGG-ATTA
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757921 15 - 128539186 tgataccTTGG-ATTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152053 15 +    435186 tgataccTTGG-ATTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3540335 15 +   9309688 tgataccTTGG-ATTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376484 15 -  29834108 tgataccTTGG-ATTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830112 15 -   1015025 tgataccTTGG-ATTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850639 15 -   2295209 tgataccTTGG-ATTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553537 16 -  12054995 TGGTACTTTGGAATTG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2395070 15 - 149736546 TGCCACCTAAA-ATTG
i mm10.chr6                 I 500 C 0
s canFam3.chr27              19708301 15 +  45876710 tcatgcctcAA-AATG
i canFam3.chr27             C 0 I 235
e micMur3.chr21               2992705 875 +  31815103 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=351642.000000
s hg38.chr12_GL383549v1_alt     61069  61 +    120804 Ttctct-tgtctcctattctctctcactccctttctctct-----------c----------tctttct---------------------------ctttctc--tctctct
s panTro5.chr12              62752558  61 + 137163284 TTCTCT-TGTCTCCTATtctctctcactccctttctctct-----------c----------tctttct---------------------------ctctctc--tctctct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876541  61 + 135337776 TTCTCT-TGTCTCCTATtctctctcactccctttctctct-----------c----------tctttct---------------------------ctctctc--tctctct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091880  47 -  32808036 Ttctct-tgtctcctattctctctcactccctttctc--------------------------------------------------------------tctc--tctctAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281745  61 +  34552619 Ttctct-tgtctcctattctctctcactccctttctctct-----------c----------tctctct---------------------------ctctcta--tatatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104587972  61 - 133663169 TTCTCT-TGTTTCCTATtctctctcactccctttctctct-----------c----------tttctct---------------------------ctctctc--tctctat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987482  61 - 137757926 TTCTCT-TGTTTCCTATtctctctcactccctttctctct-----------c----------tttctct---------------------------ctctctc--tctctat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365262  61 -   7948249 TTCTCT-TGTTTCCTATtctctctcactccctttctctct-----------c----------tttctct---------------------------ctctctc--tctctAT
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100757936  61 - 128539186 TTCTCT-TGTTTCCTATtctctctcactccctttctctct-----------c----------tctctct---------------------------ctctctc--tatatat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152068  61 +    435186 TTCTCT-TGTTTCCTATtctctctcactccctttctctct-----------c----------tttctct---------------------------ctctctc--tctATAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3540350  61 +   9309688 TTCTCC-TGTTTCCTATtctctctcactccctttctctct-----------c----------tttctct---------------------------ctctctc--tctctct
i colAng1.NW_012114364v1    C 0 I 3967
s saiBol1.JH378123           11376499  61 -  29834108 TTCT---TGTCTCCTATtctctttctctctctctctctct-----------c----------tctctct---------------------------ctctctctgtctctct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830127  59 -   1015025 TTCT---TGTCTCCTATTCTCTTTCACTCCCTTTCTTtct-----------c----------tctctct---------------------------ctctttc--tctctct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850654  71 -   2295209 TTCT---CGTCTCCTATTCCCTTttactctctttctttct-----------ttgtttctttgtttcttt---------------------------ctttttctttctctct
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553553 100 -  12054995 TTCTCTCTCTCTCTCATTGTGTGTGGGTATCACTTTATCTGGTCTCAGGTAT----------TTTCTCTATAACTTAGAATTTCTATAATATACACCTTTTTT--TCCCCTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2395085  51 - 149736546 ACCTGC-TGTTGTCTACTATCTGTCTACTCATTACTGTCT-----------C----------TATCACT---------------------------CACC------------
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655  58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=36312.000000
s hg38.chr12_GL383549v1_alt     61130 8 +    120804 ATATATAT
s panTro5.chr12              62752619 8 + 137163284 ctATATAt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876602 8 + 135337776 ATATAtgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091927 8 -  32808036 ATATATAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281806 8 +  34552619 atatatat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588033 8 - 133663169 atatatat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987543 8 - 137757926 atatatat
i macFas5.chr11             C 0 I 5
s macNem1.NW_012011422v1      1365323 8 -   7948249 ATATATAT
i macNem1.NW_012011422v1    C 0 I 40
s chlSab2.chr11             100757997 8 - 128539186 atatatat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152129 6 +    435186 ATATAT--
i manLeu1.NW_012101287v1    C 0 I 40
s saiBol1.JH378123           11376560 8 -  29834108 atatatat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830186 8 -   1015025 ctctctat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850725 8 -   2295209 Ctatatat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553653 8 -  12054995 ACTTAGAA
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2395136 8 - 149736546 ATCTGTTT
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=1438.000000
s hg38.chr12_GL383549v1_alt     61138 2 +    120804 GT
s panTro5.chr12              62752627 2 + 137163284 gt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876610 2 + 135337776 gt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091935 2 -  32808036 AT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281814 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s chlSab2.chr11             100758005 2 - 128539186 at
i chlSab2.chr11             C 0 C 0
s saiBol1.JH378123           11376568 2 -  29834108 at
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830194 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850733 2 -   2295209 at
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553662 1 -  12054995 G-
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2395144 2 - 149736546 AT
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I
e macFas5.chr11             108987551 5 - 137757926 I
e rheMac8.chr11             104588041 0 - 133663169 C

a score=5949.000000
s hg38.chr12_GL383549v1_alt     61140 2 +    120804 GT
s panTro5.chr12              62752629 2 + 137163284 gt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876612 2 + 135337776 gt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091937 2 -  32808036 At
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281816 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588041 2 - 133663169 at
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987556 2 - 137757926 at
i macFas5.chr11             I 5 C 0
s chlSab2.chr11             100758007 2 - 128539186 at
i chlSab2.chr11             C 0 I 77
s saiBol1.JH378123           11376570 2 -  29834108 gt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830196 2 -   1015025 gt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850735 2 -   2295209 gt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4553663 2 -  12054995 AC
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2395146 2 - 149736546 CT
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I

a score=1435.000000
s hg38.chr12_GL383549v1_alt     61142 1 +    120804 G
s panTro5.chr12              62752631 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876614 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091939 1 -  32808036 g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281818 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588043 1 - 133663169 a
i rheMac8.chr11             C 0 I 45
s macFas5.chr11             108987558 1 - 137757926 a
i macFas5.chr11             C 0 I 3
s saiBol1.JH378123           11376572 1 -  29834108 a
i saiBol1.JH378123          C 0 I 3
s cebCap1.NW_016107911v1       830198 1 -   1015025 a
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1850737 1 -   2295209 a
i aotNan1.NW_018488218v1    C 0 I 8
s mm10.chr6                   2395148 1 - 149736546 G
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4553665 1 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e chlSab2.chr11             100758009 77 - 128539186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I

a score=-3225.000000
s hg38.chr12_GL383549v1_alt     61143 12 +    120804 TGTGT------------------------GTGTGTG
s panTro5.chr12              62752632 24 + 137163284 tgtgt------------gtgtgtgtgtaggtgtgtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876615 22 + 135337776 tgtgt--------------gtgtgtgtaggtgtgtg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091940 22 -  32808036 tgtgt--------------gtgtgtgtaggtgtgtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281819 36 +  34552619 tgtgtatgtgtgtgtgtgtgtgtgtgtaggtgtgtg
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108987562 12 - 137757926 ------------------------tacacacacaca
i macFas5.chr11             I 3 C 0
s saiBol1.JH378123           11376576 14 -  29834108 ----------------------tatatatgtctgtg
i saiBol1.JH378123          I 3 C 0
s cebCap1.NW_016107911v1       830202 14 -   1015025 ----------------------tatatatgtctgtg
i cebCap1.NW_016107911v1    I 3 C 0
s aotNan1.NW_018488218v1      1850746 14 -   2295209 ----------------------tatatatatgtgtg
i aotNan1.NW_018488218v1    I 8 C 0
s otoGar3.GL873576            4553666 12 -  12054995 ----------------------AGTCTGGCTGTG--
i otoGar3.GL873576          I 1 I 111
s mm10.chr6                   2395149 12 - 149736546 ------------------------TGTGTGTTTATA
i mm10.chr6                 C 0 C 0
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e chlSab2.chr11             100758009 77 - 128539186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I
e rheMac8.chr11             104588044 45 - 133663169 I

a score=43077.000000
s hg38.chr12_GL383549v1_alt     61155 17 +    120804 TGTACAC------ACACACATAT
s panTro5.chr12              62752656 17 + 137163284 tgtACAC------ACACACATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876637 17 + 135337776 tgtACAC------ACACACATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091962 17 -  32808036 tgtACAC------ACACACATAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281855 17 +  34552619 tgtacac------acacacatat
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108987574 17 - 137757926 cacacac------acacacacac
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11376590 21 -  29834108 tacacac--atatacatatatat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830216 23 -   1015025 tacacacttatatacatacatat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850760 23 -   2295209 tacacacctatatacatacatat
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2395161 17 - 149736546 TATATAC------ACACACTTAT
i mm10.chr6                 C 0 I 183
e otoGar3.GL873576            4553678 111 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e chlSab2.chr11             100758009 77 - 128539186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I
e rheMac8.chr11             104588044 45 - 133663169 I

a score=12788.000000
s hg38.chr12_GL383549v1_alt     61172 5 +    120804 AAATA
s panTro5.chr12              62752673 5 + 137163284 AAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876654 5 + 135337776 AAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091979 5 -  32808036 AAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281872 5 +  34552619 aaata
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108987591 5 - 137757926 acaca
i macFas5.chr11             C 0 I 3
s saiBol1.JH378123           11376611 5 -  29834108 aaata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830239 5 -   1015025 aaatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850783 5 -   2295209 aaata
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4553678 111 -  12054995 I
e mm10.chr6                   2395178 183 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e manLeu1.NW_012101287v1       152135 40 +    435186 I
e chlSab2.chr11             100758009 77 - 128539186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1365331 40 -   7948249 I
e rheMac8.chr11             104588044 45 - 133663169 I

a score=2470.000000
s hg38.chr12_GL383549v1_alt     61177 1 +    120804 G
s panTro5.chr12              62752678 1 + 137163284 G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876659 1 + 135337776 G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091984 1 -  32808036 G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281877 1 +  34552619 g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588089 1 - 133663169 a
i rheMac8.chr11             I 45 C 0
s macFas5.chr11             108987599 1 - 137757926 a
i macFas5.chr11             I 3 C 0
s macNem1.NW_012011422v1      1365371 1 -   7948249 a
i macNem1.NW_012011422v1    I 40 C 0
s chlSab2.chr11             100758086 1 - 128539186 A
i chlSab2.chr11             I 77 C 0
s manLeu1.NW_012101287v1       152175 1 +    435186 a
i manLeu1.NW_012101287v1    I 40 C 0
s saiBol1.JH378123           11376616 1 -  29834108 g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830244 1 -   1015025 g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850788 1 -   2295209 g
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4553678 111 -  12054995 I
e mm10.chr6                   2395178 183 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e colAng1.NW_012114364v1      3540411 3967 +   9309688 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=78543.000000
s hg38.chr12_GL383549v1_alt     61178 14 +    120804 CACAGATATA------TATG
s panTro5.chr12              62752679 14 + 137163284 CACAGATATA------TATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876660 14 + 135337776 CACAGATATA------TATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091985 14 -  32808036 CACAGTTATA------TATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281878 14 +  34552619 cacaggtata------tatg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588090 14 - 133663169 cacaggtctg------tatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987600 14 - 137757926 cacaggtctg------tatg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365372 14 -   7948249 cacaGGTCTG------TATG
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758087 14 - 128539186 CACAGGTATG------TATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152176 14 +    435186 cacaGGTCTG------TATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544378 14 +   9309688 CACAGGTATG------TATG
i colAng1.NW_012114364v1    I 3967 C 0
s saiBol1.JH378123           11376617 20 -  29834108 tacatgtatgtatatatata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830245 14 -   1015025 cacatgtatg------tata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850789 14 -   2295209 cacaaacatg------tatg
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4553678 111 -  12054995 I
e mm10.chr6                   2395178 183 - 149736546 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=8336.000000
s hg38.chr12_GL383549v1_alt     61192 2 +    120804 TA
s panTro5.chr12              62752693 2 + 137163284 TA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876674 2 + 135337776 TA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3091999 2 -  32808036 TA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281892 2 +  34552619 ta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588104 2 - 133663169 tc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987614 2 - 137757926 tc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365386 2 -   7948249 TC
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758101 2 - 128539186 TA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152190 2 +    435186 TC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544392 2 +   9309688 TA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376637 2 -  29834108 ta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830259 2 -   1015025 ta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850803 2 -   2295209 ta
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2395361 2 - 149736546 TT
i mm10.chr6                 I 183 C 0
e otoGar3.GL873576            4553678 111 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e canFam3.chr27              19708316 235 +  45876710 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=92234.000000
s hg38.chr12_GL383549v1_alt     61194 10 +    120804 TATGTAGCTG
s panTro5.chr12              62752695 10 + 137163284 TATGTAGCTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876676 10 + 135337776 TATGTAGCTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092001 10 -  32808036 TATGTAGCTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281894 10 +  34552619 tatataGCTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588106 10 - 133663169 tatataGCTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987616 10 - 137757926 tatataGCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365388 10 -   7948249 TATATAGCTG
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758103 10 - 128539186 TACATAGCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152192 10 +    435186 TATATAACTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544394 10 +   9309688 TATATAGCTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376639 10 -  29834108 tatataGCTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830261 10 -   1015025 tatataGCTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850805 10 -   2295209 tatataGCTG
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2395363 10 - 149736546 TGTACAGCTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19708551 10 +  45876710 TGTACAGCCA
i canFam3.chr27             I 235 C 0
e otoGar3.GL873576            4553678 111 -  12054995 I
e micMur3.chr21               2992705 875 +  31815103 I
e proCoq1.NW_012140524v1      5084097 842 +  13104022 I
e dasNov3.JH562883             907655 58 -   1687904 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=2488829.000000
s hg38.chr12_GL383549v1_alt     61204 212 +    120804 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTGATGCCTTCTATATGCCATATCCTGTTTGAAGTCCTTGGTGCAGTTAGGTAATATTTTAACTTTT----T---TGTGTGATTAGAAAAATACACCCACGATATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTTA
s panTro5.chr12              62752705 212 + 137163284 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTGATGCCTTCTATATGCCATATCCTGTTTGAAGTCCTTGGTGCAGTTAGGTAATATTTTCACTTTT----T---TGTGTGATTAGAAAAATACACCCATGATATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876686 212 + 135337776 GATGTGCCACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTGATGCCTTCTATATGCCATATCCTGTTTGAAGTCCTTGGTGCAGTTAGGTAATATTTTAACTTTA----T---TGTGTGATTAGAAAAATACACCCATGATATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092011 211 -  32808036 GATGTTCTACTTAG----GCCCTCAGAAG-AAG-AAATTCAGTGATGCCTTCTATATGCCATATCCTGTTTGAAGTCCTTGGTGCAGTTAGGTAATATTTTAACTTTT----T---TGTGTGATTAGAAAAATACACCCATGATATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTT-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7281904 212 +  34552619 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTCATGCCTTCTAAATGCCATATCCTGTTTGAAGTCCTTGGTGCAGTTAGGTAATATTTTAACTTTT----T---TGTGTGATTAGAAAAATACACCCATGATATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588116 213 - 133663169 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTCCTGCCTTCTAAATGCCACATCCTGTTTGAAGTTCTTGGTGCCGTCAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTAGTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987626 213 - 137757926 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTCCTGCCTTCTAAATGCCACATCCTGTTTGAAGTTCTTGGTGCCGTCAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTAGTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365398 213 -   7948249 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTCCTGCCTTCTAAATGCCACATCCTGTTTGAAGTTCTTGGTGCCGTCAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTAGTTA
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758113 213 - 128539186 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTTGGTCCTGCCTTCTAAATGCCACATCCTATTTGAAGTTCTTGGTGCAGTTAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGAATGGATTCTATTTAGTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152202 213 +    435186 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTCGGTCCTGCCTTCTAAATGCCACATCCTGTTTGAAGTTCTTGGTGCCGTCAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCGTTTATAATTGATGGGATGGATTCTATTTAGTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544404 213 +   9309688 GATGTGCTACTTAG----GCCCTCAGAAG-AAG-AAATTTGGTCCTGCCTTCTAAATGCCACATCCTGTTTGAAGTTCTTGGTGCATTTAGGTAATATTTTAACTTTT----T--GTGTGTGATTAGAAAAATACACCCATGACATA-AATTAATCTCAAAAATAAGACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTAGTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376649 213 -  29834108 GATGTGCTACTTAG----GGCCTCAGAAGAAAA-AAATTAGGACATGCCTTCTAAATGCCACATCCTGTTTGAAGTCCTAGGTGCAGTTAGGCAATATTTTAACTTTT----C---TGTATGATTACAAAAATAGACCCATGATATA-TATTAATCTAAAAAATAAAACAAAGT-ATAAGAAC------AAATTAAATCATCTATAATTGATGGGATGGATTCTATTTGGTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830271 212 -   1015025 GATGTGCTACTTAG----GGCCTCAGAAGAAAA-AAATTAGGACATGCCTTCTAAACGCCACATCCTGTTTGAAGTCCTAGGTGCAGTTAGGCAATATTTTAACTTTT----C---TGTGTGATTACAAAAATAGACCCATGATATA-TATTAATCTAAAAAA-AAAACTAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGACGGATTCTATTTGGTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1850815 213 -   2295209 GATGTGCTACTTAG----GCCCTCAGAAGAAAA-AAATTAGGACATGCCTTCTAAATGCCGCATCCTGTTTGAAGTCCTAGGCGCAGTTAGGCAATATTTTTACTTTT----C---TATGTGATTACAAAAATAGACCCATGATATA-TATTAATCTAAAAAATAAAACAAAGT-ATAAGAAC------AAATTAAATCATTTATAATTGATGGGATGGATTCTATTTGGTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993580 217 +  31815103 GATGTGCTGTTTGG----GCCCTCAGAGG-AGA-AAATTAGGTCATGCCTTCTAAATGCCACATCCTATTTGAAGTCCTACATGGGGT-AGGTAATGTTTTCCACTTT----T--TTTTGTGATTAGAAATATATGCCCATGGTATA-AAATAATTTAGAAAATAAAATGGTAT-ATAAGAACTATTAATAATTAAGTCATCCCTAATTAATAGGATGG-TTTTATTTGGTTA
i micMur3.chr21             I 875 C 0
s proCoq1.NW_012140524v1      5084939 217 +  13104022 GATGTGCTATTTGG----GCCCTCAGAAG-AGA-AAATTAGGTCATGCCTTCTAAACGCGACATCCTATTTGAAGTCCTAGGTGGGGT-AGATAATATTTTTCACTTT----T--TTTTGTGATTAGAAAAATATACCCATGATATA-Aaataatttagaaaataaaacaatat-ataagaattattaataattaagtcattcgtaattgataaGATAG-TTTTATTTGGTTA
i proCoq1.NW_012140524v1    I 842 C 0
s otoGar3.GL873576            4553789 217 -  12054995 GCTGTGCTATTTAG----GCTCTCAGGAG-AGAGAAATTAGGTCGTGTGTTCTCAATGCCACATTCTGTTTGAAGTCCTAGGTGGGGT-AGGTAATGTTTTCCCCTTTAGTGT--GTGTGTGAGTAGAAAAGTAAACCCATGTTGTACAAATAATTTAGAAAACAAAACAACAT-ATAAGAAC------TAATTATGATATTCATAACTGGTAGAATAG-TTTTATTTGGTTA
i otoGar3.GL873576          I 111 C 0
s mm10.chr6                   2395373 200 - 149736546 -------GATTCAG----GTCATCAACAT-GGG-AAATCGGGCCATAACTTCTAAATACCATATTGCATTTGAAATTCTCAGAAGAG---GGAATTATTTTGCCTATA----T--TTTAATGGCTAGAGAAACACATTCTTGGTATA--ATAAATTTGGAAAATAGGGTAACATAATACCAAC------AAATGAAATCACTC---ATTGATGGGATGGTTTTAATTGCATTA
i mm10.chr6                 C 0 I 1023
s canFam3.chr27              19708561 209 +  45876710 AATATGCTGTTCAG----GCCCTGAAAAA-AGA-AAATTAGGTTATGCCTTCAAAATGCCACATTCTATTTGAAGTCCTAGGTAGGAT-GGGTAATGTTTTCATTTTC----TTTTTTTCTGATTAGAAAAATACACCCATGATATA------ATTTAGAAAATATAAAAATGT-ATAAGAAC------AAATTAAGTTATCCATAATTGATGGAATGGTTTGGATTTGGTTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907713 211 -   1687904 GATGCGCTATTTATTCACGTTCTCGGAAA-AGA-AAGTCAGGTCCGGCCTTCTGAATGCCACATCCTGCTTGAGACCCGTGGTGGGGT-GGGTAATGTTTTCACTCCT----T--TTG---GATCAGAAA-ATATGCCAATGATATA--ATAAATATAGAAAATATAACCATGT-GCAAGAAC------AAATTAAGACCTCTGTAATTGATGGAATAGTTTTGATTTGGCTA
i dasNov3.JH562883          I 58 C 0
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=117189.000000
s hg38.chr12_GL383549v1_alt     61416 13 +    120804 ATATATCTAAATC
s panTro5.chr12              62752917 13 + 137163284 ATATATCTAAATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876898 13 + 135337776 ATATATCTAAATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092222  4 -  32808036 ---------AATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282116 13 +  34552619 ATATATCTAAATC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588329 13 - 133663169 AAATATCTAAATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987839 13 - 137757926 AAATATCTAAATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365611 13 -   7948249 AAATATCTAAATC
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758326 13 - 128539186 ATATATCTAAATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152415 13 +    435186 AAATATCTAAATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544617 13 +   9309688 GTATCTCTAAATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376862 13 -  29834108 ATATATTTAAATC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830483 13 -   1015025 ATATATTTAAATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851028 13 -   2295209 ATATAGTTAAATC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993797 13 +  31815103 ATATATCTAAATA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5085156 13 +  13104022 ATATATCTAAATA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4554006 10 -  12054995 ATATTCCTTA---
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19708770 13 +  45876710 ATATATCTAAATA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907924 13 -   1687904 ACATGTCTTAATA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2395573 1023 - 149736546 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=1656680.000000
s hg38.chr12_GL383549v1_alt     61429 131 +    120804 TAAG-ACAATTACAAGACTTCAATGCTATACAAATGTTTTTAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGAAAAGGGAC--TGAATGTGAGAGTTCCAGAGAGCCTGATAT
s panTro5.chr12              62752930 131 + 137163284 TAAG-ACAATTACAAGACTTCAATGCTATACAAATGTTTTTAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGACAAGGGAC--TGAATGTGAGAGTTCCAGAGAGCCTGATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60876911 131 + 135337776 TAAG-ACAATTACAAGACTTCAATGCTATACAAATGTTTTTAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGACAAGGGAC--TGAATGTGAGAGTTCCAGAGAGCCTGATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092226 131 -  32808036 TAAG-ACAATTACAAGACTTCAATGCTATACAAATGTTTTTAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGGCAAGGGAC--TGAAAGTGAGAGTTCCAGAGAGCCTGATAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282129 131 +  34552619 TAAG-ACAATTACAAGACTTCAATTCTATACAAATGTTTTTAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGACC-CCTCAAGGCAAGGGAC--TGAATGTGAGAGTTCCAGAGAGCCTGATAT
i nomLeu3.chr23             C 0 I 110
s rheMac8.chr11             104588342 131 - 133663169 TAAG-ACAATTACAAGACTTCAATTCTATACAAATATTTTCAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTCC-AGGCC-TCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGCCTAATAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987852 131 - 137757926 TAAG-ACAATTACAAGACTTCAATTCTATACAAATATTTTCAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTCC-AGGCC-TCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGCCTAATAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365624 131 -   7948249 TAAG-ACAATTACAAGACTTCAATTCTATACAAATATTTTCAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTCC-AGGCC-TCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGCCTAATAT
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758339 131 - 128539186 TAAG-ACAATAACAAGACTTCAATTCTATACAAATGTTTTCAGCATAGAACCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGCCTAATAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152428 131 +    435186 TAAG-ACAATTACAAGACTTCAATTCTATACAAATATTTTCAGTATAGAACCAAATTCAAATTATTCTAGGCTGACTCTCC-AGGCC-TCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGCCTAACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544630 131 +   9309688 TAAG-ACAATTACAAGACTTCAATTCTATACAAATGTTTTCAGTATAGAGCCAAATTCAAATTATTCTAGGCTGACTCTTC-AGGCC-CCTCAAGGCAAGAGAC--TGAATATGAGAGCTCCAGAGAGCTTAGTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11376875 131 -  29834108 TAAG-ACAATCACAAGCCTTCAATTCTATACAAATATTTTCAGTATAGAACTAAATTCAAAATATTCTAGGTTGACTCTTC-AAGCC-CCTCAAGGCAAGAGAC--TGAATGTCAGAGCTCCAGAGAGTCTGATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830496 131 -   1015025 TAAG-ACAATCACAAGCTTTCAATGCTATACAAATATTTTCAGTATAGAACTAAATTCAAATTATTCTAGGTTGACTCTTC-AGGCC-CCTCAAGGCAAGAGAC--TGAATGTCAGAGCTCCAGAGAGTCTGATAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851041 131 -   2295209 TAAG-ACAATCACAAGCCTTCAATTCTATACAAATATTTTCAGTTTAGAACTAAATTCAAATTATTCTAGGTTGACTCTTC-AGGCC-CCTCAAGGCAAGAGAC--TGAATGTGAGAGCTCCAGAGAGTCTGATAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993810 132 +  31815103 CCAG-AAAATCATAAGACTTTAATTTGACACGAATGTTTTCCATATAGAACCAAATTAAAATTCCTCTAGGCTGGCTCTTC-AGGCCTCCCCAAGGCAAGAGAC--AGGATGTAAGAGTTCAAGAGAGCCTGATAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5085169 131 +  13104022 CAAG-AAAATCGCAAGACTTTAATTCAACTCAAATGTTTTCTATATAGAACCAAATTCAAATTCCTCTAGGCTGGCTCTTC-GGGCC-CCCCAAGGCAAGAGAC--AGGATGTAGGAGCTCAAGAGAGCCTGATAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4554016 131 -  12054995 --AG-AAAATCACAAGACTTGAATTCTACACAAATGTTTTCAGTAGAGAACCAAATTCAGATTCCTCTAGGCTGGCTCTTCAGGGCCCCCCCAAGTTAAGAAAT--TGGATGTAAGAGCTCAAGAGAGCCTGATAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396596 118 - 149736546 TAAA-TAAATCACAAAATTTTAATTCTGTGC-AATGTTTCCAGTAGCAAACCAAGTCCAGATTCCTCTAGATTGGATCTGA-ATATG-------------AGTC--CAGATGTGAGAGTTCAAGAGAGTCCTGTTC
i mm10.chr6                 I 1023 C 0
s canFam3.chr27              19708783 129 +  45876710 TAAGAAAAATCACAAGGCCATAGTTCTACACAAATGTTTTTAGTATGGAACCACACTCAAATC-CCCTAGGCTGTCTATTT-AAGTC-CACCAAGGCAAGAAAC----GATGGGAGAGCCCCTAAGAGCCCAATAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             907937 133 -   1687904 CAAG-AAAATCACAAGACTTTTAGCCTCCACCAATGTTTTCAATATATAGTCAAACTCAAGGTCCTCCAGGCTGGCTCTTC-AAGTC-CACCAAGGCAAGAGACACTGAACGTGAGAGCTCCTCAGAGCCTGGTAC
i dasNov3.JH562883          C 0 C 0
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=100567.000000
s hg38.chr12_GL383549v1_alt     61560 6 +    120804 CAGAAA
s panTro5.chr12              62753061 6 + 137163284 CAGAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877042 6 + 135337776 CAGAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092357 6 -  32808036 CAGAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282370 6 +  34552619 CAGAAA
i nomLeu3.chr23             I 110 C 0
s rheMac8.chr11             104588473 6 - 133663169 CAGAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987983 6 - 137757926 CAGAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365755 6 -   7948249 CAGAAA
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758470 6 - 128539186 CAGAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152559 6 +    435186 CAGAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544761 6 +   9309688 CAGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377006 6 -  29834108 CAGAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830627 6 -   1015025 CAGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851172 6 -   2295209 CAGAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993942 6 +  31815103 CAGAAA
i micMur3.chr21             C 0 I 22
s proCoq1.NW_012140524v1      5085300 6 +  13104022 CAGAAA
i proCoq1.NW_012140524v1    C 0 I 43
s otoGar3.GL873576            4554147 6 -  12054995 CAGAAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396714 6 - 149736546 CACAAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19708912 6 +  45876710 CAGAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908070 6 -   1687904 CAGGAA
i dasNov3.JH562883          C 0 C 0
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=39633.000000
s hg38.chr12_GL383549v1_alt     61566 6 +    120804 TATTAT
s panTro5.chr12              62753067 6 + 137163284 TATTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877048 6 + 135337776 TATTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092363 6 -  32808036 TATTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282376 6 +  34552619 TATTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588479 6 - 133663169 TATTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987989 6 - 137757926 TATTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365761 6 -   7948249 TATTAC
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758476 6 - 128539186 TATTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152565 6 +    435186 TATTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544767 6 +   9309688 TATCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377012 6 -  29834108 TATTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830633 6 -   1015025 TATTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851178 6 -   2295209 TATTAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554153 6 -  12054995 CATAAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396720 6 - 149736546 CAGTAT
i mm10.chr6                 C 0 I 13
s canFam3.chr27              19708918 6 +  45876710 Cataat
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908076 4 -   1687904 CAGA--
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2993948 22 +  31815103 I
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=12376.000000
s hg38.chr12_GL383549v1_alt     61572 1 +    120804 A
s panTro5.chr12              62753073 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877054 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092369 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282382 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588485 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987995 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365767 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758482 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152571 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544773 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377018 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830639 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851184 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554159 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19708924 1 +  45876710 a
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908080 1 -   1687904 A
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=83250.000000
s hg38.chr12_GL383549v1_alt     61573 11 +    120804 CAGTCTT-gcaa
s panTro5.chr12              62753074 11 + 137163284 CAGTCTT-gcaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877055 11 + 135337776 CAGTCTT-gcaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092370 11 -  32808036 CAGTCTT-gcaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282383 12 +  34552619 cagtcttggcaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588486 12 - 133663169 cagtcttggcaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108987996 12 - 137757926 cagtcttggcaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365768 12 -   7948249 cagtcttggcaa
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758483 12 - 128539186 cagtcttggcaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152572 12 +    435186 cagtcttggcaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544774 12 +   9309688 cagtcttggcaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377019 12 -  29834108 cagtcttggcaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830640 12 -   1015025 cagtcttggcaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851185 12 -   2295209 cagtcttggcaa
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             908081 11 -   1687904 CAGTCGTGGAA-
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=1344596.000000
s hg38.chr12_GL383549v1_alt     61584 190 +    120804 catggcagcacctcgtctctac---aatacaaa--ac-aaaaaaaatagccgagcatggtgatgtgtgcctgtagtctcagctacttgggaggctg-----------------------aggtgggaggatcacctgagcctggggaggtcaaggctgcagtgagccatgattgtgccactgtactcagcctgggtgacagaatgagacccCAGAAAAA
s panTro5.chr12              62753085 191 + 137163284 catggcagaacctcgtctctac---aatacaaa--acaaaaaaaaatagccgagcatggtgatgtgtgcctgtagtcccagctacttgggaggctg-----------------------aggtgggaggatcacctgagcctggggaggtcaaggctgcagtgagccatgattgtgccactgtactcagcctgggtgacagaatgagacccCAGAAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877066 190 + 135337776 catggcagaacctcgtctctac---aatacaaa--ac-aaaaaaaatagccaagcatggtgatgtgtgcctgtagtcccagctacttgggaggctg-----------------------aggtgggaggatcacctgagcctggggaggtcaaggctgcagtgagccatgattgtgccactgtactcagcctgggtgacagaatgagacccCAGAAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092381 190 -  32808036 catggcagaacctcgtctctac---aatacaaa--ac-aaaaaaaatagccgagcatggtgatgtgtgcctgtagtcccagctacttgggaggctg-----------------------aggtgggaggatcacctgagcctggggaggtcaaggctgcagtgagccatgattgtgccactgtactcagactgggcgacagaatgagacccCAGAAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282395 185 +  34552619 catggcagaacctcatctc--------tacaaa--aa-aaaaaatatagccgagcatggtgatgtgtgcctgtagtcccagctacttgggaggctg-----------------------aggtgggaggatcacctgagcctggggaggtcgaggctgcagtgagccatgattgtgtcactgtactcagcctgggtgacagaatgagaccctggaaaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588498 216 - 133663169 catggcaaaacctcgtctctacaaaaaaaaaaa--aa-aaaaaaaatagccaagcacggtgatgtgtgcctgtagtcccagctacttgggaggctgaggtgggatgatcagctgagctgaggtgggaggatcacctgagcctggagaggttgaggctgcagtgagtcatgatcatgccactgtactcagcctggctgacagaatgagactctgGAAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988008 216 - 137757926 catggcaaaacctcgtctctacaaaaaaaaaaa--aa-aaaaaaaatagccaagcacggtgatgtgtgcctgtagtcccagctacttgggaggctgaggtgggatgatcagctgagctgaggtgggaggatcacctgagcctggagaggttgaggctgcagtgagtcatgatcatgccactgtactcagcctggctgacagaatgagactctgGAAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365780 212 -   7948249 catggcaaaacctcgtctctac----caaaaaa--aa-aaaaaaaatagccaagcacggtgatgtgtgcctgtagtcccagctacttgggaggctgaggtgggatgatcagctgagctgaggtgggaggatcacctgagcctggagaggttgaggctgcagtgagtcatgatcatgccactgtactcagcctggctgacagaatgagactctgGAAAAA
i macNem1.NW_012011422v1    C 0 C 0
s chlSab2.chr11             100758495 216 - 128539186 catggcaaaaccttgtctctacaaaaaaaaaaa--aa-aaaaaaaatagccaagcatggtgatgtctgcctgtagccccagctacttgggaggctgaggtgggaggatcagctgagctgaggtgggaggatcacttgagcctggagaggtcgaggctgcagtgagtcatgatcatgccactgtactcagcctggctgacagaatgagactctgGAAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152584 213 +    435186 catggcaaaacttcgtctctaaaaaaaaaaaaa--aa-aaaaaa---agccaagcacggtgatgtgtgcctgtagtcccagctacttgggaggctgaggtgggatgatcagctgagctaaggtgggaggatcacctgagcctggagaggttgaggctgcagtgagtcatgatcatgccactgtacccagcctggctgacagaatgagactctgGAAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3544786 211 +   9309688 catggaaaaacctcatctctac-----aaaaaa--ag-aaaaaaaatagccaagcacggtgatgtgtgcctgtagtcccagctacttgggaggctgaggtgggaggatcagctgagctgaggtgggaggatcacctgagcctggagaggtcgaggctgcagtgagtcatgatcatgccactgtactcagcctggctgacagaatgagactctggaaaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377031 192 -  29834108 catggcaaaacctcatctctgc---aaaacaaaacaa-aacaaaaacagccaagcacgggaatatgtgcctgtagtcccagctacttgggaggctg-----------------------aagtgggaggatcacctgagcctgatgaggtcgaggctgcagtgaaccatgattgtgtcagtgtattcagcctgggtgacagaatgagaccccagaaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830652 189 -   1015025 catggcaaaacctcatctctac---aaaacaa---aa-aacaaaaacagccaagcatggggatatgtgcctgtagtcccagctacttgggaggctg-----------------------aagtgggaggatcacctgagcctgatgaggtcgaggctgcagtgaaccatgattgtgtcagtgtattcagcctgggtgacagaatgagacccCAGAATga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851197 192 -   2295209 catggcaaaacctcatctctac---aaaacaaaacaa-aacaaaaacagccaagcatggggatatgtgcctgtagtcccagctacttgggaggctg-----------------------aagtgggaggatcacctgagcctggggaggtcgaggctgcagtgaaccatgattgtgccagtgtgttcagcctgggttacagaatgagaccccagaaaaa
i aotNan1.NW_018488218v1    C 0 I 87
e otoGar3.GL873576            4554160   0 -  12054995 C
e mm10.chr6                   2396726  13 - 149736546 I
e micMur3.chr21               2993948  22 +  31815103 I
e canFam3.chr27              19708925   0 +  45876710 C
e proCoq1.NW_012140524v1      5085306  43 +  13104022 I
e dasNov3.JH562883             908092   0 -   1687904 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=47335.000000
s hg38.chr12_GL383549v1_alt     61774 17 +    120804 TGAGTgagagag-agaga
s panTro5.chr12              62753276 17 + 137163284 Tgagagagagag-agaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877256 17 + 135337776 Tgagagagagag-agaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092571 17 -  32808036 Tgagagagagag-ggaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282580 17 +  34552619 tgagagagagag-agaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588714  4 - 133663169 TGAG--------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988224 17 - 137757926 TGAGAGAGAGAG-AGaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1365992 17 -   7948249 Tgagagagagag-agaga
i macNem1.NW_012011422v1    C 0 I 257
s chlSab2.chr11             100758711  9 - 128539186 Tgagagaga---------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       152797 17 +    435186 Tgagagagagag-agaga
i manLeu1.NW_012101287v1    C 0 I 266
s colAng1.NW_012114364v1      3544997 17 +   9309688 tgagagaaagaa-agaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377223 13 -  29834108 -gagagagagagaa----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830841 12 -   1015025 -gagagagagag-a----
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e aotNan1.NW_018488218v1      1851389 87 -   2295209 I
e dasNov3.JH562883             908092  0 -   1687904 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I

a score=44660.000000
s hg38.chr12_GL383549v1_alt     61791 32 +    120804 gagac-----------------------agagagagagagagagagagaAAGAA-------------------------------------A
s panTro5.chr12              62753293 38 + 137163284 gagacagacag-----------------agagagagagagagagagagaAAGAA-------------------------------------a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877273 44 + 135337776 gagagagacaga-----------gagacagagagagagagagagagagaAAGAA-------------------------------------a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092588 68 -  32808036 gagaaagaaagaaaaagagggagggaaggaagggagagagagaaaaagaaagaAAATggaagga------------------------agga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282597 92 +  34552619 gaaagaaaaggagggaaggaaggaagggagagagagaaaaagaaaaagaaagaaagaggaaggaaggcaggaaggcaggaaggcaggcagga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588718 31 - 133663169 ------------------------AGAGAGAGAGagaaagaaagaaagaaagaa-------------------------------------a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988241 18 - 137757926 -------------------------------------aagaaagaaagaaagaa-------------------------------------a
i macFas5.chr11             C 0 C 0
s chlSab2.chr11             100758720 32 - 128539186 -----------------------gagagagagagagagagagagaAAGAAATAA-------------------------------------A
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3545014 32 +   9309688 -----------------------gaaagaaagaaagaaagaaagaaagaaagaa-------------------------------------a
i colAng1.NW_012114364v1    C 0 I 23
s saiBol1.JH378123           11377236 32 -  29834108 -----------------------gaaaagaaggaagggggaaggaaggaaggag-------------------------------------g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830853 32 -   1015025 -----------------------gagagagagagagagagagagagagaAGAaa-------------------------------------g
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e aotNan1.NW_018488218v1      1851389 87 -   2295209 I
e dasNov3.JH562883             908092  0 -   1687904 C
e manLeu1.NW_012101287v1       152814 266 +    435186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=51269.000000
s hg38.chr12_GL383549v1_alt     61823 22 +    120804 ----------AAGGGggaaggaaggaagggag
s panTro5.chr12              62753331 22 + 137163284 ----------aagagggagggaaggaagggag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877317 22 + 135337776 ----------aagagggagggaaggaagggag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092656 22 -  32808036 ----------aggaaggaaggaaggaaggaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282689 22 +  34552619 ----------aggaaggaaggaagaaaggaag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588749 17 - 133663169 ---------------gaaagaaagaaagaaag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988259 17 - 137757926 ---------------gaaagaaagaaagaaag
i macFas5.chr11             C 0 C 0
s chlSab2.chr11             100758752 22 - 128539186 ----------AGGAGGGAGGGAAGGAAGGGAG
i chlSab2.chr11             C 0 C 0
s saiBol1.JH378123           11377268 32 -  29834108 gaaggaagggaggaaggaaggaaagaaagaag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830885 32 -   1015025 gagggaaggagcgaaggagggaaggaaggaag
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e aotNan1.NW_018488218v1      1851389 87 -   2295209 I
e dasNov3.JH562883             908092  0 -   1687904 C
e colAng1.NW_012114364v1      3545046 23 +   9309688 I
e manLeu1.NW_012101287v1       152814 266 +    435186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=65533.000000
s hg38.chr12_GL383549v1_alt     61845 23 +    120804 agagagaaaaag-aaagaaagaaa--
s panTro5.chr12              62753353 23 + 137163284 agagagaaaaag-aaagaaagaaa--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877339 23 + 135337776 agagagaaaaag-aaagaaagaaa--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092678 23 -  32808036 gaaggaaggaag-gaaggaaggaa--
i gorGor5.CYUI01000003v1    C 0 I 2
s nomLeu3.chr23               7282711 23 +  34552619 gaaggaaggaag-gaaggaaggaa--
i nomLeu3.chr23             C 0 I 2
s rheMac8.chr11             104588766 24 - 133663169 aaagaaagaaagaaaagaaagaaa--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988276 23 - 137757926 aaagaaagaaag-aaagaaagaaa--
i macFas5.chr11             C 0 C 0
s chlSab2.chr11             100758774 23 - 128539186 AGAGAGAAaaag-aaagaaagaaa--
i chlSab2.chr11             C 0 T 6776
s colAng1.NW_012114364v1      3545069 23 +   9309688 agaaagaaagag-aaagaaagaaa--
i colAng1.NW_012114364v1    I 23 C 0
s saiBol1.JH378123           11377300 25 -  29834108 aaaaggagggag-ggagggagagagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830917 25 -   1015025 gaagggaagaag-ggaggaagagaga
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e aotNan1.NW_018488218v1      1851389 87 -   2295209 I
e dasNov3.JH562883             908092  0 -   1687904 C
e manLeu1.NW_012101287v1       152814 266 +    435186 I
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=431.000000
s hg38.chr12_GL383549v1_alt     61868 2 +    120804 at
s panTro5.chr12              62753376 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877362 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092703 2 -  32808036 aa
i gorGor5.CYUI01000003v1    I 2 C 0
s nomLeu3.chr23               7282736 2 +  34552619 aa
i nomLeu3.chr23             I 2 C 0
s colAng1.NW_012114364v1      3545092 2 +   9309688 ga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377325 2 -  29834108 ga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       830942 2 -   1015025 aa
i cebCap1.NW_016107911v1    C 0 C 0
e otoGar3.GL873576            4554160 0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925 0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e aotNan1.NW_018488218v1      1851389 87 -   2295209 I
e dasNov3.JH562883             908092 0 -   1687904 C
e manLeu1.NW_012101287v1       152814 266 +    435186 I
e chlSab2.chr11             100758797 6776 - 128539186 T
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I
e macFas5.chr11             108988299 0 - 137757926 C
e rheMac8.chr11             104588790 0 - 133663169 C

a score=38948.000000
s hg38.chr12_GL383549v1_alt     61870 38 +    120804 ggaaggaaggaaggaagggagcaagggaggaa-------------------------------------ggaaag-
s panTro5.chr12              62753378 38 + 137163284 ggaaggaaggaaggaagggagcaagggaggaa-------------------------------------gagagg-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877364 38 + 135337776 ggaaggaaggaaggaagggagcaagggaggaa-------------------------------------gagaag-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092705 38 -  32808036 ggaaggaaggaaggaagggagggagggaggaa-------------------------------------ggaagg-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282738 51 +  34552619 ggaaggaaggaaggaaggaaggaaggaaggaagaaagga------------------------agaaagggaagg-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588790 13 - 133663169 ----gaaagaaagaaag-----------------------------------------------------------
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             108988299 13 - 137757926 ----gaaagaaagaaag-----------------------------------------------------------
i macFas5.chr11             C 0 I 1
s colAng1.NW_012114364v1      3545094 34 +   9309688 gaaagaaagaaagaaagagaaagaaagagcaaga------------------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377327 76 -  29834108 ggaaggaagggaggaagggaggaagggagggacagagggacagagggactgagggaggaaggaaggatgagaaggg
i saiBol1.JH378123          C 0 I 16
s cebCap1.NW_016107911v1       830944 44 -   1015025 gggaggaagggaggaagggagggagggaggg--------------------------------aggataagaaggg
i cebCap1.NW_016107911v1    C 0 I 15
s aotNan1.NW_018488218v1      1851476 34 -   2295209 ----ggaaggaaggaaggaaagaaggaagga--------------------------------------agaaagg
i aotNan1.NW_018488218v1    I 87 I 5
e otoGar3.GL873576            4554160  0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925  0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e dasNov3.JH562883             908092  0 -   1687904 C
e manLeu1.NW_012101287v1       152814 266 +    435186 I
e chlSab2.chr11             100758797 6776 - 128539186 T
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=-2394.000000
s hg38.chr12_GL383549v1_alt     61908 4 +    120804 -aagg
s panTro5.chr12              62753416 4 + 137163284 -aagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877402 4 + 135337776 -aagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092743 4 -  32808036 -aagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282789 4 +  34552619 -aagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588804 3 - 133663169 -aag-
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             108988313 3 - 137757926 -aag-
i macFas5.chr11             I 1 C 0
s chlSab2.chr11             100752021 3 - 128539186 -aag-
i chlSab2.chr11             T 6776 I 1
s manLeu1.NW_012101287v1       153080 3 +    435186 -aag-
i manLeu1.NW_012101287v1    I 266 I 1
s colAng1.NW_012114364v1      3545128 3 +   9309688 -aag-
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11377419 4 -  29834108 gaga-
i saiBol1.JH378123          I 16 C 0
s cebCap1.NW_016107911v1       831003 4 -   1015025 gaga-
i cebCap1.NW_016107911v1    I 15 C 0
s aotNan1.NW_018488218v1      1851515 4 -   2295209 GAGA-
i aotNan1.NW_018488218v1    I 5 C 0
e otoGar3.GL873576            4554160 0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925 0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e dasNov3.JH562883             908092 0 -   1687904 C
e cerAty1.NW_011999477v1      8265978 894 -  10730278 I
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=4282.000000
s hg38.chr12_GL383549v1_alt     61912 1 +    120804 a
s panTro5.chr12              62753420 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877406 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092747 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282793 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588807 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988316 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8266872 1 -  10730278 a
i cerAty1.NW_011999477v1    I 894 C 0
s chlSab2.chr11             100752025 1 - 128539186 a
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       153084 1 +    435186 a
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3545132 1 +   9309688 a
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11377423 1 -  29834108 g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831007 1 -   1015025 g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851519 1 -   2295209 G
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4554160 0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925 0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e dasNov3.JH562883             908092 0 -   1687904 C
e macNem1.NW_012011422v1      1366009 257 -   7948249 I

a score=46732.000000
s hg38.chr12_GL383549v1_alt     61913 6 +    120804 aTTATT
s panTro5.chr12              62753421 6 + 137163284 attata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877407 6 + 135337776 attata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092748 6 -  32808036 aTTATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282794 6 +  34552619 attata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588808 5 - 133663169 -ttata
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988317 5 - 137757926 -TTGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366266 6 -   7948249 attata
i macNem1.NW_012011422v1    I 257 C 0
s cerAty1.NW_011999477v1      8266873 6 -  10730278 attata
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752026 6 - 128539186 attata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153085 6 +    435186 attata
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545133 6 +   9309688 aTTATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377424 6 -  29834108 ATTGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831008 6 -   1015025 aTTGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851520 6 -   2295209 ATTATA
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4554160 0 -  12054995 C
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e canFam3.chr27              19708925 0 +  45876710 C
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e dasNov3.JH562883             908092 0 -   1687904 C

a score=72656.000000
s hg38.chr12_GL383549v1_alt     61919 6 +    120804 TTCACT
s panTro5.chr12              62753427 6 + 137163284 ttcact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877413 6 + 135337776 ttcact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092754 6 -  32808036 TTCACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282800 6 +  34552619 ttcact
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588813 6 - 133663169 ttcact
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988322 6 - 137757926 TTCACT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366272 6 -   7948249 ttcact
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8266879 6 -  10730278 ttcact
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752032 6 - 128539186 ttcact
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153091 6 +    435186 ttcact
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545139 6 +   9309688 TTCACT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377430 6 -  29834108 TTCACT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831014 6 -   1015025 TTCACT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851526 6 -   2295209 TTCGCT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554160 6 -  12054995 TTCACT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19708925 6 +  45876710 ttcatt
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I
e dasNov3.JH562883             908092 0 -   1687904 C

a score=62881.000000
s hg38.chr12_GL383549v1_alt     61925 6 +    120804 TAATTA
s panTro5.chr12              62753433 6 + 137163284 taatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877419 6 + 135337776 taatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092760 6 -  32808036 CAATTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282806 6 +  34552619 taatta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588819 6 - 133663169 taatta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988328 6 - 137757926 TAATTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366278 6 -   7948249 taatta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8266885 6 -  10730278 taatta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752038 6 - 128539186 taatta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153097 6 +    435186 taatta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545145 6 +   9309688 TAATTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377436 6 -  29834108 TAACTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831020 6 -   1015025 TAACTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851532 6 -   2295209 TAACTG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554166 6 -  12054995 TAACAA
i otoGar3.GL873576          C 0 I 3
s canFam3.chr27              19708931 6 +  45876710 taataa
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908092 6 -   1687904 TAACTA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2396726 13 - 149736546 I
e micMur3.chr21               2993948 22 +  31815103 I
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I

a score=13365.000000
s hg38.chr12_GL383549v1_alt     61931 1 +    120804 T
s panTro5.chr12              62753439 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877425 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092766 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282812 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588825 1 - 133663169 t
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988334 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366284 1 -   7948249 t
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8266891 1 -  10730278 t
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752044 1 - 128539186 t
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153103 1 +    435186 t
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545151 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377442 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831026 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851538 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993970 1 +  31815103 T
i micMur3.chr21             I 22 C 0
s otoGar3.GL873576            4554175 1 -  12054995 T
i otoGar3.GL873576          I 3 C 0
s canFam3.chr27              19708937 1 +  45876710 t
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908098 1 -   1687904 C
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2396726 13 - 149736546 I
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I

a score=260588.000000
s hg38.chr12_GL383549v1_alt     61932 20 +    120804 TTGATTAATTAATCTTGTAT
s panTro5.chr12              62753440 20 + 137163284 ttgattaattaatCTTGTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877426 20 + 135337776 ttgattaattaatCTTGTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092767 20 -  32808036 TTGATTAATTAGTCTTGTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282813 20 +  34552619 ttgattaattaatCTTGTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588826 20 - 133663169 ttgattaattaatCTTGCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988335 20 - 137757926 TTGATTAATTAATCTTGCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366285 20 -   7948249 ttgattaattaatCTTGCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8266892 20 -  10730278 ttgattaattaatCTTGCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752045 20 - 128539186 ttgattaattaatCTTGCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153104 20 +    435186 ttgattaattaatCTTGCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545152 20 +   9309688 TTGATTAATCTATCTTGCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377443 20 -  29834108 TTGATTAATTAACCTTGTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831027 20 -   1015025 TTGATTAATTAACCTTGTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851539 20 -   2295209 TTGATTAATTAATCTTGTAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993971 20 +  31815103 TTGATTAATTAATCTCACAT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4554176 20 -  12054995 TTGATTAATTAATTTCACAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396739 20 - 149736546 TTAATTAATCTGTCTTACCT
i mm10.chr6                 I 13 C 0
s canFam3.chr27              19708938 19 +  45876710 -aatttgattaatattaCCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908099 20 -   1687904 TTGATTAATTAATAGTACCT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5085306 43 +  13104022 I

a score=3008571.000000
s hg38.chr12_GL383549v1_alt     61952 214 +    120804 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCTGTGGAAACCAGCCCAGCCTGACAACTGTCGCCAGGCCTCCTCTGCATTTCTCATCTCATCATTATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
s panTro5.chr12              62753460 214 + 137163284 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCTGTGGAAACCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTTCTCATCTCATCATTATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877446 214 + 135337776 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCTGTGGAAACCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTTCTCATCTCATCATTATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3092787 214 -  32808036 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCTGTGGAAACCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTTCTCATCTCATCATTATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7282833 214 +  34552619 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCTGTGGAAACCAGCCCAGCCTAATAACTGTCGCCAGGCCTCCTCTGCATTTTTCATCTCATCATTATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104588846 213 - 133663169 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCCTGAT-GAAAGGCTGATACAAATGAGGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGACGTGGGAGGGAAGTGGATTCatttattca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988355 213 - 137757926 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCCTGAT-GAAAGGCTGATACAAATGAGGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGACGTGGGAGGGAAGTGGATTCatttattca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366305 213 -   7948249 AATTTGATCCCTGGC-----AGAAGAGGCAAAATAACAATGTTCCTGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGACGTGGGAGGGAAGTGGATTCatttattca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8266912 213 -  10730278 AATTTGATCCTTGGC-----AGAAGAGGCAAAATAACAATGTTCCTGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGACGTGGGAGGGAAGTGGATTCatttattca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752065 213 - 128539186 AATTTGATCCCTGGC-----AGAAGAGGCGAAATAACCATGTTCCTGAT-GAAAGGCTGATACAAATGAAGCAGCAGTGGTAATTAGTTGTCCCTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGTCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGATGTGGGAGGGAAGTGGATTCatttattca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153124 213 +    435186 AATTTGATCCTTGGC-----AGAAGAGGCAAAATAACAATGTTCCTGAT-GACAGGCTGATACACATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGACGTGGGAGGGAAGTGGATTCatttattca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545172 213 +   9309688 AATTTGATCCCTGGC-----AGAAGAGGAAAAATAACAATGTTCATGGT-GAAAGGTTGATACAAATGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAAGCAGCCCAGCCTAACAACTGTCGCCAGGCCTCCTCTGCATTT-TCATCTCATCATGATAGGAGCAGATGTGGGAGGGAAGTGAATTCatttattca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377463 213 -  29834108 AATTTGATTCCTGGC-----AGAAGAAGGAAAATAACAATGTTCATGGG-GAAAGGCTGATACAAGCGAAGTCGCAGTGGCAATCAGTTGTCCTTTCTGCAGCTG--------AAGAGAATGCCAGTGGAAACC-GCCCAGCCTAACAACTGTTGCCAGGCCTCCTCTGCATTTTTTAGCTCATTGTCATAGGAGGAGATGTGGGACGGAGGTGGATTCatttattca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831047 214 -   1015025 AATTTGATTCCTGGC-----AGAAGAAGCAAAATAACAATGTTCATGAT-GAAAGGCTAATTCAAGTGAAGTAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAACACCAGTGGAAACCGGCCCAGCCTAACAACTGTTGCCAGGCCTCCTCTGCATTTTTTATCTCATTATCATAGGAGGAGATGTGGGAGGGAGGTGGATTCatttattca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851559 213 -   2295209 AATTTGATTCCTGGC-----AGAAGAAGCAAAATAACAATGTTCATGAT-GAAAGGCTGATACAGGTGAAGCAGCAGTGGCAATTAGTTGTCCTTTCTGCAGCTG--------AAGAGAACACCAGTGGAAACCGGCCCAGCCTAGCAACTGTTGCCAGGCCTCCTCTGCA-TTTTTAGCTCATTATCATAGGAGGAGATGTGGGAGGGAGGTGGATTCatttattca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2993991 208 +  31815103 AATTTGATCCCTGGC-----AAAAGAGGCAAAGTAACAGTATTCATGAT-GGAAGGTTGACAGAAATCAAGCAATGGCGGCAATTAGTTGTCCTTTCTGTAGCTG--------GAGAGAATGCCAGGGGAAGCCAGCCCAACCTAACAACTGTTGCCAGGCTGCCTCTGTGTTTTTCATCTTAT------AGGAGGTGATGTGGGACGGAGATGGATTCGtttattca
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5085349 208 +  13104022 AATTTGATCCCTGGC-----AAAAGAGGCAAAATAACAGTATTCATGAT-GAAAGGTTGATAGAAATCAAGCAATGGGGTCAATTAGTTGTCCTTTCTGCAGCTG--------GAGAGAATGCCGGGGGAAGCCGGCCCAGTCTAACAACTGTTGCCAGGCTTCCTCTGTGTTTTTCATCGTAT------AGGAAGTGACGTGGGACAGAGATGGATTCatttattca
i proCoq1.NW_012140524v1    I 43 C 0
s otoGar3.GL873576            4554196 220 -  12054995 CACTTGACCCCAGGC-----AAATGAGGCAAA-TAACAGTATTTGTGTT-GAAAGGTTGACAGAAATCAGGCAATGGGGGCAATTAATTGTCCTACCTGCATCTGAAGAGAACAAGAGAACGCCAGCACAAGCCAGCCCAGCCTACCAACTGTTGCCAGGCCTCCTCTGCA-TTTTCGTCTTATAATCACAGGAGGAGATGTGGGACTGAGATGGATTCatttattca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396759 203 - 149736546 GATTTTATCCCTGGCAAAAAAAAAGAGGTTAAATGACAATGTTTATGAGAGATAGGC--ATATACAGCAAGCAATGGTGGCAAACAATTACCTGTTCTTC-GTTG--------TTGAGAATGCCC-CAGAGGCCAGCTCAG-CTGGCAAGAGATACCAGACTC------------TACTCTTGTCTCCATAGGAAGGCATGTGTGACTGGGATGGattcatttttcaa
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19708957 209 +  45876710 AATTTGATCCCTGGC-----CACAGAGGCAATATGACAGTTTTCATGAT-GAAAGGCTGACATAAATCTAGCAGCAGTGGCAATTAGTTATCCTTTCTTCAGCGG--------AAGAGGTTGCCAGTGGAAGCCAGCCTAGCCTAACAATTGTTGCCAGGC-----CTGCATTTTTCATCTCATAATCGTAAGAAGAGATGTGTGACTGAGATGGATTCattcatcca
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908119 183 -   1687904 AATTTGATCCCTGAC-----AAAAGGAGCAAAATAGCAAAATTCATCAT-GAAAGGCAGATATGAATCAAGCGGTGGTGGCAATTGGTTGTCCCTTCTGCAGCTA--------GAGGGAATGCCAATGGACACCAG--------------------------TCCCCTGAGTC--TTGTCTCATGATCATAAGA---GATGTGTGACGAAGATGGGCTCATTCACCCA
i dasNov3.JH562883          C 0 I 108

a score=1989920.000000
s hg38.chr12_GL383549v1_alt     62166 132 +    120804 cc-caacaaatgtttattgagtgcctacta-----t------a------ggcctggcaagtcttctaggtactgg----ttagcattgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCCGAGG-ACCAAAG
s panTro5.chr12              62753674 132 + 137163284 cc-caacaaatgtttattgagtgcctacta-----t------a------ggcctggcaagtcttctaggtactgg----ttagcattgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCCGAGG-ACCAAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877660 132 + 135337776 cc-caacaaatgtttattgagtgcctacta-----t------a------ggcctggcaagtcttctaggtactgg----ttagcattgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTCCCGAGG-ACCAAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093001 132 -  32808036 cc-caacaaatgtttactgagtgcctacta-----t------a------ggcctggcaagtcttctaggtactgg----ttagcattgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCCGAGG-ACCAAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283047 132 +  34552619 cc-caacaaatgtttattgagtgcctacta-----t------a------ggcctggaaagtcttctaggtactgg----ttatcatcgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCCGAGG-ACCAAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589059 132 - 133663169 cc-caacaaatgtttactgagtgcctgcta-----t------a------ggcctggcaagtcctctaggtactgg----ttagcatttagcaagacagacaaaaccctgctcttacggGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988568 132 - 137757926 cc-caacaaatgtttactgagtgcctgcta-----t------a------ggcctggcaagtcctctaggtactgg----ttagcatttagcaagacagacaaaaccctgctcttacggGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366518 132 -   7948249 cc-caacaaatgtttactgagtgcctgcta-----t------a------ggcctggcaagtcctctaggtactgg----ttagcatttagcaagacagacaaaaccctgctcttacggGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267125 132 -  10730278 cc-caacaaatgtttactgagtgcctgcta-----t------a------ggcctggcaagtcctctaggtactgg----ttagcatttagcaagacagacaaaaccccgctcttacggGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752278 132 - 128539186 cc-caacaaatgtttactgagtgcccacta-----t------a------ggtctggcaagtcttctaggtactgg----ttagcatttagcaagacagacaaaaccctgctcttatggGAA---------AACAAAATAAGAAATGTTTTCTGAGG-ACCAAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153337 132 +    435186 cc-caacaaatgtttactgagtgcctgcta-----t------a------ggcctggcaagtcctctaggtactgg----ttagcatttagcaagacagacaaaaccctgctcttacggGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545385 132 +   9309688 cc-caacaaatgtttactgagtgcgtacta-----t------a------ggcctggcaagtcttctaggtactgg----ttggcatttagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCTGAGG-ACCAAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377676 136 -  29834108 cc-caacaaatgtttattgagtgcctacta-----t------c------agcctggcaagtcttctaggtactggggatttagcattgagcaagacagacaaaaccctgctctcacagGAA---------AACAAAATGAGAGATGTTTTCAGAGG-ACCAAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831261 136 -   1015025 cc-caacaaatgtttattgagtgcctacta-----t------c------agcctggcaagtgttctaggtactggggatttagcattgagcaagacagacaaaaccctgctctcacagGAA---------AACAAAATGAGAAATGTTTTCAGAGG-ACCAAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851772 136 -   2295209 cc-caacaaatgtttattgagtgcctacta-----t------c------agcctggcaagtcttctaggtactggggatttagcattgagcaagacagacaaaaccctgctcttacagGAA---------AACAAAATGAGAAATGTTTTCAGAGG-ACCAAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994199 136 +  31815103 ct-taacaaatatctattgagtgcctaata-----c------a------ggcttggcaagtcttctaggtgctagagatttagcattgagcaagacagacaaaatcccgttcttacagGAA---------AGCAAAATGAGAAATGTTTTCAGAGG-CTCAAAG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5085557 136 +  13104022 ct-taacaagtatttattgagtgcctacta-----t------a------ggcttgacaagtcttctaggtgctagggatttagcattgagcaagacagacaaaaccccactcttacagGAA---------AGCAAAATGAGAAATGTTTTCAGAGG-ATCACAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4554416 136 -  12054995 ct-taacaaatatttattgagtgcctacca-----t------a------ggcttggcaagtcttctagttgctagggatttagcgttgagcaagacagacaaaaccctgctcttatagGAA---------AACAAAATAAGAAATGTTTTCAGAGG-ACCAAAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2396962 151 - 149736546 atacagcaaatatagactgaataccaattatgtgtt------g------gggctggacaattttatttatgctggggagttagcagtgagcagagcacacagagatcTGCTTGGAGGGGAAAAAAAACCCAACAGAATAAGAAATGTGTTCCAAAA-aaagaaa
i mm10.chr6                 C 0 I 271
s canFam3.chr27              19709166 142 +  45876710 ct-gaaaaaatatttattgagtgcctatta-----tctgccag------ggcctggcaagtcttctaggtgctagggatttaggagtaagcaagacagacaaaactctgctcttaAAGGAA---------AACA-AATGAGAAACATTTTCAAAGGAAACACAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908410 142 -   1687904 cc-Aaacaattatttcttgagtgcctactg-----t------atgccagggccagacaagtttcctacatgctggggattcagcagtgaacaagaacaacaaaaccctgctcttggagGAA---------AACAAAATAAGAAAAGTTTTCAGAGG-ACCAATA
i dasNov3.JH562883          I 108 C 0

a score=2857794.000000
s hg38.chr12_GL383549v1_alt     62298 221 +    120804 TCCTTGTATCTGAATGTTTCAAATAAACTTC----AAG-CTTTTTGTATTTTCTAGTTTTATGCCAGGACTAGAGGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGCCCAGTGAAATATTGC-TCAAGATAAGGAAAGTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
s panTro5.chr12              62753806 221 + 137163284 TCCTTGTATCTGAATGTTTCAAATAAACTTC----AAG-CTTTTTGTATTTTCTAGTTTTATGCCAGGACTAGAGGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGCCCAGTGAAATATTGC-TCAAGATAAGGAAAGTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60877792 221 + 135337776 TCCTTGTATCTGAATTTTTCAAACAAACTTC----AAG-CTTTTTGTATTTTCTAGTTTTATGCCAGGACTAGAGGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGCCCAGTGAAATATTGC-TCAAGATAAGGAAAGTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093133 221 -  32808036 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTATTTTCTAGTTTTATGCCAGGACTAGAGGAA------CAAACCGTCCCC-TTATGATTTGCTGAAAGGCAGTGCCCCGTGAAATATTGC-TCAAGATAAGGAAAGTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283179 221 +  34552619 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTGTGTACTTTCTAGATTTATGCCAGGACTAGAGGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGCCCAGTGAAATATTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATACTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589191 221 - 133663169 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCTC-TTATGATTTGCTGAAAGGCAGTGTCCGGTGAAATATTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988700 221 - 137757926 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCTC-TTATGATTTGCTGAAAGGCAGTGTCCGGTGAAATATTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366650 221 -   7948249 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCTC-TTATGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267257 221 -  10730278 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCTC-TTATGATTTGCTGAAAGGCAGTGTCCAGTGAAATACTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTTAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752410 221 - 128539186 TCCTTGTATCTGAATTTTTCAAATGAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCCC-TTGTGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGC-TCAAGATAAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153469 221 +    435186 TCCTTGTATCTGAATTTTCCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCTC-TTACGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGC-TCAAGATAAGGAAATTCGTATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGGTTGGAAGGTGGTTTAAACCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545517 221 +   9309688 TCCTTGTATCTGAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGTTTTATGCCAGGACTAGGGGAA------CAAACCATCCAC-TTATGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGC-TCAAGATGAGGAAATTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATGTTCAAGTAAAAAGAGTCTCCAGCTTGGAAGGTGGTTTAAACCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11377812 204 -  29834108 TCCTTGTATCTAAAATTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGCTTTATGCCAGGACCGGATGAA------CAAACCATCCCC-TTAGGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGA-TCAAGATAAGAAAACTCATATTACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGA----------------GTGGTTTAAACCC-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831397 204 -   1015025 TCCTTGTATCTAAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGCTTTATGCCGGGACTGGATGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGA-TCAAGATAAGAAAACTCATATTACAGACGGAGCAGGTTCAAATTAGAGTGATATTCAAGAAAAAAGA----------------GTGGTTTAAACCC-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1851908 204 -   2295209 TCCTTGTATCTAAATTTTTCAAATAAACTTC----AAG-CTTTTTGTACTTTCTAGCTTTATGCCAGGACCAGATGAA------CAAACCATCCCC-TTATGATTTGCTGAAAGGCAGTGTCCAGTGAAATATTGA-TCAAGATAAGAAAACTCATAATACAGAGGGAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGA----------------GTGGTTTAAACCC-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994335 222 +  31815103 TCCTTTTCTCTGAATTTTTCAAATGAATGTCTTCGAGT-CCTTTTGCACTTTCCGGCTTTATGCCAGGACTAGAGGAA------CTAACAACCCCT-TCATGATTTTCTGAAAGAC-ATGTCCAATGAAATATTG---TAAGATAAGGAAACTCACATTATAGTGGAAGCAGGTTCAAATTAGAGTGATATTCAAGTAAAAAGAGTCTCCAGGGTGGAAGGTGGTTTAAACCCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5085693 222 +  13104022 TCCCTTTATCTGAAGTTTTCAAATGAACGTCTTCCAGT-CTTTTTCCACTTTCTAGCTTTATGCCAGGACTAGAGGAA------CTAACGACCCCA-TCATGATTTGCTGAAAGAC-GTGTCCAATGAAATATTA---TAAGATAAGGAAACACACATTATAGTGGGAGTAGGTTCAAATTAGAGTGATATTCTGGTAAAAAGGGTCACCAGGTTGGAAGGTAGTTTAAACCCA
i proCoq1.NW_012140524v1    C 0 I 104
s otoGar3.GL873576            4554552 223 -  12054995 TATTTTTATTTGCATTTTTCAAGTGAACTTCTTAAAGT-CTTTTTGTACTTTCTTGCTTCATGCCAGGACTAGCGGAG------CTAACCACCCCA-TCGTCATTTGCTGAAAGACAGTGGCCAGTGAAATGTTG---TAAAATGAGGAAACTCACCTTATAGGGGGAGCAGGTTCAAGTTAGAGTGATATTCAGGTAAAAAGAGTCTCTGGGTTGGAAGGTAGTTTAAACTCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19709308 203 +  45876710 TCCTTTTATCAGAAATTTTCAAATGAACTTC----AAGTCCTCTTGTGCTTTCTAGATTTATCCAAGGGGTAGAGGAA------CAAACCACTTCA-CAATTATTTGCTGGAAGAT-TTATCCAGTCAAATACTGTGTTGAAACAAGGA------------------AGCAGGTTCAAATTAGAGTGACATTTTGGTAAAGAGAGGCTCTAGTTTGGAAGGTAGTTTAAACCC-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908552 208 -   1687904 TCCTTGTTTCTGACATTTTCAAGTGAACTTC--------CTTTTTGTGCTTTCTAGATTTCTGCCAGGGCTAGAGGGAGGACTGCAAACCAGCCCCATTGTGA---GCTGAAAGGCAGTGT-GATTGGGCTACG---TTAAGACGAGGAAACTCACTTTACAG-------AGGTCTACACTGGAGCGACATCTCGGTAGAAAG---CTCCAGGA-AGCAGGCAGTTTAAACCCA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2397113 271 - 149736546 I

a score=228527.000000
s hg38.chr12_GL383549v1_alt     62519 26 +    120804 ACAATGCCAAA--GTAATA-----GGTGGATTG----
s panTro5.chr12              62754027 26 + 137163284 ACAATGCCAAA--GTAATA-----GGTGGATTG----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878013 26 + 135337776 ACAATGCCAAA--GTAATA-----GGTGGATTG----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093354 26 -  32808036 ACAATGCCAAA--ATAATA-----GGTGGATTG----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283400 26 +  34552619 CCGATGCCAAA--GTAATA-----GGTGGATTG----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589412 26 - 133663169 CCAATGCCAAA--GTAATA-----GGTGGATTG----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988921 26 - 137757926 CCAATGCCAAA--GTAATA-----GGTGGATTG----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366871 26 -   7948249 CCAATGCCAAA--GTAATA-----GGTGGATTG----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267478 26 -  10730278 CCAATGCCAAA--GTCATA-----GGTGGATTG----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752631 26 - 128539186 CCAATGCCAAA--GTAATA-----GGTGGACTG----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153690 26 +    435186 CCAATGCCAAA--GTAACA-----GGTGGATTG----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545738 26 +   9309688 CCAATGCCAAA--GTAATA-----GGTGGATTG----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378016 19 -  29834108 CTAATGCCAAA--------------GTGGATTG----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831601 19 -   1015025 CCAGTGCCAAA--------------GTGGATTG----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852112 26 -   2295209 CCAATCCCAAA--GTAATA-----GGTGGATTG----
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994557 26 +  31815103 CTGATGCCGAA--GCAATA-----GGTTGAttg----
i micMur3.chr21             C 0 I 86
s otoGar3.GL873576            4554775 26 -  12054995 GGGATGCCAAG--GCAATACGAGGGGTT---------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19709511 26 +  45876710 CCAATGTCAAG--GTAATG-----GGTTGGCTG----
i canFam3.chr27             C 0 I 6
s dasNov3.JH562883             908760 32 -   1687904 CCGATGCCGAGAGGCCAGG-----GGTTGGTTGGTTG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2397113 271 - 149736546 I
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I

a score=658817.000000
s hg38.chr12_GL383549v1_alt     62545 62 +    120804 -GTTTTTCCCCTCTCATCCACGTATGCACCTGGACCGAGACAATGCCG-TATCTAACCGAAAAG
s panTro5.chr12              62754053 62 + 137163284 -GTTTTTCCCCTCTCATCCACGTATGCACCTGGACCGAGACAATGCCG-TATCTAACCGAAAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878039 62 + 135337776 -GTTTTTCCCCTCTCATCCACGTATGCACCTGGACCGAGACAATGCCG-TATCTAACCGAAAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093380 62 -  32808036 -GTTTTTCCCCTCTCATCCACGTACGCACCTGGACCGAGACAATGCCG-TATCTAACCAAAAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283426 61 +  34552619 -G-TGTTCCCCTCTCATCCACGTATGCACCTGAACTGAGACAATGCCC-TATCTAACCGAAAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589438 62 - 133663169 -GTTTCTCCCCTCTCATCCACGTACACACCTGGACTGAGACAATGCCA-CGTCTAACCGAAAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108988947 62 - 137757926 -GTTTCTCCCCTCTCATCCACGTACACACCTGGACTGAGACAATGCCA-TATCTAACCGAAAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366897 62 -   7948249 -GTTTCTCCCCTCTCATCCACGTACACACCTGGACTGAGACAATGCCG-TATCTAACCGAAAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267504 62 -  10730278 -GTTTCTTCCCTCTCATCCACGTATACACCTGGACTGAGACAATGCCG-TATCTAACCGAAAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752657 62 - 128539186 -GTTTCTCCCCTCTCATCCACGTACACACCTGGACTGAGACAACGCCG-TATCTAACCGAAAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153716 62 +    435186 -GTTTCTTCCCTCTCATCCACGTACACACCTGGACTGAGACAATGCCG-TATCTAACCGAAAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545764 63 +   9309688 -GTTTCTCCCCTCTCATCCACGTACACACCTGGACTGAGACAATGCCGTTATCTAACCGAAAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378035 62 -  29834108 -GTTTTTCCCCTCTCATCCATGGACGCGCCTGGACAGAGAAGATGCAG-TAGCTAACCTAAAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831620 62 -   1015025 -GTTTTTCCCCTCTCATCCATGTACGCACCTGGACAGAGAAGATGCCG-TAGCTAACCTAAAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852138 62 -   2295209 -GTTTTTCCCCTCTCATCCATGTACGCACCTGGACCGAGAAGATGCCG-TAGCTAACCGAAAAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554801 62 -  12054995 -GGTTTTCCCCTCTCATCCTTTTACAGGTCTATGCCTAGAAGCTGCTG-TATCTAACTGAAAAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19709543 62 +  45876710 -TTTTTTTCCCTCTCATATACTTATGGACTTGGATCAAGAAGATGCCA-TATCCAACTGAAGAG
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             908792 63 -   1687904 GTTTTTTTCCCACTCATCCACTTATGGGTCTGGATTTAGAAGATGCCG-TACCCAACAGAGGAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2397113 271 - 149736546 I
e micMur3.chr21               2994583 86 +  31815103 I
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I

a score=39147.000000
s hg38.chr12_GL383549v1_alt     62607 4 +    120804 CAAC
s panTro5.chr12              62754115 4 + 137163284 CAAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878101 4 + 135337776 CAAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093442 4 -  32808036 CAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283487 4 +  34552619 CAAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589500 4 - 133663169 CAAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989009 4 - 137757926 CAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366959 4 -   7948249 CAAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267566 4 -  10730278 CAAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752719 4 - 128539186 CAAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153778 4 +    435186 CAAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545827 4 +   9309688 CAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378097 4 -  29834108 CAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831682 4 -   1015025 CAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852200 4 -   2295209 CAAC
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19709605 3 +  45876710 -AAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908855 4 -   1687904 GGAC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4554863 0 -  12054995 C
e mm10.chr6                   2397113 271 - 149736546 I
e micMur3.chr21               2994583 86 +  31815103 I
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I

a score=187018.000000
s hg38.chr12_GL383549v1_alt     62611 20 +    120804 TTAgccaggcatggc-ggctc
s panTro5.chr12              62754119 20 + 137163284 TTAgccaggcatggc-ggctc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878105 20 + 135337776 TTAgccaggcatggc-ggctc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093446 20 -  32808036 TTAgccaggcatggc-ggctc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283491 20 +  34552619 TTAgccaggcatgtc-ggctc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589504 20 - 133663169 TTAgccaggcatggt-ggctc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989013 20 - 137757926 TTAgccaggcatggt-ggctc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366963 20 -   7948249 TTAgccagggatggt-ggctc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267570 20 -  10730278 TTAgccaggcatggt-ggctc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752723 20 - 128539186 TTAgccaggcatggt-ggctc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153782 20 +    435186 TTAgccaggcatggt-ggctc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545831 21 +   9309688 TTAgccaggcatggtgggctc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378101 20 -  29834108 TTAgccaggcatggt-ggctc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831686 20 -   1015025 TTAgccaggcacggt-ggctc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852204 20 -   2295209 TTAgccaggcacggt-ggctc
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19709608 18 +  45876710 T--ATCAGAAAGGGT-GGCTC
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4554863  0 -  12054995 C
e mm10.chr6                   2397113 271 - 149736546 I
e micMur3.chr21               2994583 86 +  31815103 I
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859  0 -   1687904 C

a score=700496.000000
s hg38.chr12_GL383549v1_alt     62631 78 +    120804 atgcctgtaatctcaacactt-tcagaggccaagacaggcacatcacttgaggtgaggagttcgagaccagtctggcca
s panTro5.chr12              62754139 78 + 137163284 atgcctgtaatctcaacactt-tcagaggccgagacaggcacatcactggaggtgaggagttcgagaccagtctggcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878125 78 + 135337776 atgcctgtaatctcaacactt-tcagaggccgagacaggcacatcactggaggtgaggagttcgagaccagtctggcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093466 78 -  32808036 atgcctgtaatctcaacactt-tcagaggccgagacaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283511 78 +  34552619 atacctgtaatctcaacactt-ccagaggccgagacaggcacatcacttgaggtgaggagttcaagacgagtctggcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589524 78 - 133663169 atgcctgtaatctcaacactt-tcagaggccgaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989033 78 - 137757926 atgcctgtaatctcaacactt-tcagaggccgaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1366983 78 -   7948249 atgcctgtaatctcaacactt-tcagaggccaaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267590 78 -  10730278 atgcctgtaatctcaacactt-tcagaggccaaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752743 78 - 128539186 atgcctgtaatctcaacactt-tcagaggccgaggcaggcacatcacttgaggtgaggagttcaagaccagtctggcca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153802 78 +    435186 atgcctgtaatctcaacactt-tcagaggccgaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545852 78 +   9309688 atgcctgtaatctcaacacgt-tcagaggccgaggcaggcacatcacttgaggtgaggagttcgagaccagtctggcca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378121 79 -  29834108 acgcttgtaatcccagcacttgtcagaggctgaggcaggcacatcaattgaggtgaggagtttgagactagcctggcca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831706 79 -   1015025 acacctgtaatcccagcacttgtcagaggccaaggcaggcacatcaattgaggtgaggagttagagaccagcctggcca
i cebCap1.NW_016107911v1    C 0 I 47
s aotNan1.NW_018488218v1      1852224 79 -   2295209 acgcctgtaatcccagcacttgtcagaggccgaggcaggcacgtcaattgaggtgaggagttcgagaccagcctggcca
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4554863  0 -  12054995 C
e mm10.chr6                   2397113 271 - 149736546 I
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626  0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859  0 -   1687904 C

a score=137638.000000
s hg38.chr12_GL383549v1_alt     62709 26 +    120804 tgtagtagatggccatttagtagaga
s panTro5.chr12              62754217 26 + 137163284 tgtagtagatggccatttagtagaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878203 26 + 135337776 tgtagtagatggccatttagtagaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093544 26 -  32808036 tgtagtagatggccatttagtagaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283589 26 +  34552619 tgtagtagatggccatttagtagaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589602 26 - 133663169 tgtagtaggtggccatttagtagaga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989111 26 - 137757926 tgtagtaggtggccatttagtagaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367061 26 -   7948249 tgtagtaggtggccatttagtagaga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267668 26 -  10730278 tgtagtaggtggccatttagtagaga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752821 26 - 128539186 tgtagcaggtggccatttagtagaga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153880 26 +    435186 tgtagtaggtgaccatttagtagaga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545930 26 +   9309688 tgcagtaggtggccgtttagtagaga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378200  3 -  29834108 -----------------------aca
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1852303  3 -   2295209 -----------------------aca
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4554863  0 -  12054995 C
e mm10.chr6                   2397113 271 - 149736546 I
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626  0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859  0 -   1687904 C
e cebCap1.NW_016107911v1       831785 47 -   1015025 I

a score=298416.000000
s hg38.chr12_GL383549v1_alt     62735 48 +    120804 cagtgaaacc-ccgtctctactaaactgcaaaaattagcctggcatggt
s panTro5.chr12              62754243 48 + 137163284 cagtgaaacc-ccatttctactaaactgcaaaaattagccgggcatggt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878229 48 + 135337776 cagtgaaacc-ccatttctactaaactgcaaaaattagccgggcatggt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093570 48 -  32808036 cagtgaaacc-ccgtctctactaaactgcaaaaattagccgggcatggt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283615 48 +  34552619 cagtgaaacc-ccgtctctactaaactgcaaaaattagccgggcgtggt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589628 48 - 133663169 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989137 48 - 137757926 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367087 48 -   7948249 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267694 48 -  10730278 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752847 48 - 128539186 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       153906 48 +    435186 cagtgaaacc-ctgtctctattaaactacaaaaattagccaggagtggc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3545956 48 +   9309688 cggtgaaacc-ctgtctctactaaactacaaaaattagccaggagtggc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378203 44 -  29834108 tggtgaaacatacgaatctactaaaatacaaaaagtagctggat-----
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1852306 44 -   2295209 tggtgaaacctctgcctctactaaaatacaaaaagtagctgggt-----
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2397384 34 - 149736546 CAGTGAAACC-CTGTGTT--------------AAGGAGCTTGACCTTAC
i mm10.chr6                 I 271 C 0
e otoGar3.GL873576            4554863  0 -  12054995 C
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626  0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859  0 -   1687904 C
e cebCap1.NW_016107911v1       831785 47 -   1015025 I

a score=1210539.000000
s hg38.chr12_GL383549v1_alt     62783 143 +    120804 ggtgggtgc---------ctgtaattccagctactggggaggctg-----aagcagg-----agaattgcttgaacctgggaagcggaggttcaagcgattctcctagttcagtgagctgagatcacgccactgc-actccagcctgggcaacagagtgagac
s panTro5.chr12              62754291 143 + 137163284 ggtgggtgc---------ctgtaattccagctactggggaggctg-----aagcagg-----agaattgcttgaacctgggaagcggaggttcaagcgattctcctagttcagtgagctgagatcacgccactgc-actccagcctgggcaacagagtgagac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878277 142 + 135337776 ggtgggtgc---------ctgtaattccagctactggggaggctg-----aa-cagg-----agaattgcttgaacctgggaagcggaggttcaagcgattctcctagttcagtgagctaagatcacgccactgc-actccagcctgggcaacagagtgagac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093618 143 -  32808036 ggtgggtgc---------ctgtaattccagctactggggaggctg-----aagcagg-----agaattgcttgaacctgggaagcagaggttcaagcaattctcctcgttcagtgagctgagatcacgccactgc-actccagcctgggcaacagagtgagac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283663 143 +  34552619 ggtgggttc---------cagtaattccagctactggggaggctg-----aagcagg-----agaattgcttgaacctgggaagtggaggttcaagcgattcttcttgttcagtgagctgagatcacgccactgc-actccagcctgggcaacagagtgagac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589676 143 - 133663169 ggtgggtgc---------ctgtaattccagctactggggaggcta-----aggcagg-----agaattgctcgaacctgggaaacagaggttcaagcgatgatccttgtttagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989185 143 - 137757926 ggtgggtgc---------ctgtaattccagctactggggaggcta-----aggcagg-----agaattgctcgaacctgggaaacagaggttcaagcgatgatccttgtttagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367135 143 -   7948249 ggtgggtgc---------ctgtaattccagctactgaggaggcta-----aggcagg-----agaattgctcgaacctgggaaacagaggttcaagcgatgatccttgtttagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267742 143 -  10730278 gatgggtgc---------ctgtaattccagctactggggaggctg-----aggcagg-----agaattgctcgaacctgggaaacagaggttcaagcgatgatccttgtttagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100752895 143 - 128539186 ggtgggtgc---------ctgtaattccagctactggggaagctg-----aggcagg-----agaattgctcgaacctgggaaacagaggttcaagcgatgacccttgttcagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i chlSab2.chr11             C 0 I 5842
s manLeu1.NW_012101287v1       153954 143 +    435186 gatggatgc---------ctgtaattccagctactggggaggctg-----aggcagg-----agaattgctcgaacctgggaaacagaagttcaagcgatgatccttgtttagtgagctgagatcatgccactgc-actccagcctgggcaacagagtgagac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546004 140 +   9309688 ggtgggtgc---------ctgtaattccagctactggggaggctg-----aagc--------agaattgcttgaacctgggaaacagcggttcaagcgttgatccttgttcagtgagctgagatcatgccaccgt-actccagcctgggcaacagagtgagac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378247 144 -  29834108 ggtgggtgc---------ctgtaatcccagctactggggaggctg-----atgcagg-----aaaatcgcttgaacctgggaagcggaggttcaaacgattctccttgttgagtgagctgagatcgtgccactgcaactccagcctgggtaatagagcgagaT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831832 144 -   1015025 ggtgggtgc---------ctgtaatcccagctactggggaggctg-----atgcagg-----agaatcgcttgaacccaggaagtggagtttcaaacgattctccttgttcagtgagccgagatcacatcactgcaactccagcctgggtgacagaccaagac
i cebCap1.NW_016107911v1    I 47 C 0
s aotNan1.NW_018488218v1      1852350 144 -   2295209 ggtgactgc---------ctgtaatcccagctacaggggaggctg-----aagcagg-----agaatcgcttgaacccgggaagcggaggttcaaacgattctccttgttcagtgagccgagatcgcgccactgcaactccagcctgggtaacagagcgagac
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2397418 141 - 149736546 AGTGGGGGCAGGATTGAACTGGAGTGACACTCAGGTAGAGAGCTGCATGTAGGCAGGTCCTTGTAGCCCTCTGATCCAAGGACATGGA---------------------TCAGTGAGCAGGATTTCCTCTTATCC-ACTTATGTTCCAGGATCTAAAAGAGAC
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4554863   0 -  12054995 C
e micMur3.chr21               2994583  86 +  31815103 I
e canFam3.chr27              19709626   0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859   0 -   1687904 C

a score=25636.000000
s hg38.chr12_GL383549v1_alt     62926 5 +    120804 gcctc
s panTro5.chr12              62754434 5 + 137163284 gcctc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878419 5 + 135337776 gcctc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093761 5 -  32808036 gcctc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283806 5 +  34552619 tcctc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589819 5 - 133663169 tccTC
i rheMac8.chr11             C 0 I 14
s macFas5.chr11             108989328 5 - 137757926 tcctc
i macFas5.chr11             C 0 I 13
s macNem1.NW_012011422v1      1367278 5 -   7948249 tccTC
i macNem1.NW_012011422v1    C 0 I 19
s cerAty1.NW_011999477v1      8267885 5 -  10730278 tcctc
i cerAty1.NW_011999477v1    C 0 I 16
s manLeu1.NW_012101287v1       154097 5 +    435186 tcctc
i manLeu1.NW_012101287v1    C 0 I 2
s colAng1.NW_012114364v1      3546144 5 +   9309688 tcttc
i colAng1.NW_012114364v1    C 0 I 9
s saiBol1.JH378123           11378391 5 -  29834108 ACCta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831976 5 -   1015025 acctc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852494 5 -   2295209 ACTTC
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2397559 5 - 149736546 CTATC
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4554863 0 -  12054995 C
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626 0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859 0 -   1687904 C
e chlSab2.chr11             100753038 5842 - 128539186 I

a score=196360.000000
s hg38.chr12_GL383549v1_alt     62931 31 +    120804 aaaaaaaaaat-------------gaatg------------aataaaaagaaaaGC
s panTro5.chr12              62754439 31 + 137163284 aaaaaaaaaat-------------gaatg------------aataaaaagaaaaGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878424 31 + 135337776 aaaaaaaaaat-------------gaatg------------aataaaaagaaaaGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093766 30 -  32808036 -aaaaaaaaat-------------gaatg------------aataaaaagaaaaGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283811 31 +  34552619 aaaaaaaaaaa-------------gaatg------------aataaaaagaaaaGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589838 31 - 133663169 aaaaaaaaaaa-------------GAATA------------AATAAAAAGAAAAGT
i rheMac8.chr11             I 14 C 0
s macFas5.chr11             108989346 31 - 137757926 aaaaaaaaaaa-------------gaata------------aataaaaagaaaaGT
i macFas5.chr11             I 13 C 0
s macNem1.NW_012011422v1      1367302 31 -   7948249 aaaaaaaaaaa-------------GAATA------------AATAAAAAGAAAAGT
i macNem1.NW_012011422v1    I 19 C 0
s cerAty1.NW_011999477v1      8267906 31 -  10730278 aataaataaat-------------aaata------------aataaaAAGAAAAGT
i cerAty1.NW_011999477v1    I 16 C 0
s chlSab2.chr11             100758880 31 - 128539186 aaaaaaaaaaa-------------gaata------------gataaaaagaaaAGT
i chlSab2.chr11             I 5842 C 0
s manLeu1.NW_012101287v1       154104 44 +    435186 aaaaaaaaaaataaataaataaataaata------------aataaaAAGAAAAGT
i manLeu1.NW_012101287v1    I 2 C 0
s colAng1.NW_012114364v1      3546158 31 +   9309688 aaaaaaaaaaa-------------gaata------------aaTAAAAAGAAAAGT
i colAng1.NW_012114364v1    I 9 C 0
s saiBol1.JH378123           11378396 31 -  29834108 aataaataaat-------------aaata------------aataaaAAGAAAGGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       831981 34 -   1015025 aataaataaat-------------aaataaat---------aataaaaaGGAAAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852499 43 -   2295209 AGtaaataaat-------------aaataaataaataaataaataaaAAGAAAAGC
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2397564 16 - 149736546 CACCGGGACAG-------------GAATG---------------------------
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4554863  0 -  12054995 C
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626  0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859  0 -   1687904 C

a score=9090.000000
s hg38.chr12_GL383549v1_alt     62962 1 +    120804 A
s panTro5.chr12              62754470 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878455 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093796 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283842 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589869 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989377 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367333 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267937 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100758911 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154148 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546189 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378427 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832015 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852542 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4554863 1 -  12054995 G
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2397580 0 - 149736546 C
e micMur3.chr21               2994583 86 +  31815103 I
e canFam3.chr27              19709626 0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859 0 -   1687904 C

a score=43169.000000
s hg38.chr12_GL383549v1_alt     62963 4 +    120804 ACTT
s panTro5.chr12              62754471 4 + 137163284 ACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878456 4 + 135337776 ACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093797 4 -  32808036 ACTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283843 4 +  34552619 ACTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589870 4 - 133663169 ACTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989378 4 - 137757926 ACTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367334 4 -   7948249 ACTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267938 4 -  10730278 ACTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100758912 4 - 128539186 ACTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154149 4 +    435186 ACTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546190 4 +   9309688 ACCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378428 4 -  29834108 ACTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832016 4 -   1015025 ACTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852543 4 -   2295209 ACTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994669 4 +  31815103 ACTC
i micMur3.chr21             I 86 C 0
s otoGar3.GL873576            4554864 4 -  12054995 ATTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2397580 2 - 149736546 --TC
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19709626 0 +  45876710 C
e proCoq1.NW_012140524v1      5085915 104 +  13104022 I
e dasNov3.JH562883             908859 0 -   1687904 C

a score=191550.000000
s hg38.chr12_GL383549v1_alt     62967 15 +    120804 AGAAACTGTAACTAT
s panTro5.chr12              62754475 15 + 137163284 AGAAACTGTAACTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878460 15 + 135337776 AGAAACTGTAACTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093801 15 -  32808036 AGAAACTGTAACTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283847 15 +  34552619 AGAAACTGTAACTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589874 15 - 133663169 AGAAACTGTAACTGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989382 15 - 137757926 AGAAACTGTAACTGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367338 15 -   7948249 AGAAACTGTAACTGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267942 15 -  10730278 AGAAACTGTAACTGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100758916 15 - 128539186 AGAAACTGTAACTGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154153 15 +    435186 AGAAACTGTAACTGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546194 15 +   9309688 AGAAACTGTAACTGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378432 15 -  29834108 AGAAACTGTAACTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832020 15 -   1015025 AGAAACTGTAACTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852547 15 -   2295209 AGAAACTGTAACTAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994673 15 +  31815103 AGAAACTATGACTAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5086019 15 +  13104022 AGAAACTATGACTGT
i proCoq1.NW_012140524v1    I 104 C 0
s otoGar3.GL873576            4554868 15 -  12054995 TGAAACTGTGACTGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2397582 14 - 149736546 AGAACACCTGACT-T
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19709626  0 +  45876710 C
e dasNov3.JH562883             908859  0 -   1687904 C

a score=185997.000000
s hg38.chr12_GL383549v1_alt     62982 13 +    120804 TTTCCCCAACAGT
s panTro5.chr12              62754490 13 + 137163284 TTTCCCCAACAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878475 13 + 135337776 TTTCCCCAACAGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093816 13 -  32808036 TTTCCCCAACAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283862 13 +  34552619 TTTCCCTAACAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589889 13 - 133663169 TTTCCCCAACAGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989397 13 - 137757926 TTTCCCCAACAGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367353 13 -   7948249 TTTCCCCAACAGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267957 13 -  10730278 TTTCCCCAACAGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100758931 13 - 128539186 TTTCCCCAACAGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154168 13 +    435186 TTTCCCCAACAGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546209 13 +   9309688 TTTCCCCAACAGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378447 13 -  29834108 TTTCCCCAACGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832035 13 -   1015025 TTTCCCCAACATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852562 13 -   2295209 TTTCCACATCATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994688 13 +  31815103 TTCCCTCAACAGT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5086034 13 +  13104022 TTTCCCCAACAGT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4554883 13 -  12054995 TTTCCCCAAGAGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2397596 13 - 149736546 TTCTCTCACCAGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19709626 13 +  45876710 TTACCCCAACAGT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             908859  0 -   1687904 C

a score=3550132.000000
s hg38.chr12_GL383549v1_alt     62995 240 +    120804 CTCAGGGAACACGGCCTCT---TTTCCATGGAGGC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTTTCCCATCCTTGA-CA-ATAAAACACACCCAGATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACTTCTCTTGGGGCTTCCAATTCTTAGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
s panTro5.chr12              62754503 240 + 137163284 CTCAGGGAACACGGCCTCT---TTTCCATGGAGGC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTTTCCCATCCTTGA-CA-ATAAAACACACCCAGATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTAGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878488 240 + 135337776 CTCAGGGAACACGGCCTCT---TTTCCATGGAGGC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTTTCCCATCCTTGA-CA-ATAAAACACACCCAGATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTAGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3093829 239 -  32808036 CTCAGGGAACACGGCCTCT---TTTCCATGGAGGC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTTTCCCATCCTTGA-CA-ATAAAACACACCCAGATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTT-GGGCTTCCAATTCTTAGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7283875 240 +  34552619 CTCAGGGAACACTGCCTCT---TTTCCATGGAGGC-TTCTTGTTGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTAGAAGTT-AAAAAAAACTCTTAATGCCTTTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104589902 238 - 133663169 CTCAGGGAACACTGCCTC----TTTCCATGGAGCC-TTCTTGATGCCTTT-TACATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACGGAGT-CCTGGCTTCAAAAGGTTCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989410 238 - 137757926 CTCAGGGAACACTGCCTC----TTTCCATGGAGCC-TTCTTGATGCCTTT-TACATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACGGAGT-CCTGGCTTCAAAAGGTTCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367366 238 -   7948249 CTCAGGGAACACTGCCTC----TTTCCATGGAGCC-TTCTTGATGCCTTT-TACATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACGGAGT-CCTGGCTTCAAAAGGTTCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8267970 239 -  10730278 CTCAGGGAACACTGCCTC----TTTCCATGGAGCC-TTCTTGATACCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACATGGAGTCCCTCCCTTCAAAAGGTCCAATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100758944 240 - 128539186 CTCAGGGAACACTGCCTCT---TTTCCATGGAGCC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACGGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGGAAACTCTTAATGCCTTTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154181 239 +    435186 CTCAGGGAACACTGCCTC----TTTCCATGGAGCC-TTCTTGATGCCTTT-TATGTGTGTGGGTGTCCCTACGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACATGGAGTCCCTCCCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546222 240 +   9309688 CTCAGGGAACACTGCCTCT---TTTCCATGGAGCC-TTCTTGATGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAACACACCCAGATTACCACACGGAGTTCCTGGCTTCAAAAGGTCTGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAAGAAAACTCTTAATGCCTTTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378460 240 -  29834108 CTCAGGGAACACTGCCTCT---TTTCCATGGAGAC-TTCCTGAGGTCTTT-TACATGTGTGGGTGTTCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAGCACACCCAAATTACCACACATAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAGGAGAACTCTTGATGTCTTTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832048 240 -   1015025 CTCAGGGAACACTGCCTCT---TTTCCATGGAGAC-TTCCTGATGCCTTT-TACATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGCTTCTCCCATCCTTGT-CA-ATACAGCACACCCAAATTACCACACCGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAGCATCTCTTGGGGCTTCCAATTATTGGAAGTT-AAGGAGAACTCTTAATGCCATTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852575 240 -   2295209 CTCAGGGAACACTGCCTCT---TTTCCATGGAGAC-TTCCCGATGCCTTT-TACATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGTTTTCTCCCATCCTTGT-CA-ATACAACACACCCAAATTACCACACAGAGTTCCTGGCTTCAAAAGGTCCGATGCCTTTTTAAAGAAACATCTCTTGGGGCTTCCAATTCTTGGAAGTT-AAGGAGAACTCTTAATGCCTTTCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2994701 240 +  31815103 CTTAGGGAACATTGCCTCT---TTTCCATGGAATT-TTCTCCCTGCCTTT-TATATGTGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGTTTTTTCCCATCCTTAT-CA-ATACAACACACCCAAA-TACCACATAAAGTTCCTGACTTCAAAAGGTTGGATGCCTTTTTGAAGATAGATCCCTTCAGCCTTCTAATCCTTGGAAGTTAACAGAGAGCTCTTAATGCCTTTTT
i micMur3.chr21             C 0 I 52
s proCoq1.NW_012140524v1      5086047 241 +  13104022 CTTAGGGAACACTGCCTCT---TTTCCATGGAATC-TTCTCCGTGCATTT-TATATGCGTGGGTGTCCCTAGGCATGTTTTAAGCTGATTTCTGGGTGTAGCAGGTTTCTCCCATCCTTAT-CA-ATACAACACACCCAAATTACCACATACAGTTCCTGACTTCAAAAGATTGGATGCCTTTTTGAAGATAGATCTCTTCAGCCTTCTAATCCTTGGAAGTTAACAGAGATCTCTTAATGCCTTTTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4554896 240 -  12054995 CTTAGGGAACACTGCCTCT---TTTCCACTGAACC-TTCTTGGTGCCTTT-TATATGTGTGGGTGTCCCTAGGCGTGTTTTGAGCTGATTTCTGGGTGTAGCAGGTTTCTCCCATTCTTGT-CA-ATACAGCACGCCCAAATTACCACATAGAGTTACTGACTTCAAAAGGTTGGATGCCTTTTTGAAGATAGATCTCTTTGGTTTTCTAATCCTTGGAAGTC-ACAGAGAGCCCTTAGTGCCTTTTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2397609 232 - 149736546 CTTAGGGAACACTACACCTAGGAACACAT-GAGCC-TTCTTGATGTTTCTGCTCCTGTGTAGGTGTCTTGAATGGAATTTTAAGCTGATTTCTGGGTGTAGCACTTTTCTCCCATCTTTGT-TA-ACACAACATGCCCAAATTGCCACCTAGAGCTCCTAACATCAAAACATTTGGTGCCCTTTTAAAAGA-----TCTCCATCCATCCAGTCCCCGGAATTC-AAGAG------TTGCTGCCTTTTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19709639 227 +  45876710 CTT-GGACACAAGGTCGCTT--TTTCCATGGAGTCTTTCTTGATGCCTAT-TATACGTGTGGGCATTTTTAGGCATGTTTTAAGCTGATTTTTGGGTGTAGCGTGTTTCTCAC----TTGTCCA-ATACAACACACCCAAATTACCACATAGAGCTCCTGGCTTCAAAATGTTGGATGCCTTTTTGAAGAAAAATCTCTTTCG---------CCTTGGAAATT-AAGGAG--CTCTTAATGCCGTTCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             908859 220 -   1687904 CTCAAGACGTATGGC-------T-------------TTCCTGATGCCTTT-TATATGTG--GGTGTCACTA-GCATGTTTTAAGCTGATCTCTGGGTGTAGCAAGTTTCCCTCATGCTTGT-CAGATATAACACACCCAAATTGCCTCATAGAGTTCCTGGCTCCAAAAAGCTGGATGCCTTTTTGAAGAAAGATGTCTTGGGCCTTCAAATACTTGGAAGTT-AAGGCA--TTCATAATCTCTTTTT
i dasNov3.JH562883          C 0 C 0

a score=7177.000000
s hg38.chr12_GL383549v1_alt     63235 1 +    120804 T
s panTro5.chr12              62754743 1 + 137163284 C
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878728 1 + 135337776 C
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094068 1 -  32808036 C
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284115 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590140 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989648 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367604 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268209 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759184 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154420 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546462 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378700 1 -  29834108 C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832288 1 -   1015025 C
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852815 1 -   2295209 C
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5086288 1 +  13104022 T
i proCoq1.NW_012140524v1    C 0 I 51
s otoGar3.GL873576            4555136 1 -  12054995 T
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2397841 1 - 149736546 T
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19709866 1 +  45876710 T
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             909079 1 -   1687904 T
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2994941 52 +  31815103 I

a score=576871.000000
s hg38.chr12_GL383549v1_alt     63236 46 +    120804 GCCCTATGACTACACAACATGGACAAGGTACAAAACGTTAATTTGG
s panTro5.chr12              62754744 46 + 137163284 GCCCTATGACTGCACAACATGGACAAGGTACAAAACGTTAATTTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878729 46 + 135337776 GCCCTATGACTGCACAACATGGACAAGGTACAAAACGTTAATTTGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094069 46 -  32808036 GCCCTATGACTGCACAACATGGACAAGGTACAAAACATTAATTTGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284116 46 +  34552619 GCCCTATGACCGCACAACATGGACAAGGTACAAAACGTTAATTTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590141 46 - 133663169 GCCCCGTGACTGCACAACACGGACAAGGTACAAAACGTTAATTTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108989649 46 - 137757926 GCCGCATGACTGCACAACACGGACAAGGTACAAAACGTTAATTTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367605 46 -   7948249 GCCGCATGACTGCACAACGTGGACAAGGTACAAAACGTTAATTTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268210 46 -  10730278 GCCCCATGACTGCACAACATGGACAAGGTACAAAGCGTTAATTTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759185 46 - 128539186 GCCCCGTGACTGCACAACATGGACAAGGTACAAAACGTTAATTTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154421 46 +    435186 GCCCCATGACTGCACAACATGGACAAGGTACAAAGCGTTAATTTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546463 46 +   9309688 GCCCCATGACTGCACAACATGGACAAGGTACAAAACGTTAATTTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11378701 46 -  29834108 GCCCCATGACTGCACAACATGGGCAAGGTACAAAATGGTAATTTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832289 46 -   1015025 GCCCCATGACTGCACAACATGGGCAAGGTACAAAATGTTAATTTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1852816 46 -   2295209 GCCCCATGACTGCACAACATGGACAAGGTACAAAATGTTAATTTGG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4555141 46 -  12054995 CCTCCAAAACTACTCAACAAGGGCAAGTTACAAAACTTAAACTTGG
i otoGar3.GL873576          I 4 I 1
s mm10.chr6                   2397846 46 - 149736546 TTCCCATGAGGACCCAACAAAGGCAAGTTATCAAACTTTAATCTGG
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19709870 46 +  45876710 TTTCCATGACTGCCCAACATGGACAAGTTACAAAATTTTAACTTGG
i canFam3.chr27             I 3 C 0
s dasNov3.JH562883             909080 44 -   1687904 --TCCATCACTGCTCAACATAGGCAAGTTACAAAACTTTAATTTGG
i dasNov3.JH562883          C 0 I 1
e micMur3.chr21               2994941 52 +  31815103 I
e proCoq1.NW_012140524v1      5086289 51 +  13104022 I

a score=2962018.000000
s hg38.chr12_GL383549v1_alt     63282 230 +    120804 AAAACCAACCTTATCAAGTCACATGGGTGCATATTCATAAATTA-TTTGTCTCCCAGCCCATTAAGTTTCCAT-----TATCTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCACC--CTGTTTCCTATTTGTGAGCTGAGGCTGAAGAGTAGGACCTGCTGCTCAGGTGTGGGGACATTCAGTAATT--AGAATGTTA-A---GCACTGCGAGTTTTAGGTT-GTATCTACTTTGTCTAGAA-
s panTro5.chr12              62754790 230 + 137163284 AAAACCAACCTTATCAAGTCACATGGGTGCATATTCATAAATTA-TTTGTCTCCCCGCCCATTAAGTTTCCAT-----TATCTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCCTATTTGTGAGCTCAGGCTGAAGAGTAGGACCTGCTGCTCAAGTGTGGGGACATTCAGTAATT--AGAATGTTA-A---GCACTGCGAGTTTTAGGTT-GTATCTACTTTGTCTAGAA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60878775 230 + 135337776 AAAACCAACCTTATCAAGTCACATGGGTGCATATTCATAAATTA-TTTGTCTCCCCGCCCATTAAGTTTCCAT-----TATCTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCCTATTTGTGAGCTCACGCTGAAGAGTAGGACCTGCTGCTCAGGTGTGGGGACATTCAGTAATT--AGAATGTTA-A---GCACTGCGAGTTTTAGGTT-GTATCTACTTTGTCTAGAA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094115 230 -  32808036 AAAACCAACCTTATCAAGTCACATGGGTGCATATTCATAAATTA-TTTGTCTCCCCGCCCATTAAGTTTCCAT-----TATCTGTTTCCAAGATCG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCCTATTTGTGAGCTCAGGCTGAAGAGTAGGACCTGCTGCTCAGGTGTGGGGACATTCAGTAATT--AGAATGTTA-A---GCACTGCGAGTTTTAGGTT-GTATCTACTTTGTCTAGAA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284162 226 +  34552619 AAAACCAACCTTATCAAGTCACATGGATGCATATTCATAAA-----TTGTCTCCCCGCCCATTAAGTTTCCAT-----TATCTGTTTCCAAGATTG-T-TGCAGCTCTCTCAGGCCTGCC--CTGTTTCCTGTTTGTGAGTTCAGGCGGAAGAGTAGGACCTGCTGCTCAGGTGAGGGGACACTCAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-GTATCTACTTTCTCTAGAA-
i nomLeu3.chr23             C 0 I 1
s rheMac8.chr11             104590187 235 - 133663169 AAAACCAACCTTATCAAGCCACATGAATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGACCACTCAGTAATT--AGAATGTTA-A---GCACTCTGAGTTTTAGGTT-GCATCTACTTCCTCTAGAA-
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             108989695 235 - 137757926 AAAACCAACCTTATCAAGCCACATGAATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGACCACTCAGTAATT--AGAATGTTA-A---GCACTCTGAGTTTTAGGTT-GCATCTACTTCCTCTAGAA-
i macFas5.chr11             C 0 I 1
s macNem1.NW_012011422v1      1367651 235 -   7948249 AAAACCAACCTTATCAAGCCACATGAATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGGCCACTCAGTAATT--AGAATGTTA-A---GCACTCTGAGTTTTAGGTT-GTATCTACTTCCTCTAGAA-
i macNem1.NW_012011422v1    C 0 I 1
s cerAty1.NW_011999477v1      8268256 235 -  10730278 AAAACCAACCTTATCAAGCCACATGGATGCATATTCATAAATTA-TTTGTCTCCCCACCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGGCCACTCAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-GTATCTACTTCCTCTAGAA-
i cerAty1.NW_011999477v1    C 0 I 1
s chlSab2.chr11             100759231 234 - 128539186 AAAACCAACCTTATCAAGCCACATGGAGGCATATTCATCAATTA-TTTGTCTCCCCACCCATTAAGTTTCCATATCTCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGCAGGACTTGCTGCTCAGGTGTGGGGCTACTCAGTAAAT--AGAATGTTA-A---GCA-TGTGAGTTTTAGGTT-GTATCTACTTCCTCTAGAA-
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       154467 235 +    435186 AAAACCAACCTTATCAAGCCACATGGATGCATATTCATAAATTA-TTTGTCTCCCCACCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTCAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGGCCACTCAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-GCATCTACTTCCTCTAGAA-
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3546509 235 +   9309688 AAAACCAACCTTATCAAGCCACATGGATGCATATTCGTAAATTA-TTCGTCTCCCCACCCATTAAGTTTCCATATATCTGTTTGTTTCCAAGATTG-T-TGCACCTCTCTCAGGCCCGCC--CTGTTTCTTGTTTGTGAGCTAAGGCTGAAGAGTAGGACTTGCTGCTCAGGTGTGGGGCCACTCAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-GTATCTACTTCCTCTAGAA-
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11378747 235 -  29834108 AAAAGCAACCTTATCAAGTCACCTGGATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATGTATTTGTTTGTTTCCCAGATTG-C-TGCACCTCTCTCAGGCCCACC--CTGTTTCCTATTTGTGAGCTCAGGCTGAAGAACAGGACATCAAGCTCAGGTGTGGAGACACTAAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-ATATCTACTTTCCCTAGAA-
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       832335 235 -   1015025 AAAAGCAACCTTATCAAGTCACATGGATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATATATTTGTTTGTTTCCCAGATTG-C-TGCACCTCTCTCAGGCCCACC--CGGTTTCCTGTTTGTGAGCTCAGGCTGAAGAGTAGGACATCAAGCTCAGGTGTGGAGACACCAAGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGATT-GTATCTACTTTCTCTAGAA-
i cebCap1.NW_016107911v1    C 0 I 1
s aotNan1.NW_018488218v1      1852862 235 -   2295209 AAAAGCAACCTTATCAAGTCACATGGATGCATATTCATAAATTA-TTTGTCTCCCTGCCCATTAAGTTTCCATGTATTCATTTGTTTCCCAGATTG-C-TGCACCTCTCTCAGGCCCACC--CTGTTTCCTGTTTGTGAGCTCAGGCTGCAGAGTAGGACACCAAGCTCAGGTGTGGAGACACTCGGTAATT--AGAATGTTA-A---GCACTGTGAGTTTTAGGTT-GTATCTACTTTCTCTAGAA-
i aotNan1.NW_018488218v1    C 0 I 1
s micMur3.chr21               2994993 237 +  31815103 AAAACCGACCTTACCAAATCACACAGATGCATGTTTATAAATTA-TTTGTCTCCCCATGCATTAAGTTTCCATGTATTTGTTTGTTTCCAAGATCG-T-GGCACCTCTCTTGGGCCTGCCCTCTGTTTCCTGCTTGTGAGCGAAGGCAGAA-GGTAGGACTTGCTGCTCAGGTATGGAGACACTTTGTGATT--AAAATGCTG-A---GCACTGTGAGTTTGGGGCTGGTGTCTGCTTTCTCTAGCA-
i micMur3.chr21             I 52 I 1
s proCoq1.NW_012140524v1      5086340 239 +  13104022 AAAACCAACCTTACCAAATCACATAGATGCATGTTTATAAATTGTTTTGTCTCCCCACCCATTAACTTTCTGTGTATTTGTTTGTTTCCAAGATTG-T-GGCACCTCTCTTGGGCCTGCCCTCTGTTTCCTCCTTGTGAGCTAAGGCAGAAGGGTAGGACTTGATGCTCAGGTGTGGAGGCACTTCGTCATT--AAAATGCTA-A---GTACTATGAGTTTGGGGCTGGTGTCTACTTTCTCTAGCA-
i proCoq1.NW_012140524v1    I 51 I 1
s otoGar3.GL873576            4555188 219 -  12054995 AAAACCAACCTTATCAAATCACAGAGATGCATGTTAATAAATTA-TTTGTCT-CTCGTGCGTTAA------------------GTTTGCAAGATTG-T-TGCCCCTCTTTTAGGCCTGCCCTCTCTTTCCTGCTTGTGCACTGAGGCTGAAGGGTAGGCCCTGGTGCTCAGAGGCGGACACACTTGGTGATT--AGAATGCCG-A---GCTCCGTGAGTTGGGGACTGGTGTCTACTTTCTCTAGCA-
i otoGar3.GL873576          I 1 I 220
s mm10.chr6                   2397892 202 - 149736546 GGAAGAGACTCTACTGGGTCATTTGAATGCGCA--CAT-------TCTGGCTCTTTGCCCATTCATCTTCCATTCATTTGTTTGATTCTGGGGCTG-T-TTGCTCTTGTCTGGGTCCACC--CTTTCTTTCCTGTGTGAAC-CAAGCTGAGAGGTAGGA-----TGCTCAAAGAGGG-------------------AATTTCAGA---GTGCTGTGA--TTTGCCCG-GTATCTGCTTTCTCCCAC--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19709916 240 +  45876710 ---GAAAACCTCACCAAGTCACACAAACGCATGTTCACAAATTA-TTTGTCTCCCTACCAATTAAGTTTCCATTTATATGTTTGTTACAGAGATTGTT-TGCATCTTTCTCAAGCCACCT-TCTGTTTCCCGTTTTTGAGCAGAGGTTGCAGGGTGGCCCTTGAAGGCCAGGTATGAAGATGCTTGGTGATTAGAGAATGTCG-AAAGGCACTGTGAGTTTTTGTCTGGCATCAAATTTCTCCAGCA-
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             909125 242 -   1687904 AAAACTAACCTTATCAAGTCCTGTGGGTGCATGTTCATAAATTG-TCTGTCTCCCCACCCATTCATTTTCCATTTGCTTGTTTGTTTCGGTGACTG-TAAGCCACTCTCCTGGGCTAGCCCTCTGTTTCCTATTTGTGAGCAGAGACAG-AGGTTAGGCCCTACTGCCCAGTTTTGGGGACACTGGTGGATC--AGATCATTG-AAAGGCCCCAGGACTTCTTGGCCAGGGTCTACTCACACCAGCAG
i dasNov3.JH562883          I 1 C 0

a score=1350251.000000
s hg38.chr12_GL383549v1_alt     63512  99 +    120804 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTCTTT-ATTGTCTATAGCCCAGTTTGTCTTTCACACTT---G---AATGACTGAATCGTCATTTTTG
s panTro5.chr12              62755020  99 + 137163284 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTTCACACTT---G---AATGACTGAATCGTCATTTTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879005  99 + 135337776 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTTCACACTT---G---AATGACTGAATCGTCATTTTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094345  99 -  32808036 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTTCACACTT---G---AATGACTGAATCGTCATTTTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284389  99 +  34552619 ATGTTTCCAGTTACTAACAAAGGACATGGAGGATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTTCACACTT---G---AATGACTGAATCGTCATTTTTG
i nomLeu3.chr23             I 1 C 0
s rheMac8.chr11             104590423  99 - 133663169 ATGTTCCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCGGTTTGTCTTCCACACTT---G---AATGACTGAACTGTCATTGTTG
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             108989931  99 - 137757926 ATGTTCCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCGGTTTGTCTTCCACACTT---G---AATGACTGAACTGTCATTGTTG
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1367887  99 -   7948249 ATGTTCCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCGGTTTGTCTTCCACACTT---G---AATGACTGAACTGTCATTGTTG
i macNem1.NW_012011422v1    I 1 C 0
s cerAty1.NW_011999477v1      8268492  99 -  10730278 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTCCACACTT---G---AATGACTGAACCGTCATTGTTG
i cerAty1.NW_011999477v1    I 1 C 0
s chlSab2.chr11             100759466  99 - 128539186 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTCTT-ATTGTCTATAGCCCGGTTTGTCTTCCACACTT---G---AATGACTGAACCGTCATTGTTG
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       154703  99 +    435186 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCCTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTCCACACTT---G---AATGACTGAACCGTCATTGTTG
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3546745  99 +   9309688 ATGTTTCCAGTTACTAACAAAGGACATGGAGAATCTTGTTTTTT-ATTGTCTATAGCCCAGTTTGTCTTCCACACTT---G---AATGACTGAACCGTCATTGTTG
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11378983  98 -  29834108 ATGTTTCCAATTACTAACAAAGGACATGGAGAATCTGGTTTTTC-A-TGTCTATTGCCCAATTTGTCTTCCACATTG---G---AATGACTGAATAGTCATTTTTG
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       832571  99 -   1015025 ATGTTTCCAATTACTAACAAAGGACATGGAGAATCTGGTTTTTT-ATTGTCTATAGCCCAATTTGTCTTCCACATTT---G---AATGACAGTATAGTCATTTTTG
i cebCap1.NW_016107911v1    I 1 C 0
s aotNan1.NW_018488218v1      1853098  96 -   2295209 ATATTTCCAATTACTAACAAGGGACATGGAGAATCTGGTTTTTT-ATTGTCTATAGCCCAATTTGTCTTCCACATTT---G---AATGACTGAATAG---TTGTTG
i aotNan1.NW_018488218v1    I 1 C 0
s micMur3.chr21               2995231  99 +  31815103 ATGTTGCCAGTTACTAACAAAGGACATGGAGAATCTTCTCTTTT-ATTGTCTATATCCCAGTTCCTCTCTTACACTT---G---AATGATTGAATCATCATTGTCG
i micMur3.chr21             I 1 I 107
s proCoq1.NW_012140524v1      5086580  99 +  13104022 ATGTTTCCAGTTACTGACAAAGGACATGGAGAATTTTCTCTTTT-ATTGTCTATATCCCAGTTCCTCTCTTATAGTT---G---AATGATCGAATTGTCATTGTTG
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4555627  96 -  12054995 ATGTTTCTAGCTCCTAACAAAAGACGTGGAGAATCTTCTCTCTT-A---TCTATGTCCAAGTTCCTCTCCTACCCTT---G---AGTGACTGGATCGTTCTTGTTG
i otoGar3.GL873576          I 220 I 7
s mm10.chr6                   2398094  83 - 149736546 ACATTTCCAGCTACTCACAAAGGA-ATACACAATCTTCTCTTCTGACTGACTGT---------------CCAAGCCT---A---AGTGGCTGAACTGTCATCGTT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19710157 100 +  45876710 ATGTTTCTAGTTGCTAACGAAGGATGCAGAGAAACTTCTCTTTT-ACTGTCTTTATTCCATTTC--CTTCCACATTTGTGG---AATGATTGACTCGTCATTGTTG
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             909367  92 -   1687904 ATGTTCCTAGTTGCTAATGAAGGACATGGAGAATCTTCTCTTAT-ATCGTCT--------GTTTCCCTCCCACACTG---GTGAAAGGACTGACTCATCCTTGT--
i dasNov3.JH562883          C 0 C 0

a score=1230405.000000
s hg38.chr12_GL383549v1_alt     63611 108 +    120804 GGGAGACGGGGAGATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAATAAAAAGATGCAACA
s panTro5.chr12              62755119 108 + 137163284 GGGAGACGGGGAGATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879104 108 + 135337776 GGGAGACGGGGAGATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTGGAGCAACAAAAAGAAAGAAAAAGATGCAACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094444 108 -  32808036 GGGAGACGGGGAGATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284488 108 +  34552619 GGAAGACGGAGAGATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAACA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590522 108 - 133663169 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAATAAAAAGAAAGAAAAAGATGCAGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990030 108 - 137757926 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAATAAAAAGAAAGAAAAAGATGCAGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1367986 108 -   7948249 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268591 108 -  10730278 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759565 108 - 128539186 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCTTCCTTGCAGTATATAATCCACTAATTTAAGCAACAAAAAGAAAGAAAAAGATGCAGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154802 108 +    435186 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAATAAAAAGAAAGAAAAAGATGCAGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546844 108 +   9309688 GGAAGATGGGGATATTTGTATGAAAGAAGGATGAATGACATACAGCCTCCTCCTTGCAGTATATTATCCACTAATTTGAGCAACAAAAAGAAAGAAAAAGATGCAGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379081 101 -  29834108 GGAAAACAGCGAGATTTGTATGA---AAGAATGAATGACATACAACCTCCTCCTTGCAGTATATAATCCACTAATTTGAGCAACAAAAAG----GAAAAGATGAAACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832670 104 -   1015025 GGAAGACAGCGAGATTTGTATGAAAGAAGAATGAATGGCATACAACCTCTTCCTTGCAGTATGTAATCCACTAATTTAAGCAACAAAAAG----AAAAAGGTGAAACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853194 104 -   2295209 GGAAGACAGCGAGTTTTGTAGGAAAGAAGAATGAATGACATACAACCTCCTCCTTGCAGTATGTAATCCACAAATTTGAGCAACAAAAAG----AAAAAGATGAAACA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5086679 101 +  13104022 ------CAGGGGCATTTGCGTGGAAGGAGGATAAATGAAATGTAACCTCCTTTTTGCAGTATACAATCCACTAATTTGGACAGGAAAGAGAAAGAAAAAGATACAAA-
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4555730 103 -  12054995 GAGGGACAAGAGGCTTTGCATGGAAGGAGGACAAATGAATTGTGACCTCCTTTTTGCAGTACATAATCCACTAATTTGGACAACAAAGAGAAAGAAAAAGAAA-----
i otoGar3.GL873576          I 7 C 0
s mm10.chr6                   2398177  72 - 149736546 -GGACAATGGGAGATTTTTGTGGAA--------------ATAGAGACTTCCTTTTA---------------TGACTCAGGCAACAAGGAT------AAACATTCAACC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19710257  99 +  45876710 --------GGGAGATTTGTATGGAAGAA-AATAAAAGAAATGCAACTTCTTCCTTGCAGTATATAATCTATTGATTTGAGCAACAAAGAGAATGAATAAGATACAACA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909459  98 -   1687904 AGGAAAATGGAGGATTTGTATGGAAGGAGGA-----GATGTGGAACGTCCTGCTGGCAGTCTATAATCC-CCAGTTTGGTCAATGAAGAG----AAAAGGATGTGACA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2995330 107 +  31815103 I

a score=300164.000000
s hg38.chr12_GL383549v1_alt     63719 22 +    120804 AAACAACTT--AATTTCTAATTCT
s panTro5.chr12              62755227 22 + 137163284 AAACAACTT--AATTTCTAATTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879212 22 + 135337776 AAACAACTT--AATTTCTAATTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094552 22 -  32808036 AAACAACTT--AATTTCTAATTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284596 22 +  34552619 AAATAACTT--AATTTCTAATTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590630 22 - 133663169 AAACAACTT--AATTTCTAATTCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990138 22 - 137757926 AAACAACTT--AATTTCTAATTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368094 22 -   7948249 AAACAACTT--AATTTCTAATTCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268699 22 -  10730278 AAACAACTT--AATTTCTAATTCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759673 22 - 128539186 AAACAACTT--AATTTCTAATTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154910 22 +    435186 AAACAACTT--AATTTCTAATTCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546952 22 +   9309688 AAACAACTT--AATTTCTAATTCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379182 22 -  29834108 AAACAACCT--AATTTCTAATTCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832774 22 -   1015025 AAACAACCT--AATTTCTAATTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853298 22 -   2295209 AAACAACCT--AACTTCTAATTCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995437 22 +  31815103 AAACAACCT--AATTTCTAACGCC
i micMur3.chr21             I 107 C 0
s proCoq1.NW_012140524v1      5086780 22 +  13104022 AAACACCCT--ACTTTCTAACTCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4555833 24 -  12054995 AAACAACCTGAAATTTTTAATTCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2398249 21 - 149736546 -AAAAACTC--GATTTCTATTTTT
i mm10.chr6                 C 0 I 1196
s canFam3.chr27              19710356 17 +  45876710 AAA-----T--AATTTCAAATACT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909557 22 -   1687904 AAACAACTT--CCCGTGTGCTCTC
i dasNov3.JH562883          C 0 C 0

a score=134961.000000
s hg38.chr12_GL383549v1_alt     63741 12 +    120804 AGGATTGCTACA
s panTro5.chr12              62755249 12 + 137163284 AGGATTGCTACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879234 12 + 135337776 AGGATTGCTACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094574 12 -  32808036 AGGATTGCTATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284618 12 +  34552619 AGGATTGCTATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590652 12 - 133663169 AGGTTTGCTATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990160 12 - 137757926 AGGTTTGCTATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368116 12 -   7948249 AGGTTTGCTATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268721 12 -  10730278 AGGTTTGCTATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759695 12 - 128539186 AGGTTTGCTATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154932 12 +    435186 AGGTTTGCTATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546974 12 +   9309688 AGGTTTGCTACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379204 12 -  29834108 AGGATTGCTCTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832796 12 -   1015025 AGGATTGCTATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853320 12 -   2295209 AGGATTGCTATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995459 12 +  31815103 AGGATTGCCATA
i micMur3.chr21             C 0 I 13
s proCoq1.NW_012140524v1      5086802 10 +  13104022 AGGATTGCCA--
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4555857 12 -  12054995 AGGATTGCCTTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19710373 12 +  45876710 AGCGTTATCATA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909579 12 -   1687904 AGCCTTGGCACG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2398270 1196 - 149736546 I

a score=429399.000000
s hg38.chr12_GL383549v1_alt     63753 49 +    120804 TCAGAT-AGGGCTTCCTAATGTTTTTGCAGAAGAAGATCACTTTTTACTT--
s panTro5.chr12              62755261 49 + 137163284 TCAGAT-AGGGCTTCCTAATGTTTTTGCAGAAGAAGATCACTTTTTACTT--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879246 49 + 135337776 TCAGAT-AGGGCTTCCTAATGTTTTTGCAGAAGAAGATCACTTTTTACTT--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094586 49 -  32808036 TCAGAT-AGGGCTTCCTAATGTTTTTGCAGAACAAGATCACTTTTTACTT--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284630 49 +  34552619 TCAGAT-AGGGCTTCCTAATGTTTTTGCAGAAGAAGATCACTTTTTACTT--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590664 46 - 133663169 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990172 46 - 137757926 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368128 46 -   7948249 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268733 46 -  10730278 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759707 46 - 128539186 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154944 46 +    435186 CCAGAT-AGGGCTTCCTAATGTTTTTGC---ACAAGATCACTTTTTACTT--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3546986 46 +   9309688 CCAGAT-AGGGCTTCCTAACGTTTTTGC---ACAAGATCACTTTTTACTT--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379216 49 -  29834108 CCAGAT-AGGGCTTCCTAATGTTTTTACATAAGAAGATCATTTTTTAATT--
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       832808 49 -   1015025 CCAGAT-AGGACTTCCTAATGTTTTTACATAAGAAGATCATTTTTTAATT--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853332 49 -   2295209 CCAGAT-AGGGCTTCCTAATGTTTTTACCTAAGAAGATCATTTTTTAATT--
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5086812 13 +  13104022 -------------------------------------TAATTTTTTAATT--
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4555869 49 -  12054995 CTAGTC-AGTGCCTCTCAATGTTTTTGCATCTGAAGATAATTTTTGAAAT--
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              19710385 50 +  45876710 CTAGATCACTGATTCTCAGTATTTTTTCCTATGAAGGCCATTTTTTAATT--
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             909591 51 -   1687904 GTAGAT-CACGCTTCCCAGGGCCTCTGCATGTGAGGGCCattatttaaattt
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2398270 1196 - 149736546 I
e micMur3.chr21               2995471 13 +  31815103 I

a score=1533059.000000
s hg38.chr12_GL383549v1_alt     63802 137 +    120804 AAAACACAGTCATGTATTCATAT---------CCCCCCACATGCAAACACAAACTGTGTA-CCCCCCTACACACGCAAACAcacataattgtggttgtactttaggtgtgtattatttaataaaatatatagtatccagatgctact
s panTro5.chr12              62755310 137 + 137163284 AAAACACAGTCATGTATTCATAT---------CCCCCCACATGCAAACACAAACTGTGTA-CCCCCCTACACACGCAAACAcacataattgtggttgtactttaggtgtgtgttatttaataaaatatatagtatccagatgctact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879295 137 + 135337776 AAAACACAGTCATGTATTCATAT---------CCCCCCACATGCAAACACAAACTGTGTA-CCCCCCTACACACGCAAACAcacataattgtggttgtactttaggtgtgtgttatttaataaaatacatagtatccagatgctact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094635 137 -  32808036 AAAACACAGTCATGTATTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACGCAAACAcacataattgtggttgtactttaggtgtgtgttatttaataaaatatatagtatccagatgctact
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284679 136 +  34552619 AAAACACAGTCATGTATTCATAT---------CCCCCCACATGCAAACACAAACTATGTA--CCCCCTACACACGCAAACATacataattgtggttgtactttaggtgtgtgttatttaataaaatatatagtatccagatgctact
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590710 137 - 133663169 AAAATACAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACACAAACACACAAACTTgtggttgtactttaggtgtgtgttatttaataaaatgtatagtatccagatgctact
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990218 137 - 137757926 AAAATACAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACACAAACACACAAACTTgtggttgtactttaggtgtgtgttatttaataaaatgtatagtatccagatgctact
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368174 137 -   7948249 AAAATACAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACACAAACACACAAACTTgtggttgtactttaggtgtgtgttatttaataaaatgtatagtatccagatgctact
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268779 137 -  10730278 AAAATACAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACACAAACAcacaaaattgtggttgtactttaggtgtgcgttatttaataaaatgtatagtatccagatgctact
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759753 137 - 128539186 AAAATTCAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTACCCCCCCTACACACGCAAAcacat-taattgtggttgtactttaggtgtgtgttatttaataaaatgtatagtatccagatgctact
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       154990 137 +    435186 AAAATACAGTCATGTAGTCATAT---------CCCCCCACATGCAAACACAAACTATGTA-CCCCCCTACACACACAAACAcacaaaattgtggttgtactttaggtgtgtgttatttaataaaatgtatagtatccagatgctact
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3547032 135 +   9309688 AAAA--CGGTCATGAAGTCATAT---------CCGCCCACATGCAAACACAAACTATGTA-CCCCCCTACACATGCAAACAcacataattgtggttgtactttaggtgtgtgttatttaataaaatatatagtatccagatgctact
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379266 136 -  29834108 AAAAAACAGTCATGTATTCATAT---------CCCCCCACACACAAACACAAACCATGT--TCCCCCTACACATGCAAACAcacacaattgtggttgtactttaggtgtgtgttatttagtaaaacatgtagtatccagatgctact
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       832857 136 -   1015025 AAAAAACAATCATGTATTCATAT---------CCCCCCACACCCAAACACAAACCATGT--TCCCCCTACACATGCAAACAcacacaattgtggttgtactttaggtgtgtgttatttagtaaaacatgtagtatccagatgctact
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853381 134 -   2295209 AAAAAACAGTCATGTATTCATAT---------CCCCACACACACAAACACAAACCATGTA-CCCCCCTACACATGCAAACAcacacaattgtggttgtactttaggtgtg---tatttagtaaaacatgtagtatccagatgctact
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995484 112 +  31815103 AAAAAACAGTCATGAACACATAT---------TCCCCCACACACAAACA--------------------------CAAACAcatgtgattgtggttgtacctcttgtgtatgttatttagcaaaacatatattaatcagatgttact
i micMur3.chr21             I 13 C 0
s proCoq1.NW_012140524v1      5086826 112 +  13104022 AAAAAACAGTCACAAACACACAT---------CCCCCCACACACAAATA--------------------------CAAACATacacgattgtggttgtacttcttgtgtatgttatttagtaaaatgtatattaatcagatgctact
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4555920 108 -  12054995 AAGAAACAGTCATGAACACATCT---------CTCCATACACACACACA--------------------------TACAGAcacacgattgtggctgtatttggggtgtatgttatttagtaaaatata----aataagatgttact
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19710436 109 +  45876710 AAAAAGCAATCATCAACACATAC--------------------------------------CACACATACACATGCAAGCAcacaaaattgtggttatgtttttggtgtatgttatttaggaaagtacataatctgatactgctact
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             909642 127 -   1687904 aaaaaataGTCATGGGCAGACATGTAAAATGCCCCCCCACATACACACA-----AATGCA---------------CACACGcacgtgatttcagttttactgttggtgtttgttagtttggagaatatatgctaattaggtgctact
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2398270 1196 - 149736546 I

a score=605105.000000
s hg38.chr12_GL383549v1_alt     63939 49 +    120804 atgttttca-gaaagctttcaataaatttctattttaagtaattaatttt
s panTro5.chr12              62755447 49 + 137163284 atgttttca-gaaagctttcaataaatttctattttaagtaattaatttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879432 49 + 135337776 atgttttca-gaaagctttcaataaatttctattttaagtaattaatttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094772 48 -  32808036 atg-tttca-gaaagctttcaataaatttctattgtaagtaattaatttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284815 49 +  34552619 atgttttca-gaaagctttcaataaatttctattttaagtaattaatttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590847 49 - 133663169 atgttttca-gaaagcttacaataaatttatattttaattaattaatttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990355 49 - 137757926 atgttttca-gaaagcttacaataactttatattttaattaattaatttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368311 49 -   7948249 atgttttca-gaaagcttacaataaatttatattttaattaattaatttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268916 49 -  10730278 atgttttca-gaaagctttcaattaatttatattttaattaattaatttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759890 49 - 128539186 atgttttca-gaaagctttcaacaaatttatattttaattaattaatttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       155127 49 +    435186 atgttttca-gaaagctttcaataaatttatattttaattaattaatttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3547167 49 +   9309688 atgttttca-gaaagctttcaataaatttatattttaattaattaATTTT
i colAng1.NW_012114364v1    C 0 I 1871
s saiBol1.JH378123           11379402 49 -  29834108 atgtgttca-gaaagcttaaaataaatttatattttaatcaattaatttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       832993 49 -   1015025 atgtgttca-gaaagcttaaaataaatttatattttaatcaattaatttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853515 49 -   2295209 acatgttca-gaaagcttaaaataaatttatattttaatcaattaatttt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995596 49 +  31815103 atgtgttca-gaaagctttaaatgaatttatattttaattaattaATTTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5086938 49 +  13104022 atgtgttca-gaaagctttaaatgaatttatattttaattaattgatttt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4556028 45 -  12054995 atgtgttca-gaaagctttacatgaatttatatttcaatta----atttt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2399466 46 - 149736546 ACATTTTCATGAAAGAATATAATGTATT----TTGTCCATAGTTAATTTT
i mm10.chr6                 I 1196 C 0
s canFam3.chr27              19710545 37 +  45876710 agctattaa-gaaacatttaaacgaatttctattttaa------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909769 42 -   1687904 aaatgttga-gaaacattgaaatgaatttatagtttaaacaat-------
i dasNov3.JH562883          C 0 C 0

a score=299910.000000
s hg38.chr12_GL383549v1_alt     63988 24 +    120804 aagagttaatcacaggggcatcta
s panTro5.chr12              62755496 24 + 137163284 aagagttaatcacaggggcatcta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879481 24 + 135337776 aagagttaatcacaggggcatcta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094820 24 -  32808036 aagagttaatcacaggggcatcta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284864 24 +  34552619 aagagttaatcacaggggcatcta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590896 24 - 133663169 aagagttaatcacaggggcatcta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990404 24 - 137757926 aagagttaatcacaggggcatcta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368360 24 -   7948249 aagagttaatcacaggggcatcta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268965 24 -  10730278 aagagttaatcacaggggcatcta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759939 24 - 128539186 aagagttaatcacaggggcatcta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       155176 24 +    435186 aagagttaatcacaggggcatcta
i manLeu1.NW_012101287v1    C 0 C 0
s saiBol1.JH378123           11379451 24 -  29834108 aagagttaatcacaggggcatcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       833042 24 -   1015025 aagagttaatcacaggggcatcta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853564 23 -   2295209 aagagttaatcaca-ggccatcta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995645 24 +  31815103 AAGAGTTAATCATAAGGGCATCTA
i micMur3.chr21             C 0 I 88
s proCoq1.NW_012140524v1      5086987 24 +  13104022 aagagttaatcataagggcatcta
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4556073 24 -  12054995 aagagtgaattataaggccatcta
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2399512 15 - 149736546 ---------TTAAAAGGCTATCTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19710582 19 +  45876710 -----ctaaccataaagccattta
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909811 14 -   1687904 ----------cataggaacatcga
i dasNov3.JH562883          C 0 C 0
e colAng1.NW_012114364v1      3547216 1871 +   9309688 I

a score=5502.000000
s hg38.chr12_GL383549v1_alt     64012 1 +    120804 t
s panTro5.chr12              62755520 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879505 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094844 1 -  32808036 t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284888 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590920 1 - 133663169 c
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990428 1 - 137757926 c
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368384 1 -   7948249 c
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268989 1 -  10730278 c
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759963 1 - 128539186 c
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       155200 1 +    435186 c
i manLeu1.NW_012101287v1    C 0 C 0
s saiBol1.JH378123           11379475 1 -  29834108 t
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       833066 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853587 1 -   2295209 t
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5087012 1 +  13104022 t
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4556097 1 -  12054995 t
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2399527 1 - 149736546 T
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19710601 1 +  45876710 t
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909825 1 -   1687904 c
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2995669 88 +  31815103 I
e colAng1.NW_012114364v1      3547216 1871 +   9309688 I

a score=1059758.000000
s hg38.chr12_GL383549v1_alt     64013  93 +    120804 atacatttgaaatacaactgtgcctaaatacagaagatat--tttag------agtcaca---------ggtata-cctatggactcatacattcctaataatagcactga
s panTro5.chr12              62755521  93 + 137163284 atacatttgaaatacaactgtgcctaaatacagaagatat--tttag------agtcaca---------ggtata-cctatggactcacacattcctaataatagcactga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879506  93 + 135337776 atacatttgaaatacaactgtgcctaaatacagaagatat--tttag------agtcaca---------ggtata-cctatggactcacacattcctaataatagcactga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094845  93 -  32808036 atccatttgaaatacaactgtgcctaaatacagaagatat--tttag------agtcaca---------ggtata-cctatggactcatacattcctaataatagcactga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284889  93 +  34552619 atacatttgaaatacagctgtgcctaaatatagaagatat--tttag------agtcaca---------ggtata-cctatgggctcatacattcctaataatagcactga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104590921  93 - 133663169 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaa------agccaca---------gttata-cctatggactcatacattcctaataatagcactga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990429  93 - 137757926 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaA------AGCCACA---------GTTATA-CCTATGGACTCATACATTCCTAATAATAGCACTGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368385  93 -   7948249 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaa------agccaca---------gttata-cctatggactcatacattcctaataatagcactga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8268990  93 -  10730278 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaa------agccaca---------gttata-cctatggactcatacattcctaataatagcactga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100759964  93 - 128539186 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaa------agccaca---------gttaca-cctatggactcatacattcctcataatagcactga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       155201  93 +    435186 atacatttgaaatacaactgtgcctaaatggagaagatat--tttaa------agccaca---------gttata-cctatggactcatacattcctaataatagcactga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3549087  93 +   9309688 ATACATTTGAAATACAACTGTGCCTAAATGTAGAAGATAT--TTTAA------AGCCACA---------GTTATA-CCTATGGACTCATACATTCCTAATAATAGCACTGA
i colAng1.NW_012114364v1    I 1871 C 0
s saiBol1.JH378123           11379476  93 -  29834108 acacatttgaattacagctgtgtctatatgtagaaaatat--attta------agccaca---------ggtata-cctatggactcatacattcctaataatagcactga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       833067  93 -   1015025 atacatttgaaatacaaatgtgcctatatgtagaaaatat--attta------agccaca---------ggtata-cctatggactcatacattcctaataatagcactga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853588  93 -   2295209 atacatttgaaacacaaccgttcctaagtgtagaaaatat--attta------agccaca---------ggtata-cctatggactcatacattcctaataatagcactga
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5087013  91 +  13104022 atccatctgaagtgtcacagtgcataaatgcagaagatat--ttttaagtcacaggcatg------tttggtaca-cctacggactc--AGATTCCTAACAC---------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4556098  98 -  12054995 attcatctgaaatgtaacagtgcataaatgtaaaaggtattatttta------aggcatg------gttggtaca-catgtggactcataaattcctaacaatagctctgg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2399528  98 - 149736546 AAACATTCCAAAAATAGCAACACATACATATAGAAGACAC--TGTAG----GTAGGCATT------CTCAATACA-TCCCCAGACTTAAAGATTCCTCGGAATAACACTGA
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19710602 102 +  45876710 acacttttgaaaaacaataatgcatatatgtagaagatat--tttga------agccacagacatatttggtaca-ccaatagattcacagatttctgataatagcattag
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             909826  98 -   1687904 acgcatttgaaaaagaa---tgcatataagcagcagacat--tttta------agccaccagcatgcttggtacaccctatgaattc--agattcctaatcctagcacaag
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2995669  88 +  31815103 I

a score=23220627.000000
s hg38.chr12_GL383549v1_alt     64106 1594 +    120804  
s panTro5.chr12              62755614 1588 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60879599 1588 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3094938 1587 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7284982 1590 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104591014 1573 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108990522 1573 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1368478 1573 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8269083 1585 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100760057 1584 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       155294 1580 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3549180 1576 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11379569 1580 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       833160 1579 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1853681 1580 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2995757 1575 +  31815103  
i micMur3.chr21             I 88 I 79
s proCoq1.NW_012140524v1      5087104 1576 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 21
s otoGar3.GL873576            4556196 1553 -  12054995  
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2399630 1543 - 149736546  
i mm10.chr6                 I 4 I 8
s canFam3.chr27              19710704 1555 +  45876710  
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             909924 1519 -   1687904  
i dasNov3.JH562883          C 0 I 1

a score=178453.000000
s hg38.chr12_GL383549v1_alt     65700 17 +    120804 AGGGCAACTTGTAATCA---
s panTro5.chr12              62757202 17 + 137163284 AGGGCAACTTGTAATCA---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881187 17 + 135337776 AGGGCAACTTGTAATCA---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096525 17 -  32808036 AGGGCAACTTATAATCA---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286572 17 +  34552619 AGGGCAACTTGTAATCA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592587 17 - 133663169 AGGGCAACTTGCAATCA---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992095 17 - 137757926 AGGGCAACTTGCAATCA---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370051 17 -   7948249 AGGGCAACTTGCAATCA---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270668 17 -  10730278 AGGGCAACTTGCAATCA---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761641 17 - 128539186 AGGGCAACTTATAATCA---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       156874 17 +    435186 AGGGCAACTTGCAATCA---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3550756 17 +   9309688 AGGGCAACTTGTAATCA---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381149 17 -  29834108 AGGGCAACCTGTAATCA---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834739 17 -   1015025 AGGGCAACCTGTAATCA---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855261 17 -   2295209 AGGGCAACCTGTAATCA---
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4557750 17 -  12054995 AGGGTAAGGTGTAAACA---
i otoGar3.GL873576          I 1 I 3
s mm10.chr6                   2401181 16 - 149736546 GGGGCAACCCTTACTC----
i mm10.chr6                 I 8 C 0
s canFam3.chr27              19712260 17 +  45876710 agcataccctatagcta---
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             911444 20 -   1687904 AGAGCAAGGTGTAATCTCCA
i dasNov3.JH562883          I 1 C 0
e micMur3.chr21               2997332 79 +  31815103 I
e proCoq1.NW_012140524v1      5088680 21 +  13104022 I

a score=597475.000000
s hg38.chr12_GL383549v1_alt     65717 60 +    120804 TCACA--AGAGCTTGCAATAACAATAAGCAAAATTTCTTAGTGGAAAAACCAAAGATACAGA
s panTro5.chr12              62757219 60 + 137163284 TCACA--AGAGCTTGCAATAACAATAAGCAAAATTTCTTAGTGGAAAAACCAAAGATACAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881204 60 + 135337776 TCACA--AGAGCTTGCAATAACAATAAGCAAAATTTCTTAGTGGAAAAACCAAAGATACAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096542 60 -  32808036 TTACA--AGAGCTTGCAATAACAATAAGCAAAATTTCTTAGTGGAAAAACCAAAGATACAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286589 60 +  34552619 CCACA--AGAGTTTGCAGTAACAATAACCAAAATTTCTTGGTGGAAAAATCAAAGATACAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592604 60 - 133663169 CCATA--AGAGCTGGGAATAATGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992112 60 - 137757926 CCATA--AGAGCTGGGAATAATGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370068 60 -   7948249 CCATA--AGAGCTGGGAATAACGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270685 60 -  10730278 CCATA--AGAGCTGGGAATAACGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761658 60 - 128539186 CCACA--AGAGCTCGGAATAACGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       156891 60 +    435186 CCATA--AGAGCTGGGAATAACGATAACCAAAATTTCTTGGTGGAAAAACCAAAGATACAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3550773 60 +   9309688 CCACA--AGAGCTGGGAATAACGATAACCAAAATTTCTCAGTGGAAAAACCAAAGATACAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381166 58 -  29834108 CGAAA--AGAGCTGGCAATAAGAATAACCAAAGTTTCTCAGTGAAAAAACC--AGATACAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834756 58 -   1015025 CCAAA--AGAGCTGGCAATAACAATAACCAAAGTTTCTTGGTGAAAAAACC--AGATACAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855278 58 -   2295209 CCAAA--AGAGCTGGCAATAACAATAACCAAAGTTTCTCGGTGGAAAAACC--AGATACAGA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5088701 58 +  13104022 ccata--agagctgg-aataatgatgatccaagttcctctgtggaaagaccaaagatacag-
i proCoq1.NW_012140524v1    I 21 C 0
s otoGar3.GL873576            4557770 58 -  12054995 CCGTG--AGAGCTGG-AAGAATGATGACCAAAGTTCCTCTGTAGAAAGACTGAAGATACAG-
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2401197 51 - 149736546 ---TA--AGAAT---GGAGAACTATGGGTAAAGTCTCTCTGTGGGTATA--AAAGACACAG-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19712277 59 +  45876710 ccaccGTAGAGCAGAGGTTGCTAATG-CCAAAGCTTCTCTGTGGAAAGACCAAA-ATACAG-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             911464 59 -   1687904 CCGCG--AGGGCTGGGAACACGAGTGACCACGAGGCCTGCACGGAAAGACCGCAGCTGCAG-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2997332 79 +  31815103 I

a score=1459218.000000
s hg38.chr12_GL383549v1_alt     65777 124 +    120804 AAAATCTAT---GAGAAAATTAT--ACTTTCCACTATAGGAGTTTCCTTTACAGACTGATTTGGGGCAATAATTGGTCTAAAACTAGGCAAAAAGGAGAAGAAACATTTGATTTGGAGGCCTTC-GATCC
s panTro5.chr12              62757279 124 + 137163284 AAAATCTAT---GAGAAAATTAT--ACTTTCCACTATAGGAGTTTCCTTTACAGACTGATTTGGGGCAATAATTGGTCTAAAACTAGGCCAAAAGGAGAAGAAACATTTGATTTGGaggccttc-gatcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881264 124 + 135337776 AAAATCTAT---GAGAAAATTAT--ACTTTCCACTATAGGAGTTTCCTTTACAGAATGATTTGGGGCAATAATTGGTCTAAAACTAGGCCAAAAGGAGAAGAAACATTTGATTTGGaggccttc-gatcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096602 124 -  32808036 AAAATCTAT---GAGAAAATTAT--ACTTTCCACTATAGGAGTTTCCTTTACAGACTGATTTGGGGCAATAATTGGTCTAAAACTAGGCAAAAAGGAGAAGAAACATTTGATTTGGaggccttc-gatcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286649 124 +  34552619 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCCTTTAGAGACTGATTTGGGGCAATAATTGGTCTAAAACTGGGCAAAAAGGAGAAGAAACATTTGATTTGGAGGCCTTC-GATCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592664 123 - 133663169 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992172 123 - 137757926 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370128 123 -   7948249 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270745 123 -  10730278 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761718 123 - 128539186 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       156951 123 +    435186 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCAGTATAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3550833 123 +   9309688 AAAATCTAT---GGGAAAATTAT--ACTTTCCACTATAGGAGTTTCTTTTATAGACTGATTTGGGGCAATAATCGGTCTAAAACTAGGC-AAAAGGAAAAGAAACATTTGATTTGGAGGACTTC-GATCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381224 100 -  29834108 AAAATCTAT---GGGAAAATTTT--ACTTTCCAC----------------------TGGTATGGGGCAATAATTGGTCTGAAACTAGGC-AAAAAGGGAGAAAACATTTGATTTGGAGACCTT--GATCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834814 100 -   1015025 AAAATCTAT---GGGAAAGTTAT--ACTTTCCAC----------------------TGGTATGGGGCAATAATTGGTCTAAAACTAGGC-AAAAGGGGAGAAAACATTTGATTTGGAGAcctt--gatcc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855336 100 -   2295209 AAAATCTAT---GGGAAAATTAC--ACTTTCCAC----------------------TGGTATGGGGCAATAATTGGTCTAAAACTAGGC-AAAAGGGGAGAAAACGTTTGATTTGGAGAcctt--gatcc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2997411 122 +  31815103 AAGACCTAC---AGAAAAATTAC--ACTTTCCACCATA-AATTTTCCTTTACAGGCTGGTTTGGGGCAATGATAGGCCTAAAACTAGGT-AAAAGGGGCAGAAACATTGGATCTGGAGGcctct-gatcc
i micMur3.chr21             I 79 C 0
s proCoq1.NW_012140524v1      5088759 123 +  13104022 aagatctac---agaaaaattac--actttccaccatagaaatttcctttacagactagTTTGGGATAATAATAGGCCTAAAACTAGGT-AAAAGGGGCAGAAACATCAGACTTGGAGGcctct-gatcc
i proCoq1.NW_012140524v1    C 0 I 30
s otoGar3.GL873576            4557828 126 -  12054995 AAGATCTGTGGGGGAAAAATCAT--ACTTTCCATTAGAGAAGTTTTCTTTACAGACTGGTTTGGGGCAATAGCAGACTTAAAACTAGGT-AAAAAGGATGAAAGCATTGGCTTTGGAGGCCTCT-GACCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2401248  84 - 149736546 AAAATAGAA---AGGACAATCAC--ACTTTCCATTGTTACAGTTTCTTTG----------------------------------------CAAAGGGGCAGAGACTTCTGATTTGGAAGCCTCT-GAGGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19712336 125 +  45876710 AAGATTTGT---GAAAAAAAAATTAACTTTCCACTATAGAAGCTTCTTTTTCAGTCTGGTTATGGGCAATAATAGGTCTAAAACTAGGT-GAAAGAGGTAGAAACGTTTTATCTGAAGGCTTTT-GATCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             911523  98 -   1687904 AAGGTTGAT---GGAAAAATTAC--GCTCTCCGCCATAGAGGTTTCCCT----GGTTGGTTTGGGGC-----------------------AAAAGAGGCGGGAAGCTTTGACCGGGCGGCCTTCTGATCC
i dasNov3.JH562883          C 0 C 0

a score=156511.000000
s hg38.chr12_GL383549v1_alt     65901 15 +    120804 AAAATGTCTTTCCAC
s panTro5.chr12              62757403 15 + 137163284 aaaatatctttccac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881388 15 + 135337776 aaaatgtctttccac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096726 15 -  32808036 aaaatgtatttccac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286773 15 +  34552619 AAAATGTCTTTCCAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592787 15 - 133663169 AAAACGTCTTTCTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992295 15 - 137757926 AAAACGTCTTTCTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370251 15 -   7948249 AAAACGTCTTTCTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270868 15 -  10730278 AAAACGTCTTTCCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761841 15 - 128539186 AAAACGTCTTTCCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157074 15 +    435186 AAAACGTCTTTCCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3550956 15 +   9309688 AAAACGTCTTTCCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381324 15 -  29834108 AAAATGTCTTTCCAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834914 15 -   1015025 aaaatgtctttccac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855436 15 -   2295209 aaaacgcctttccac
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2997533 15 +  31815103 aaaatattttcccac
i micMur3.chr21             C 0 I 15
s otoGar3.GL873576            4557954 14 -  12054995 ACAATATTTTCCCA-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2401332  6 - 149736546 -AAATAC--------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19712461 14 +  45876710 -AAATAGCTTCCCAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             911621 15 -   1687904 AACCTCTCCTCCCAC
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5088882 30 +  13104022 I

a score=308547.000000
s hg38.chr12_GL383549v1_alt     65916 31 +    120804 CTTCCCTTCAGAGGGCA-GCTGACATTGATCA
s panTro5.chr12              62757418 31 + 137163284 cttcccttcagagggca-gctgacattgatca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881403 31 + 135337776 cttcccttcagagggca-gctgacattgatca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096741 31 -  32808036 cttcccttcagagggca-gctgacattgatca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286788 31 +  34552619 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592802 31 - 133663169 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992310 31 - 137757926 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370266 31 -   7948249 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270883 31 -  10730278 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761856 31 - 128539186 CTTCCTTTCAGAGGGCA-GCTGACATTGAGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157089 31 +    435186 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3550971 31 +   9309688 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381339 31 -  29834108 CTTCCCTTCAGAGGGCA-GCTGACATTGAGCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834929 31 -   1015025 cttcccttcagagggca-gctgacattgagca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855451 31 -   2295209 cttcccttcagagggca-gctgacattgatca
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4557968 19 -  12054995 -------------GACAGGCTGATATGGAACA
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2401338 26 - 149736546 CTTCCCAT-----AGTG-GTGGATGCTAAGCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19712475 18 +  45876710 -------------AGTG-ACCGATACTGAGCA
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             911636 18 -   1687904 -------------TGTG-GCTGCTGGGGAGCT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               2997548 15 +  31815103 I
e proCoq1.NW_012140524v1      5088882 30 +  13104022 I

a score=6143641.000000
s hg38.chr12_GL383549v1_alt     65947 520 +    120804  
s panTro5.chr12              62757449 517 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881434 519 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3096772 521 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7286819 519 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104592833 513 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992341 513 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370297 513 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8270914 514 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100761887 514 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157120 514 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551002 515 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381370 498 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       834960 494 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855482 496 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2997563 553 +  31815103  
i micMur3.chr21             I 15 C 0
s proCoq1.NW_012140524v1      5088912 528 +  13104022  
i proCoq1.NW_012140524v1    I 30 C 0
s otoGar3.GL873576            4557988 501 -  12054995  
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2401364 459 - 149736546  
i mm10.chr6                 C 0 I 125
s canFam3.chr27              19712494 536 +  45876710  
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             911654 430 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=737072.000000
s hg38.chr12_GL383549v1_alt     66467 49 +    120804 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGTCTTCCTT
s panTro5.chr12              62757966 49 + 137163284 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGTCTTCCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60881953 49 + 135337776 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGTCTTCCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097293 49 -  32808036 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGTCTTCCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287338 49 +  34552619 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593346 49 - 133663169 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992854 49 - 137757926 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370810 49 -   7948249 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271428 49 -  10730278 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762401 49 - 128539186 AAAATAAACTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157634 49 +    435186 ATAATAATCTTAACCACAAAGATAATAGAGCATAGATTAAGCCTTCCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551517 49 +   9309688 ATAATAATCTTAACCACGAAGATAATAGAGCATAGATTAAGCCTTCCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381868 49 -  29834108 ATAATAACCTTAACCACAAACGTAATAGAGCATCAATTAAACCTTCCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835454 49 -   1015025 ATAATAACCTTAACCACAGAGATAATAGAGCATCAATTAAACCTTTCTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1855978 49 -   2295209 ATAATAACCTTAACCACAAAGATAATAGAGCATCGATTAAACCTTCCTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998116 49 +  31815103 ATAATAATCTTAACCACAAAGATAATCGTGCATAGCTTAAGGCTTCCTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5089440 49 +  13104022 ATAATAATCTTAACCACAAAGATAATCGTGGATAGCTTAAGGCTTCCTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4558489 49 -  12054995 ATAATAATCTTAACCACTAAGATAATTGTGCATAGCTTACGTCTTCTTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2401948 49 - 149736546 ataataatattaGCCAAAAAGATAAAAATTCACATGCTAAACCTTCTTT
i mm10.chr6                 I 125 C 0
s canFam3.chr27              19713030 49 +  45876710 ATAGCAATTTTAAGTAAAAAGACAATAATGCATGGATTAAACCTTTCCT
i canFam3.chr27             C 0 I 217
s dasNov3.JH562883             912084 48 -   1687904 ATAATAATCTTAGCCAAAAAGATAACAGCGCATGGATTCAGCTTTCTT-
i dasNov3.JH562883          C 0 C 0

a score=894748.000000
s hg38.chr12_GL383549v1_alt     66516  66 +    120804 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCT-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
s panTro5.chr12              62758015  66 + 137163284 TAATAGTTTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882002  66 + 135337776 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAACTCCTTTGAATTTAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097342  63 -  32808036 TAATAGT----TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287387  66 +  34552619 TAATAGACTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593395  66 - 133663169 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992903  66 - 137757926 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370859  66 -   7948249 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271477  66 -  10730278 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762450  66 - 128539186 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157683  66 +    435186 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551566  66 +   9309688 TAATAGATTG-TTTCAGACCAAGAGAAA------------------------------------TGTATTCC-TGGTCATA--CAGTAAAGCTCCTTTGAATTTAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381917  66 -  29834108 TAATACATTG-TTTTAGACCAAGAGAAA------------------------------------TGTATTCT-TGGTCATA--TAGTAAAGCTCCTTTGAATTTAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835503  66 -   1015025 TAATATATTG-TTTTAAACCAAGAGAAA------------------------------------CATATTCC-TGGTCATA--TAGTAAAGCTCCTTTGAATTTAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856027  66 -   2295209 TAATATATTG-TTTTAGACCAAGAGAAA------------------------------------TGTATTCC-TGGCCATA--TAGTAAAGCTTCTTTGAATTTAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998165  66 +  31815103 TAATATATCA-TTTTAGGCCAAGAGAAT------------------------------------TGTATTCC-TGATCATA--CAGGAAAGCTCCTTTGAATTCAC
i micMur3.chr21             C 0 I 84
s proCoq1.NW_012140524v1      5089489  66 +  13104022 TAATGTATCA-TTTTAGGCCAAGAGAAT------------------------------------CGTACCCC-TGATCATA--TAGGAAAGCTCCTTTGAATTTAC
i proCoq1.NW_012140524v1    C 0 I 6
s otoGar3.GL873576            4558538  59 -  12054995 GAATATATCATTTTTAGGCCAAGAGACA------------------------------------TGTATAC--------TA--CAGT-AAGAGCCTTTAAATTCAC
i otoGar3.GL873576          C 0 I 6
s mm10.chr6                   2401997  67 - 149736546 TAATAGATCA-CTTCAGACCAAGAAGAA-------------------------------------ATATGCCATGATCACAT-CAGGACAGCTTCATAGCATGTAT
i mm10.chr6                 C 0 I 7
s canFam3.chr27              19713296 102 +  45876710 CAATATATCA-TTTTAGATCAAGGGAAAGATCTGAAGGAAAGATCAAGGGAAATATAGATCAACTGTATTCA-TAATCATA--TAACAAAACTCCTCTGAATTTAC
i canFam3.chr27             I 217 I 6
s dasNov3.JH562883             912132  68 -   1687904 TAATATGTAA-TTTGAGACCAAGGGCAA------------------------------------TGTCTTCA-TAGTCATATGCAGAGGTGCTTCTCTGAATTTAC
i dasNov3.JH562883          C 0 I 5

a score=791178.000000
s hg38.chr12_GL383549v1_alt     66582  77 +    120804 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAATTTGGAAAAGCAAACACAGTG-----G----------G------TTTTGTTTTGGT
s panTro5.chr12              62758081  77 + 137163284 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAATTTGGAAAAGCAAACACAGTG-----G----------G------TTTTGTTTTGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882068  77 + 135337776 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAATTTGGAAAAGCAAACACAGTG-----G----------G------TTTTGTTTTGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097405  77 -  32808036 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAATTTGGAAAAGCAAACACAGTG-----G----------G------TTTTGTTTTGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287453  87 +  34552619 CCGGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAACTTGGAAAAACAAACGCAGTA-----Ggttttgttttg------ttttgttttgtt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593461  77 - 133663169 CCAGTAATTGCTAC-----------------------TGCATACTGGTGTAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTG-----G----------C------TTTGGTTTTGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108992969  77 - 137757926 CCAGTAATTGCTAC-----------------------TGCATACTGGTGTAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTG-----G----------C------TTTGGTTTTGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1370925  77 -   7948249 CCAGTAATTGCTAC-----------------------TGCATACTGGTGTAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTG-----G----------C------TTTGGTTTGGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271543  77 -  10730278 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTG-----G----------G------TTTGGTTTTGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762516  82 - 128539186 CCAGTAATTGCTAC-----------------------TGCATACTGGTGTAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTGggtttg----------g------tttggtttggtt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157749  82 +    435186 CCAGTAATTGCTAC-----------------------TGCATACTGGTGTAACTGAAGAATTTAACTGGGAAAAAGAAACACAGTGggtttg----------g------tttggtttggtt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551632  77 +   9309688 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAACTGAAGAATTTAACTTGGAAAAAGAAATACAGTG-----G----------G------TTTGGTTTGGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11381983  77 -  29834108 CTAGTAATTGCTAC-----------------------TGCATACTGGTATAATTGAAGAATTTAACTTGGAAAAAGAAACACAGTA-----G----------G------TTTGGTTTTGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835569  77 -   1015025 CTAGTAATTGCTAC-----------------------TGCATACTGGTATAATTGAAGAATTTAACTTGGAAAAAGAAGCACAGTA-----G----------G------TTTTGCTTTGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856093  82 -   2295209 CCAGTAATTGCTAC-----------------------TGCATACTGGTATAATTGAAGAATTTAACTTGGAAAAAGAAACACAGTA-----G-----gttttg------ttttgttttgtt
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5089561  76 +  13104022 CCAGTAATTTTTAA-----------------------TGCCTAGTGGTATAATTGAGGAATTTAACTTGGAAAAAGAAAGA-AGTG-----G----------G------GTTGGTTATTTT
i proCoq1.NW_012140524v1    I 6 I 1
s otoGar3.GL873576            4558603  76 -  12054995 ATAGTAATTTCTAA-----------------------TGTATCCCAGCGCAATCGAAGAATTTGACCTGGAAAAAGACAGA-AGTG-----G----------G------GTGGAGTGTTTG
i otoGar3.GL873576          I 6 C 0
s mm10.chr6                   2402071  66 - 149736546 TGGATACTTACCA------------------------TATAAACTAATAAAATTAAAGAATTTAACATAGAAGATGGTGTGAAG-------A----------C------TTTT--------
i mm10.chr6                 I 7 C 0
s canFam3.chr27              19713404 101 +  45876710 CCAGTAATTTCTAAAGCTGTATTTTTAATACACTATGTACATACCAGCAAAATTGCAAAGTTTAACTTCGAAAAAAA-----AGTG-----A----------GCATTTTTTTTGTTTTGTT
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             912205  70 -   1687904 CCAGTAAGTCCTAC-----------------------TGCAGACGGGTATCACTGAAGGATTTAACTCGG-----GAAACACAGAG-----G----------A----CTTTTGGTGT----
i dasNov3.JH562883          I 5 C 0
e micMur3.chr21               2998231  84 +  31815103 I

a score=2113336.000000
s hg38.chr12_GL383549v1_alt     66659 168 +    120804 TTGTTTTAAACTGAAAAACTGCAT-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAGCAAAAG-TAAGTTAGGAAAA----CACATTT--ACTAGGATTTT--GCA----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
s panTro5.chr12              62758158 168 + 137163284 TTGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----CCTTGTTCAACATGGTAGAGCAAAAG-TAAGTTAGGAAAA----CACATTT--ACTAGGATTTT--GCG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882145 167 + 135337776 TTGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAGCAAAAG-TAA-TTAGGAAAA----CACATTT--ACTAGGATTTT--GCG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097482 167 -  32808036 TTGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----T-TTGTTCAACATGGTAGAGCAAAAG-TAAGTTAGGAAAA----CACATTT--ACTAGGATTTT--GCG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287540 168 +  34552619 ttgttttAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATTGTACAGCAAAAG-TAAGTTAGGAAAA----CACATTC--ACTAGGATTTT--GCG----ATTATTTTTCTATTCTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593538 164 - 133663169 TTGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACATTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993046 164 - 137757926 TGGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTGTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACATTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371002 164 -   7948249 TTGTTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACATTT--CCTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271620 164 -  10730278 TTGTTTTAAGCTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACAGTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762598 164 - 128539186 tggtttTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACATTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157831 164 +    435186 tggtttTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAACACAAG-----TTAGGAAAA----CACAGTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATTTGTTGTTTGCCTTTCCTGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551709 164 +   9309688 TTGCTTTAAACTGAAAAACTGCAC-AATATGTTTCTAGTTTCACATATGTCTACT----TCTTGTTCAACATGGTAGAGCACAAG-----TTAGGAAAA----CACATTT--ACTAGGATTTT--GAG----ATTATTTTTCTATTTTTATTTAATCTATTTTCATATGTTGCTTGCCTTTCCTGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382060 158 -  29834108 TTGTTTTAAA---------------AACATGTTTCTAGTTTCACATATGTGCACC----TCTTGTTCAACATGATAGAGCAAAAG-TAAGTCTGGAAAACAGTCACATTT--ACTAGGGTTTT--GTG----ATTATTTTTCTATTTTTATTTAATCTATTTCCATTTGCTGTTTGCCTTTCCTGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835646 158 -   1015025 TCGTTTTAAA---------------AATATGTTTCTAGTTTCACATATGCGTACC----TCTTGTTCAACATGATAGAGCAAAAG-TAGGTTTGGAAAACAGTCACATTT--ACTAGGTTTTT--GTG----ATTATTTTTCTATTTTTATTTAATCTATTTCCACTTGCTGTTTGCCTTTCCTGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856175 158 -   2295209 ttgttttAAA---------------AATATGTTTCTAGTTTCACATATGTGTACC----TCTTGTTCAACATGGTAGAGCAAAAG-TAAGTCTGGAAAACATTCACATTT--ACTAGGTTTTT--GTG----ATTATTTTTCTATTTTTATTTAACCTATTTCCATTTGCTGTTTGCCTTTCCTGC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998315 168 +  31815103 TTGTTTTAAGCTGAAAAGCGGTGC-AATATGTTTCCACTTTCACATATGTCTACC----TCTTGTTCAACATCGTAGAGCAAAAG-TAAATTAAGAAAACATTGTTATTT--ACAAGGTTTTT--GAG----ATTATTTTTCTATC----AGTAATCCATTTTCATTTGTTGTTTACTTTTTCTAC
i micMur3.chr21             I 84 C 0
s proCoq1.NW_012140524v1      5089638 168 +  13104022 TTGTTTTACCCTGAAAAGCTGCAC-AATATGTTTCTACTTTCACATATGTGTACC----TCTTGTTCAACATTGTAGAGCAAAAA-TAAATTAGGAAAACATTCCTGTTT--ACTAGGTTTTT--GAG----ATTATTTTTCTATC----TGTAATCCATTTTCATTTGTTGTTTACCTTTCCTAC
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4558679 172 -  12054995 TTGTTTTATATGGAAAAACTGCAC-AATATGCTTCTGCTTTTACCTATGTCTACCTCTTTCTTGTTCAACATTGTAGAGCAAAAA-TAAGATGGGGAAACTTTCATATTG--ACTAGATTTTT--GAA----ATTGCTTTTCTGTC----TTTAATTCATTTTCATTGGTTTCTAACCTGTCCTAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2402137 168 - 149736546 TTGTTTTAAACTGAAAAGCTGCACAAATACATTTCTACCTTCACAGATATCTGCC----TCTTGATCCAAACTGTAAAATAAAAC-TAAGTTAGTAAGA----GATGTTCTGTCTGGGG---T--AAG----ATAATGCGTCTATATTTATCCAATCTGTCTCCATCTTTTGTTTACCTTTCCTGC
i mm10.chr6                 C 0 I 23
s canFam3.chr27              19713505 165 +  45876710 TTGTTTTAAACCAAAGAGCAACAC-AATTTGTTTCCAGTTTCACATTTGTCTACC----TCTCATTCAATGCTGTAGAGTAAAA------TTAGGAAAAGATTCATATTG--ACTG---TTTT--GGGGGGAATTGTTTTTCTATCTGTATTTAATCTTTTTA---TTGCTACTTACCTTTTCTAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             912275 151 -   1687904 TTGTTTTAAGCTGAAAAGCTGCAC-AATATGTTTCTAGTTTCA----------------T---------CAATGTAGGGCAAGAAATAATTTAGGAAAGGAGTAATATTT--ACTATGTTTTTTAGAG----ATTACTTTTCGATTTTTATTTA--CTGTTTTCA-TTGTTGTTTATCTTCCCAAC
i dasNov3.JH562883          C 0 C 0

a score=443929.000000
s hg38.chr12_GL383549v1_alt     66827 36 +    120804 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
s panTro5.chr12              62758326 36 + 137163284 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882312 36 + 135337776 CATGTCTGTAA--ATGTCCGCA--TTTATTTTTCTATGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097649 36 -  32808036 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287708 36 +  34552619 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593702 36 - 133663169 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993210 36 - 137757926 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371166 36 -   7948249 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271784 36 -  10730278 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762762 36 - 128539186 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       157995 36 +    435186 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551873 36 +   9309688 CATTTCTGTAA--ATGTCCACA--TTTATTTTTCTATGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382218 36 -  29834108 CATTTCTGTAA--ATGTCCATG--TTTCTTTTTCTCTGAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835804 36 -   1015025 CATTTCTGTAA--ATGTCCATG--TTTCTTTTTCTCTGAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856333 36 -   2295209 CATTTCTGTAA--ATGTCCATG--TTTCTTTTTCTCTGAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998483 38 +  31815103 CATTGCTGTAA--ATGTCCATGTTTTTCTTTTTATGTGAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5089806 35 +  13104022 CACTGCTGTAA--ATGTCTATG---TTCTTTTTATACGAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4558851 35 -  12054995 CACTGCTGTAA--GTGCCCACA---TTTCTTTTATAAGAT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19713670 38 +  45876710 CATTCATATAAGTATTTCTTTA--TTTCTTTTTATACAAT
i canFam3.chr27             C 0 I 22
s dasNov3.JH562883             912426 36 -   1687904 TATTGCCATAA--ATGTCCATG--TTTCCCACTGCACAAT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2402305 23 - 149736546 I

a score=45877.000000
s hg38.chr12_GL383549v1_alt     66863 4 +    120804 TTCT
s panTro5.chr12              62758362 4 + 137163284 TTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882348 4 + 135337776 TTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097685 4 -  32808036 TTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287744 4 +  34552619 TTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593738 4 - 133663169 TTCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993246 4 - 137757926 TTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371202 4 -   7948249 TTCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271820 4 -  10730278 TTCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762798 4 - 128539186 TTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158031 4 +    435186 TTCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551909 4 +   9309688 TTCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382254 4 -  29834108 TCCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835840 4 -   1015025 TTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856369 4 -   2295209 TTCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998521 4 +  31815103 TGAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5089841 4 +  13104022 TTAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4558886 4 -  12054995 TTAT
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             912462 4 -   1687904 TCCT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2402305 23 - 149736546 I
e canFam3.chr27              19713708 22 +  45876710 I

a score=409654.000000
s hg38.chr12_GL383549v1_alt     66867 30 +    120804 AAATAGAGAAGAATTGAAACAGGGAATTGA-----
s panTro5.chr12              62758366 30 + 137163284 AAATAGAGAAGAATTGAAACAGGGAATTGA-----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882352 30 + 135337776 AAATAGAGAATAATTGAAACAGGGAATTGA-----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097689 30 -  32808036 AAATAGAGAAGAATTGAAACAGGGAATTGA-----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287748 30 +  34552619 AAATACAGAAGAATTGAAACAGGGAATCGA-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593742 29 - 133663169 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993250 29 - 137757926 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371206 29 -   7948249 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271824 29 -  10730278 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762802 29 - 128539186 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158035 29 +    435186 AAATAGAG-AGAATTGAAACAGGGAATTGA-----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551913 30 +   9309688 AAATAGAGAAGAATTGAAACAGGGAATTGA-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382258 30 -  29834108 AAATAGAGAAGAATTGAAACAGGGAACTGA-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835844 30 -   1015025 AAATAGAGAAGAATTGAAACAGGGAACTGA-----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856373 30 -   2295209 AAATAGAGAAGAATTGAAACAGGGAATTGA-----
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998525 30 +  31815103 AAATATAGAAAAGTTGAAACAGGGAATTGA-----
i micMur3.chr21             C 0 I 12
s proCoq1.NW_012140524v1      5089845 30 +  13104022 AAATAGAGAAAAGTTGAAACAGGAAATTGA-----
i proCoq1.NW_012140524v1    C 0 I 28
s otoGar3.GL873576            4558890 30 -  12054995 AAATAGAGAAAAGCTGAAAAAGGGAACTGA-----
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19713730 29 +  45876710 AAATAGAGAAAAGTTGAAACAGGGAGTTG------
i canFam3.chr27             I 22 C 0
s dasNov3.JH562883             912466 35 -   1687904 AAACGGAGAAAAGTTGAAACAGAGAGTTGATGTTA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2402305 23 - 149736546 I

a score=85863.000000
s hg38.chr12_GL383549v1_alt     66897 14 +    120804 AT-----TATTATAAAAAT
s panTro5.chr12              62758396 14 + 137163284 AT-----TATTATAAAAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882382 14 + 135337776 AT-----TATTATAAAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097719 14 -  32808036 AT-----TATTATAAAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287778 11 +  34552619 --------ATTATAAAAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593771 14 - 133663169 AT-----TATTATAAAAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993279 14 - 137757926 AT-----TATTATAAAAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371235 14 -   7948249 AT-----TATTATAAAAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271853 14 -  10730278 AT-----TATTATAAAAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762831 14 - 128539186 AT-----TATTATAAAAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158064 14 +    435186 AT-----TATTATAAAAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551943 14 +   9309688 AT-----TATTATAAAAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382288 14 -  29834108 AT-----TGTTATAAAAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835874 19 -   1015025 ATTACAGTATTATAAAAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856403 14 -   2295209 AT-----TATTATGAAAAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4558920  4 -  12054995 -------TGTT--------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19713759  8 +  45876710 -----------ATGGTAAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             912501  8 -   1687904 AT-----TTCTGC------
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2402305 23 - 149736546 I
e micMur3.chr21               2998555 12 +  31815103 I
e proCoq1.NW_012140524v1      5089875 28 +  13104022 I

a score=9096.000000
s hg38.chr12_GL383549v1_alt     66911 1 +    120804 A
s panTro5.chr12              62758410 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882396 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097733 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287789 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593785 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993293 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371249 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271867 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762845 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158078 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551957 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382302 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835893 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856417 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998567 1 +  31815103 C
i micMur3.chr21             I 12 C 0
s canFam3.chr27              19713767 1 +  45876710 A
i canFam3.chr27             C 0 I 5
e otoGar3.GL873576            4558924 0 -  12054995 C
e mm10.chr6                   2402305 23 - 149736546 I
e proCoq1.NW_012140524v1      5089875 28 +  13104022 I
e dasNov3.JH562883             912509 0 -   1687904 C

a score=180053.000000
s hg38.chr12_GL383549v1_alt     66912 16 +    120804 AACTTCCCAGTGAACA
s panTro5.chr12              62758411 16 + 137163284 AACTTCCCAGTGAACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882397 16 + 135337776 AACTTCCCAGTGAACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097734 16 -  32808036 AACTTCCCAGTGAACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287790 16 +  34552619 AATTTCCCAGTGAACA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593786 15 - 133663169 AATTTCCCA-TGAACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993294 15 - 137757926 AATTTCCCA-TGAACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371250 16 -   7948249 AATTTCCCAGTGAACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271868 16 -  10730278 AATTTCCCAGTGAACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762846 16 - 128539186 AATTTCCCAGTGAACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158079 16 +    435186 AATTTCCCAGTGAACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551958 16 +   9309688 AATTTCCCAGTCAACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382303 16 -  29834108 AATTTCCAAGTGAACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835894 16 -   1015025 AATTTCCAAGTGAACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856418 16 -   2295209 AATTTCCAAGTGAACA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998568 16 +  31815103 AATTTCCAAGCGAACA
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4558924 10 -  12054995 AATTTCCACA------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2402328 16 - 149736546 AATTTTCCAGTGAACA
i mm10.chr6                 I 23 C 0
s canFam3.chr27              19713773 16 +  45876710 AACCTGCAGGTGAACA
i canFam3.chr27             I 5 C 0
s dasNov3.JH562883             912509 16 -   1687904 AGTTTCTGAGCAAACT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5089875 28 +  13104022 I

a score=1981386.000000
s hg38.chr12_GL383549v1_alt     66928 163 +    120804 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGCGCGCTCTACACTGGGGCAGCAACCCTCTTCTGTTCTGAACAGACCGTGTGGTTCATATCAGCTCTCCTTCTTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGAGTAAAAAGCAAATATCTA
s panTro5.chr12              62758427 163 + 137163284 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGCGCGCTCTACACTGGGGCAGCAACCCTCTTCTGTCCTGAATGGACTGTGTGGTTCATATCAGCTCTCCTTCTTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGAGTAAAAAGCAAATATCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882413 163 + 135337776 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGCGCGCTCTACACTGGGGCAGCAACCCTCTTCTGTTCTGAAGAGACCATGTGGTTCATATCAGCTCTCCTTCTTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGAGTAAAAAGCAAATATCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097750 162 -  32808036 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGCACGCTCTACACTGGGGCAGCAACCCTCTTCTGTTCTGAACGGACTGTGTGGTTCATATCAGCTCTCCTTCTTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGAGT-AAAAGCAAATATCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287806 163 +  34552619 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTGCTCTGCACTGGGGCAGCAACCTTATTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGAGTAAAAAGCAAATATCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593801 163 - 133663169 AATCC--ATCAATACTAGATGAGATGCCTTTCTCTCCTAGCAAGGGTTCTCTGCACTGGGGCAGCAATCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTTCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTAAGTAGAAAGCAAATATCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993309 163 - 137757926 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCACTGGGGCAGCAATCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAGAAAGCAAATATCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371266 163 -   7948249 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCACTGGGGCAGCAATCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCCGCTCTCCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAGAAAGCAAATATCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8271884 163 -  10730278 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCACTAGGGCAGCAATCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAGAAAGCAAATATCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100762862 163 - 128539186 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCAGTGAGGCAGCAATCCTTTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATACGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAAAAAGCAAATATCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158095 163 +    435186 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCACTGGGGCAGCAATCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAGAAAGCAAATATCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3551974 163 +   9309688 AATCC--ATCAATACTAGATGAGATGCCTTTCTTTCCTAGCAAGGGTTCTCTGCACTGGGGCAGCAACCCTCTTCTGTTCTGAACAGACTGTGTGGTTCATATCAGCTCTCCTTCTTATAAGAGATTATTGT-CCT-------------------------------------TGTATATGTTGAGTAAAAAGCAAATATCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382319 162 -  29834108 AATTC--ATTTATATTAGATAAGATGCCTTTCTTTACTAGCAAGAGTGCACTGCACTGGAGCAACAACCCTCTTCTCTTCTGAACCAGCTATATGGTTCATATCACCT-TCCTTCCTATGAGAGATTATTGT-CCT-------------------------------------TGTGTATGTTGTGTAAAAAGCAAACACCTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       835910 153 -   1015025 AACTC--ATCGATATTAGATAAGATGCCTTTCTTTACTAGCAAGGGTGCACTGCACTGGGGCAACAACACTCTTGGGTTCTGAAC---------GGTTCATATCAGCT-TCCTTCCTATGAGAGATTATTTT-CCC-------------------------------------TGTCTATGTTGTGTAAAAAGCAAATATCTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856434 162 -   2295209 AATTC--ATCAATATTAGATAAGATGCCTTTCATTACTAGCAAGGGTGCACTGCACTGGAACAACAACCCTCTTCTGTTCTGAATGGACTATATGGTTCATATCAGCT-TCCCTCCTATGAGAGATTATTGT-CCC-------------------------------------TGTGTATGTTGTGTAAAAAGCAAATATCTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998584 159 +  31815103 AATCC--ATCAGTATTAGATGAGACGCCTTCCTTTTCTGGCAAGAGTGTGGTGCACTGGAGCTACTTCTTTCTTCTATTCTGAATGGACTGCGTGGTTCACGTCAGCCCTCCT----AGGAGAGATTATTGT-CAT-------------------------------------TGTGTATGTTGAGTAAAAAGCAAATATCTA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5089903 159 +  13104022 AATCC--ATCGGTATTAGATGAGATGCCGTCCTTTTCTAGCAAGAGTGCTCTGCACTGGAGCTCCATCTCTCTTCTGTTCTGAATGCACTGCGTGGTTCATGTCAGCTCTCCT----AGGAGAGATTATTGT-CAC-------------------------------------TGTGTATGTTGAGCAAAAAGCAAATATCTA
i proCoq1.NW_012140524v1    I 28 C 0
s otoGar3.GL873576            4558934 149 -  12054995 ATTCCAAATCAATATTGGGTGAGATGTCTTTCCTTTCTAGCAGGAGTGCTCTGC-CTGAAGTTACATCTCTATTCTGTTCTGAATGGACTGTGTGGTCGACGTCAGCTCTCCT-----TATGAGATTATTGTCCAT-------------------------------------TGTGT-----------AAAGCAAATATCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2402344 179 - 149736546 CATTC--ACC-ATATTTGGCAGGGTGCTTTTCTCCCC-----------CTCCCC-CCATGGCTACATTCCTCTTGTGTCCGTGGAGGGCTGTG-----CATGTCAGCTCTCCA---TATGACCAATCATTCT-CATCTTCTAATGAGTTAACAGGGAGTAGAGTTATATATAACATGTGTGTCCAGTGAAAGACAAAAGCCTA
i mm10.chr6                 C 0 I 166
s canFam3.chr27              19713789 142 +  45876710 AATCC--ATCAGTATTAGATGAGATGCCTTTTTCTTCTAGCAAGGGTCTA--GCATTGGAGCTACACTCCT-------------------GTGTGGCTTCTATCACCTCTACTTCTTTTGAGAGACTACAGT-CAT-------------------------------------TGCATGTCTTGAGCAAAAAGCAAATATCTC
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             912525 159 -   1687904 AGCCC--ATCGATATTAGCCCTAA-GCCTTTCTCTTCTCG-AAGGGTGCTGTGCGCTG-AGCTGCGTCCTGCTTTCACTTGCAACAGAAGGTGCTGGTCATGTGTACTTTGCTTCTTATGAGACATGGTTGT-CAT-------------------------------------TGTGCATCTT-AGTGAAAAGAAAAGATCTG
i dasNov3.JH562883          C 0 C 0

a score=136212.000000
s hg38.chr12_GL383549v1_alt     67091 11 +    120804 -AAA-GACATCTA
s panTro5.chr12              62758590 11 + 137163284 -AAA-GACATCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882576 11 + 135337776 -AAA-GACATCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097912 11 -  32808036 -AAA-GACATCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287969 11 +  34552619 -AAA-GACTTCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593964 11 - 133663169 -AAA-GACATCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993472 11 - 137757926 -AAA-GACATCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371429 11 -   7948249 -AAA-GACATCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8272047 11 -  10730278 -AAA-GACATCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763025 11 - 128539186 -AAA-GACATCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158258 11 +    435186 -AAA-GACATCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3552137 11 +   9309688 -AAA-GACATCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382481 11 -  29834108 -AAA-GACATCTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       836063 11 -   1015025 -AAA-GACATCTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856596 11 -   2295209 -AAA-GACATCTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998743 12 +  31815103 -CAATGACATCTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5090062 12 +  13104022 -CAATGACATCTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4559083 12 -  12054995 -CAATGACATCTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19713932 11 +  45876710 -TAT-GACATCTA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             912684 12 -   1687904 CAGT-GACACTTA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2402523 166 - 149736546 I

a score=6553652.000000
s hg38.chr12_GL383549v1_alt     67102 509 +    120804  
s panTro5.chr12              62758601 509 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60882587 509 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3097923 507 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7287980 506 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104593975 506 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993483 506 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371440 506 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8272058 506 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763036 506 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158269 506 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3552148 506 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11382492 486 -  29834108  
i saiBol1.JH378123          C 0 I 966
s cebCap1.NW_016107911v1       836074 488 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1856607 482 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2998755 502 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5090074 509 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4559095 506 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2402689 478 - 149736546  
i mm10.chr6                 I 166 C 0
s canFam3.chr27              19713943 497 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             912696 471 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=5284751.000000
s hg38.chr12_GL383549v1_alt     67611 386 +    120804 TTTTGACTAGACCTGGCAATAGAAAG-TGGGTAACATCACAAAACAATTAGGTTATTTCCAGTGGGTC-AACGAAATAAGTTAGTTCCTCAGAAGCTGAATGAAGTT-TGCAGTGTGTGGTGTT-GGAATgccatctgatccaaactcccactgaatgg-gtaggagaatcttctacaccatgtccccaacagatggccagtctccactttaacattttcagtgtgcaacacatacaacccacgcatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAGTATCACACAGTTTTCTCCCTC-TCTACATTTTTATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
s panTro5.chr12              62759110 386 + 137163284 TTATGACTAGACCTGGCAATAGAAAG-TGGGTAACATCACAAAACAATTAGGTTATTTCCAGTGGGTC-AACGAAATAAGTTAGTTCCTCAGAAGCTGAATGAAGTT-TGCAGTGTGTGGTGTT-GGAATgccatctgatccgaactcccactgaatgg-gtaggagaatcttctacaccatgtccccaacagatggccagtctccactttaacattttcagtgtgcaacacatacaacccacgcatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcagtatcacacagttttctccctc-tctacattttcattcatctgatggtttcactcccctactctaaacacagataactctCT----------------------------------------------------------------------------------------AGCGGCTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883096 386 + 135337776 TTTTGACTAGACCTGGCAATAGAAAG-TGGGTAACATCACAAAACAATTAGGTTATTTCCAGTGGGTC-AACGAAATAAGTTAGTTCCTCAGAAGCTGAATGAAGTT-TGCAGTGTGTGGTGTT-GGAaagccatctgatccaaactcccactgaatgg-gtaggagaatcttctacaccatgtccccaacagatggccagtctccactttaacattttcagggtgcaacacatacaacccacgcatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcagtatcacacagttttctccctc-tctacattttcattcatctgatggtttcactcccctactctaaacacagataactctCT----------------------------------------------------------------------------------------AGTGGCTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098430 384 -  32808036 TTTTGACTAGACCTGGCAATAGAAAG-CGGGTAACATCAC-AAACAATTAGGTTATTTCCAGTGGGTC-AACGAAATAAGTTAGTTCCTCAGAAGCTGAATGAAGTT-TGCAGTGTGTGGTGtt-ggaatg-catctgatccaaactcccactgaatgg-gtaggagaatcttctacaccatgtccccaacagacggccagtctccactttaacattttcagtgtgcaacacatacaacccacgcatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcagtatcacacagttttctccctc-tctacattttcattcatctgatggtttcactcccctactctaaacacagataactctCT----------------------------------------------------------------------------------------AGTGGCTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288486 386 +  34552619 TTTTGACTAGACCTGGCAATAGAAAG-TCGGTAACATCACAAAACAATTAGGTTATTTCCAGTGGGTC-AACGAAATAAGTTAGTTCCTCCGAAGCTGAATGAAGTT-TGCAGTGTGTGGTGTT-GGAATgtcatctgatccaaactcccactcaatgg-gtaggagaatcttctacaccatatccccaacagatggccagtctccactttaacattttcagtgtgcaacacatacaacccacgcatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcagtatcacacagttttgtccctc-tctacattttcattcatctgatggtctcactcccctactctaaacacagataactctCT----------------------------------------------------------------------------------------AGTGGCTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594481 387 - 133663169 TTTTGACCAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAACACcatctgatccaaactcccactcaatgg-gtaggagaatcttctacaccatgtcccaaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108993989 387 - 137757926 TTTTGACCAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAACACcatctgatccaaactcccactcaatgg-gtaggagaatcttctacaccatgtcccaaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTACCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1371946 387 -   7948249 TTTTGACCAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAACACcatctgatccaaactcccactcaatgg-gtaggagaatcttctacaccatgtcccaaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8272564 387 -  10730278 TTTTGACCAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAATACcatctgatccaaactcccactcaatgg-ataggagaatcttctacaccatgtcccaaacagatggccagtctccactttaacatcttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTTAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763542 387 - 128539186 TTTTGACCAGATCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAATC-TGCAGTGTGAGGTGTT-GGAATACcatctgatccaaactcccactcaatgg-gtaggagaatcttctacatcatgtcccaaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       158775 387 +    435186 TTTTGACCAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAATACcatctgatccaaactcccactcaatgg-ataggagaatcttctacaccatgtcccaaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TCTCTGTTCTCATTCATCTGATGGTTTCACTCCCCTACTCTAAACACAGATAACTCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3552654 387 +   9309688 TTTTGACTAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAGTGGGTC-AACGAAACAAGTTAGTTCCTCAGAAGCTAAATGAAGTC-TGCAGTGTGAGGTGTT-GGAATACcatctgatccaaactcccactcaatgg-gtaggagaatcttctacaccatgtcccaaacagatggctagtctccaccttaacattttcagtgtgcaacacagatgacccacgcatttacagaatgacccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcaatatcacacagttttctccctc-tctctattctcattcatctgatggtttcactcccttactctaaacacagataactctCT----------------------------------------------------------------------------------------AGTGGCTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11383944 387 -  29834108 TTTTGACTAGACCTAGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAATGAGTC-AAAGAAACAAGCTAGTTCCTCAGAAGCTGAGTGAAGTC-TGCATCGTGTGGTGTT-GGAATgccatctgatccaaactcccactcaatgg-gtagaagaatctcctacaccatgtccccaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacacatttacagaatggcccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAATATCACACAGTTTTCTCCCTC-TTTATGTTTTCATTCATCTGATGATTTCACTCCCCTACTCTAAACACAGATAACTCTCC----------------------------------------------------------------------------------------AGTGGCTTC
i saiBol1.JH378123          I 966 C 0
s cebCap1.NW_016107911v1       836562 387 -   1015025 TTTCGACTAGACCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAACGGGTC-AAAGAAACAAGTTAGTTCCTCAGAAGCTGAGTGAAGTC-TGTGCCGTGTGGTGTT-GGAATgccacctgattcaaactcccactcaatgg-gtagaagaatcttctacaccatgcccccaacagatggccagtctccactttaacattttcagtgtgcaacacatacgacccacacatttacagaattgcccatttctgttttccaacag-ctccagtgttt-agG-TTGTGTCAGTATCACACGGTTTTCTCCCTC-TTTATGTTTTCATTCATCTGATGATTTCACTCCCCTACTCTAAACACAGATAACTCTCC----------------------------------------------------------------------------------------AGTGGCTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857089 387 -   2295209 TTTTGGCTAGATCTGGCAATAGAAAGATGTGTAACATCACAAAACAATGAGATTATTTCCAATGGGTC-AAAGAAACAAGTTAGTTCCTCAGAAGCTGAGTGAAGTC-TGCATCGTGTGGTGTT-GGAATgccatctgatccaaactcccactcaatgg-gtagaagaatcttctacaccatgtccccaacagatggtcagtctccactttagcattttcagtgtgcaacacatatgacccacacatttacagaacggcccatttctgttttccaacag-ctccagtgttt-agg-ttgtgtcaatatcacacagttttctccctc-tttatgttttcattcatctgatggtttcactcccctactctaaacacagataactctCC----------------------------------------------------------------------------------------AGTAGCTTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999257 376 +  31815103 TATTGACTAGATCTGAAAATAGAAAAGTGTGTAGCATCATAGAACAATGAGATTGTTTCTAGGGGGTT-AAAGAAACAAGTTAGTTCTTCAGAAGGTAAGCGAA------CTGTGTGTGGAGTTGGGAATgccatctggttcaaacacccactcagtggggtgggaaaatcttctacactatgtccccaacagatggccagtctccacttcaatattttcagtgtgtaacacagacaacc----------cagaatggacaacttctgttttccaacag-ctccaatgttt-aggtttgggtcaatatcatgcagttgtctccctcttctgtattttcattcatCTGATTGTTTCACCTCCCTCCTCTAAACACTGATAACCCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5090583 390 +  13104022 TATGGACTAGATCTGAAAATTGAAAGGTGTATAACATCATAGAACAATGAGATTGTTTCCAGTGGGTC-AAAGAAACAAGGTGGTTCTTCAGAAAGTAAGTGAAGTG-TGCCGTGCGTGGTGTT-GGAATgccatctgattgaaacgcccactcagtggagtgggaaaatcttctacactatgtctccaacagatggcctgtctccacttcaatattttcagtgtgcaacacatacaacccatgtgtttgcagaatgggccacttctgttttccaacag-ctccaatgttt-agCTTTGGGTCAATATCATGCAGTTGTCTCCCTCTTCTATATTTTTATTCATCTGATCATTTCACTTCCCTCCTGTAAACACTAATAACCCTCT----------------------------------------------------------------------------------------AGTGGCTTC
i proCoq1.NW_012140524v1    C 0 I 91
s otoGar3.GL873576            4559601 475 -  12054995 TTTTGATTAGATCTGAAAATGGAAAGATTCATAACATCATAGAACAATGAGATTGCTTCCTGCGGGTC-AAAGAAACAAGTTTCTTCTTCAGAAGCTAAGTGAAATC-TGCAGTGTGTGGTGCT-GGAATGCCATCTGATCCAAAGGGCCACTCAATGGAGTGGGAAAA---TCTACACCATGTCCCCAGCAGATGGCCAGTCTCCCCTTTAATATTTTCAGGGTGCAACACATACAGCCCACAGGTTTGCAGCATGACCCATATCTGGTTTCCAACAG-CTCCAAGGTTT-AGGTTTGCGTCGATATCACACAGTTGCCTCCCTCCTCTGTGTTTTCATTCATCTGATCATTTCACTTCTCTGTTCTAAACACTGGTAACTCTCtagtgcagtggttctcaaccatcctaatgccatgaacctttaatacagcccaaaggggccgcgacctacaggttgagaaccgctgctCCAGTGGCTTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403167 333 - 149736546 -------------------------GTTCAGTGAGCTTAGAGAGGAACCCTTGTGTGCTCAGTGGGT--ATGGGATCAAGTACAGTCTTCAGAGGCC-CTTGAAGCT-GTCTACGTGCACTGCT--------CAT-------AGACTGC--TTTGATGA-ACCGAGGGCTCTTC-------TGCCCCCA--CGGTGGTTGATGCAATCCAGGATGTTTTCAGCACACCACATA-GCAACCCACG--TTTGCAAACCAGCTCATGTCTTCTTTCCAGCAGCCTCAAGTGTTT-ATGTTCCTGTCGCTACCACACGGTTGTCAGCCTC-CCTGGTGCTTTCCTCATCTGATCAGTTCTCT-CCCTGCTCCAAACACTGGTGACTCAGT----------------------------------------------------------------------------------------AGAGCTTTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19714440 384 +  45876710 TTTTGATTAGATCTGAAAATAGGAAGGTGCATTCCATGACAAAACCATGAGATTGTCTCTAGTGGGTCTGAGAAAAAAAATTAGTTTTTCAGAAGCTAACTGAAGTCTTTTAGTCTGGGGTGTA-Gaaatgccatctgatcc-aactcccactcaatggagtgagaaaatctaccataccatgtccccaacagatggctagtctccactttaatattgtcagtgtacaacacatacgacccacgtgtttgcagaatggctcacttctgtttttcaacag-ctccaatGTTT-TGGTTGGTGTTAACATCATACATTTGTTTCC----CCTATATTTTCATTC-TCTGATTGTTTCACTCCCCTCCTTGAAACACTGATAA-TCCCC----------------------------------------------------------------------------------------AG-GGCTTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             913167 352 -   1687904 TTCTGATTAGTTCTGAAAATGGGAAGGCGCCTAACATTCCAGAATTACAAGGCTG-ATCCAGTGGATC-TGAAAAATGAGTTCGTTCTCCAGAGGCCGG--------------------------TGAACGCCATCTGATCCGAACTCCCACTAAAAGAAGTACAAGAACCTTCTCTACCTCATTCTGAACAGATGGCTACTTTCCACTTTGATGTTTTTTGTGTGCAATGCATAGAATGCATGTGTTTGC----CTGCCAGTTCCTGTTTTTCCACAG-CTCCAGTTTTTCAGG-TTGTGTTAAGATCACACAGTTGTCCCCTTC-TCTGTATTTTCCTTGAtctgatcatttcactcctttactgaaaa--------accctcc----------------------------------------------------------------------------------------agcggctcc
i dasNov3.JH562883          C 0 C 0

a score=186986.000000
s hg38.chr12_GL383549v1_alt     67997 16 +    120804 AGAAGAAATCTAAACG
s panTro5.chr12              62759496 16 + 137163284 AGAAGAAATCTAAATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883482 16 + 135337776 AGAAGAAATCTAAACG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098814 16 -  32808036 AGAAGAAATCTAAACG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288872 16 +  34552619 AGAAAAAATCTAAATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594868 16 - 133663169 AGAAGAAATCTAAATG
i rheMac8.chr11             C 0 I 7
s macFas5.chr11             108994376 16 - 137757926 AGAAGAAATCTAAATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372333 16 -   7948249 AGAAGAAATCTAAATG
i macNem1.NW_012011422v1    C 0 I 7
s cerAty1.NW_011999477v1      8272951 16 -  10730278 AGAAGAAATCTAAATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763929 16 - 128539186 AGAAGAAATCTAAATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159162 16 +    435186 AGAAGAAATCTAAATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553041 16 +   9309688 AGAAGAAATCTAAATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384331 15 -  29834108 AGAAGAAATCC-AATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       836949 16 -   1015025 AGAAGAAATCCAAATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857476 16 -   2295209 AGAAGAAATCCAAATG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999633 16 +  31815103 AGAAGAAATCCAAATG
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560076 16 -  12054995 AGAAGGAACCCCCATG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403500 15 - 149736546 -CATGCAGCACACTTG
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19714824 16 +  45876710 AGAACAAACCCAAGTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             913519 16 -   1687904 AGACTAGGTCCAAATG
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I

a score=93491.000000
s hg38.chr12_GL383549v1_alt     68013 14 +    120804 CCTTAGCAAGGCAT
s panTro5.chr12              62759512 14 + 137163284 CCTTAGCAAGGCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883498 14 + 135337776 CCTTAGCAAGGCAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098830 14 -  32808036 CCTTAGCAAGGCAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288888 13 +  34552619 CCTTAGC-AGGCAT
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108994392  6 - 137757926 --------AGATGT
i macFas5.chr11             C 0 I 1
s cerAty1.NW_011999477v1      8272967 14 -  10730278 CCTTAGCAAGGCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763945 14 - 128539186 CCTTAGCAAGGCAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159178 14 +    435186 CCTTAGCAAGGCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553057 14 +   9309688 CCTTAGCAAGGCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384346 14 -  29834108 CCTTAGCAAGTCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       836965 14 -   1015025 CCTTAGCAAGGCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857492 14 -   2295209 CCTCAGCAAGGCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999649 14 +  31815103 CCTTAGCATGGCAT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560092 14 -  12054995 CTTCAACATGGCAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403519 12 - 149736546 TTTTAGATTACC--
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19714840 14 +  45876710 CTTGAGCATCACAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             913535 14 -   1687904 GCTCAGCGTGGCAT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e macNem1.NW_012011422v1      1372349  7 -   7948249 I
e rheMac8.chr11             104594884  7 - 133663169 I

a score=742775.000000
s hg38.chr12_GL383549v1_alt     68027  76 +    120804 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
s panTro5.chr12              62759526 170 + 137163284 TTCAAGACCTTGATGATGTACATCTCATTTTTCCACCCAAATCTATTTTCTTTTCCCTACTTCAGCCACCTATTCAGCAAatatatatatatgaaaccatatatatatgatgtacatCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883512  76 + 135337776 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098844  76 -  32808036 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAACCATCTATTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288901  76 +  34552619 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594891  63 - 133663169 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i rheMac8.chr11             I 7 C 0
s macFas5.chr11             108994399  63 - 137757926 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1372356  63 -   7948249 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i macNem1.NW_012011422v1    I 7 C 0
s cerAty1.NW_011999477v1      8272981  63 -  10730278 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100763959  63 - 128539186 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159192  63 +    435186 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTATTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553071  63 +   9309688 TTCAAG-----------------------------------------------------------------------------------------------------------ACATCTCA-------TTTTTTCACCCAAATCTATTTTCATTTCCCTACTTCAGACATCTATTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384360  72 -  29834108 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACACCTCA-------TTCTTCCACCCAAATCTA----CGTTTCCTTACTTCAGCCATTTATTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       836979  76 -   1015025 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTACACCTCA-------TTCTTCCACCCAAATCTACTTTCATTTTCCTACTTCAGCCATTTATTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857506  76 -   2295209 TTCAAGACCTTG----------------------------------------------------------------------------------------------ATGATGTAGACCTCA-------TTCTTCCACCCAAATCTACTTTCATTTCCTTACTTCAGCCATTTATTCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999663  73 +  31815103 TTCAAGAACTTC----------------------------------------------------------------------------------------------ATGATGTACCTCTCA-------TTTTTTCACCCAAACTTATTTCCATTTCC---CTTAAGCcatttattca
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560106  76 -  12054995 TTCAAGAACTTT----------------------------------------------------------------------------------------------ATGATTTATTTCTTA-------TTTTTTCACCCAAATCTATTTCCAATTCCCTACTTCAGCcacttattca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403531  68 - 149736546 TCCAAGAATCTG----------------------------------------------------------------------------------------------ATCATTTGCCTATCA-------ATTTTGCACCCATTTCCA--------CCCCCATGTTAACAACTGATTCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19714854  83 +  45876710 TCTCAGAACTTT----------------------------------------------------------------------------------------------ATAATCTACATCTCACCTTTTTTTTTTTTACCTAATTCTACTTTCACTCCCCTATTTCAACcattttctca
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             913549  76 -   1687904 TGCGAGAACTTT----------------------------------------------------------------------------------------------ATGGTCTATATCGCA-------GTTTTTCACCCAAAGCTGCTTTCATTCTCCTTCTTCAACCATTTACTCA
i dasNov3.JH562883          C 0 I 1215
e proCoq1.NW_012140524v1      5090973  91 +  13104022 I

a score=105454.000000
s hg38.chr12_GL383549v1_alt     68103 10 +    120804 GCAA----atatat
s panTro5.chr12              62759696 10 + 137163284 GCAA----ATATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883588  8 + 135337776 GCAA------atat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098920 10 -  32808036 GCAA----atatat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288977  8 +  34552619 GCAA------ATAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594954 14 - 133663169 GCAAACATATATAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994462 10 - 137757926 GCAA----atatat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372419 10 -   7948249 GCAA----atatat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273044 10 -  10730278 GCAA----atatat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764022 10 - 128539186 GCAA----atatat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159255 10 +    435186 GCAA----ATATAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553134 10 +   9309688 GCAA----atatat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384432 10 -  29834108 GCAA----ATATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837055 10 -   1015025 GCAA----atatat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857582 10 -   2295209 GCAA----atatat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999736 10 +  31815103 acaa----atatgt
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560182 10 -  12054995 acaa----atatat
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403599 10 - 149736546 ACAG----ACATAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19714937 10 +  45876710 ataa----atacat
i canFam3.chr27             C 0 I 1377
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I

a score=22398.000000
s hg38.chr12_GL383549v1_alt     68113 2 +    120804 at
s panTro5.chr12              62759706 2 + 137163284 AT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883596 2 + 135337776 gt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098930 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288985 2 +  34552619 AT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594968 2 - 133663169 AT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994472 2 - 137757926 at
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372429 2 -   7948249 at
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273054 2 -  10730278 at
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764032 2 - 128539186 at
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159265 2 +    435186 AT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553144 2 +   9309688 at
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384442 2 -  29834108 AT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837065 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857592 2 -   2295209 at
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               2999746 2 +  31815103 at
i micMur3.chr21             C 0 I 36
s otoGar3.GL873576            4560192 2 -  12054995 at
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2403609 2 - 149736546 CT
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I

a score=24036.000000
s hg38.chr12_GL383549v1_alt     68115 4 +    120804 atat
s panTro5.chr12              62759708 4 + 137163284 ATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883598 4 + 135337776 atat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098932 4 -  32808036 atat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288987 4 +  34552619 ATAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594970 4 - 133663169 ATAT
i rheMac8.chr11             C 0 I 2
s macFas5.chr11             108994474 4 - 137757926 atat
i macFas5.chr11             C 0 I 2
s macNem1.NW_012011422v1      1372431 4 -   7948249 atat
i macNem1.NW_012011422v1    C 0 I 2
s cerAty1.NW_011999477v1      8273056 4 -  10730278 atat
i cerAty1.NW_011999477v1    C 0 I 2
s chlSab2.chr11             100764034 4 - 128539186 atat
i chlSab2.chr11             C 0 I 4
s manLeu1.NW_012101287v1       159267 4 +    435186 ATAT
i manLeu1.NW_012101287v1    C 0 T 71
s colAng1.NW_012114364v1      3553146 4 +   9309688 atat
i colAng1.NW_012114364v1    C 0 C 0
s mm10.chr6                   2403611 1 - 149736546 ---T
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857594 0 -   2295209 C
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837067 0 -   1015025 C
e saiBol1.JH378123           11384444 0 -  29834108 C

a score=57649.000000
s hg38.chr12_GL383549v1_alt     68119 9 +    120804 caaaccata
s panTro5.chr12              62759712 6 + 137163284 CAAACC---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883602 9 + 135337776 caaaccata
i panPan2.chr12             C 0 T 87
s gorGor5.CYUI01000003v1      3098936 9 -  32808036 caaactata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7288991 9 +  34552619 CAAACCATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594976 9 - 133663169 CAAACCgtg
i rheMac8.chr11             I 2 C 0
s macFas5.chr11             108994480 9 - 137757926 caaaccgtg
i macFas5.chr11             I 2 C 0
s macNem1.NW_012011422v1      1372437 9 -   7948249 caaaccatg
i macNem1.NW_012011422v1    I 2 C 0
s cerAty1.NW_011999477v1      8273062 9 -  10730278 caaaccgtg
i cerAty1.NW_011999477v1    I 2 C 0
s chlSab2.chr11             100764042 9 - 128539186 caaaccata
i chlSab2.chr11             I 4 C 0
s colAng1.NW_012114364v1      3553150 9 +   9309688 caaaccata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384444 9 -  29834108 CAAACCata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837067 9 -   1015025 caaaccata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857594 9 -   2295209 caaaccata
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2403612 9 - 149736546 TGAGCCCTT
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e manLeu1.NW_012101287v1       159271 71 +    435186 T

a score=16738.000000
s hg38.chr12_GL383549v1_alt     68128 6 +    120804 tatata
s panTro5.chr12              62759718 5 + 137163284 -ATATA
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098945 6 -  32808036 tatata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289000 6 +  34552619 TATATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594985 6 - 133663169 tgtgtg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994489 6 - 137757926 tgtgtg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372446 6 -   7948249 tgtgta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273071 6 -  10730278 tgtgtg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764051 6 - 128539186 tgtgta
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3553159 1 +   9309688 t-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384453 6 -  29834108 tacata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837076 6 -   1015025 tacata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857603 6 -   2295209 tacata
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2403621 6 - 149736546 CATATA
i mm10.chr6                 C 0 I 38
e otoGar3.GL873576            4560194 2 -  12054995 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e manLeu1.NW_012101287v1       159271 71 +    435186 T
e panPan2.chr12              60883611 87 + 135337776 T

a score=6006.000000
s hg38.chr12_GL383549v1_alt     68134 1 +    120804 t
s panTro5.chr12              62759723 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098951 1 -  32808036 t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289006 1 +  34552619 T
i nomLeu3.chr23             C 0 I 2
s rheMac8.chr11             104594991 1 - 133663169 t
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994495 1 - 137757926 t
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372452 1 -   7948249 t
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273077 1 -  10730278 t
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764057 1 - 128539186 t
i chlSab2.chr11             C 0 C 0
s saiBol1.JH378123           11384459 1 -  29834108 t
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837082 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1857609 1 -   2295209 t
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159271 71 +    435186 T
e panPan2.chr12              60883611 87 + 135337776 T

a score=800.000000
s hg38.chr12_GL383549v1_alt     68135 2 +    120804 at
s panTro5.chr12              62759724 2 + 137163284 AT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883524 2 + 135337776 AT
i panPan2.chr12             T 87 C 0
s gorGor5.CYUI01000003v1      3098952 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289009 2 +  34552619 GA
i nomLeu3.chr23             I 2 C 0
s rheMac8.chr11             104594992 2 - 133663169 gt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994496 2 - 137757926 gt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372453 2 -   7948249 gt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273078 2 -  10730278 gt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764058 2 - 128539186 at
i chlSab2.chr11             C 0 T 93
s saiBol1.JH378123           11384460 1 -  29834108 a-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837083 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 I 373
s aotNan1.NW_018488218v1      1857610 2 -   2295209 at
i aotNan1.NW_018488218v1    C 0 I 377
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159271 71 +    435186 T

a score=3600.000000
s hg38.chr12_GL383549v1_alt     68137 1 +    120804 g
s panTro5.chr12              62759726 1 + 137163284 G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883526 1 + 135337776 G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098954 1 -  32808036 g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289011 1 +  34552619 G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594994 1 - 133663169 g
i rheMac8.chr11             C 0 T 96
s macFas5.chr11             108994498 1 - 137757926 g
i macFas5.chr11             C 0 T 94
s macNem1.NW_012011422v1      1372455 1 -   7948249 g
i macNem1.NW_012011422v1    C 0 T 92
s cerAty1.NW_011999477v1      8273080 1 -  10730278 g
i cerAty1.NW_011999477v1    C 0 T 92
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384461 0 -  29834108 C
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159271 71 +    435186 T
e chlSab2.chr11             100764060 93 - 128539186 T

a score=3735.000000
s hg38.chr12_GL383549v1_alt     68138 4 +    120804 atgt
s panTro5.chr12              62759727 4 + 137163284 ATGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883527 4 + 135337776 ATGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098955 4 -  32808036 atgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289012 4 +  34552619 ATGT
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11384461 1 -  29834108 ---t
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159271 71 +    435186 T
e chlSab2.chr11             100764060 93 - 128539186 T
e cerAty1.NW_011999477v1      8273081 92 -  10730278 T
e macNem1.NW_012011422v1      1372456 92 -   7948249 T
e macFas5.chr11             108994499 94 - 137757926 T
e rheMac8.chr11             104594995 96 - 133663169 T

a score=3225.000000
s hg38.chr12_GL383549v1_alt     68142 2 +    120804 at
s panTro5.chr12              62759731 2 + 137163284 AC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883531 2 + 135337776 AC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098959 2 -  32808036 ac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289016 2 +  34552619 AC
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             108994405 2 - 137757926 AC
i macFas5.chr11             T 94 C 0
s saiBol1.JH378123           11384462 2 -  29834108 ac
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159271 71 +    435186 T
e chlSab2.chr11             100764060 93 - 128539186 T
e cerAty1.NW_011999477v1      8273081 92 -  10730278 T
e macNem1.NW_012011422v1      1372456 92 -   7948249 T
e rheMac8.chr11             104594995 96 - 133663169 T

a score=253864.000000
s hg38.chr12_GL383549v1_alt     68144 52 +    120804 atCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
s panTro5.chr12              62759733 52 + 137163284 AACTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883533 52 + 135337776 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3098961 52 -  32808036 atCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289018 52 +  34552619 ATCTCATTTTTCCACCCAAATCTACTTTCATTTCCCTACTTCAGCCATCTGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594899 52 - 133663169 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i rheMac8.chr11             T 96 C 0
s macFas5.chr11             108994407 52 - 137757926 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i macFas5.chr11             C 0 I 99
s macNem1.NW_012011422v1      1372364 52 -   7948249 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i macNem1.NW_012011422v1    T 92 C 0
s cerAty1.NW_011999477v1      8272989 52 -  10730278 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i cerAty1.NW_011999477v1    T 92 C 0
s chlSab2.chr11             100763967 52 - 128539186 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i chlSab2.chr11             T 93 C 0
s manLeu1.NW_012101287v1       159200 52 +    435186 ATCTCATTTTTCCACCCAAATCTATTTTCATTTCCCTACTTCAGCCATCTAT
i manLeu1.NW_012101287v1    T 71 C 0
s saiBol1.JH378123           11384464 31 -  29834108 -----att-----acatatatatgtgtgtatgtgtgtacat-----------
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194  2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e colAng1.NW_012114364v1      3553160  0 +   9309688 C

a score=24400.000000
s hg38.chr12_GL383549v1_alt     68196 7 +    120804 TCAGCAA
s panTro5.chr12              62759785 7 + 137163284 TCAGCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883585 7 + 135337776 TCAGCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099013 7 -  32808036 TCAGCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289070 7 +  34552619 TCAGCAA
i nomLeu3.chr23             C 0 I 2
s rheMac8.chr11             104594951 7 - 133663169 TCAGCAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994558 5 - 137757926 tgtgt--
i macFas5.chr11             I 99 I 6
s macNem1.NW_012011422v1      1372416 7 -   7948249 TCAGCAA
i macNem1.NW_012011422v1    C 0 I 50
s cerAty1.NW_011999477v1      8273041 7 -  10730278 TCAGCAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764019 7 - 128539186 TCAGCAA
i chlSab2.chr11             C 0 I 50
s manLeu1.NW_012101287v1       159252 7 +    435186 TCAGCAA
i manLeu1.NW_012101287v1    C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384495 0 -  29834108 C
e colAng1.NW_012114364v1      3553160 0 +   9309688 C

a score=18211.000000
s hg38.chr12_GL383549v1_alt     68203 5 +    120804 atata
s panTro5.chr12              62759792 5 + 137163284 atata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883592 5 + 135337776 atatg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099020 5 -  32808036 ATATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289079 5 +  34552619 ATATA
i nomLeu3.chr23             I 2 C 0
s rheMac8.chr11             104594958 5 - 133663169 ACATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994569 5 - 137757926 gtgtg
i macFas5.chr11             I 6 C 0
s macNem1.NW_012011422v1      1372473 5 -   7948249 gtata
i macNem1.NW_012011422v1    I 50 C 0
s cerAty1.NW_011999477v1      8273048 5 -  10730278 atata
i cerAty1.NW_011999477v1    C 0 C 0
s manLeu1.NW_012101287v1       159259 5 +    435186 ATATA
i manLeu1.NW_012101287v1    C 0 I 50
s saiBol1.JH378123           11384495 5 -  29834108 atata
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e chlSab2.chr11             100764026 50 - 128539186 I

a score=18279.000000
s hg38.chr12_GL383549v1_alt     68208 5 +    120804 tatat
s panTro5.chr12              62759797 5 + 137163284 tatat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883597 5 + 135337776 tatat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099025 5 -  32808036 TATAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289084 5 +  34552619 TATAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104594963 5 - 133663169 TATAT
i rheMac8.chr11             C 0 I 46
s macFas5.chr11             108994574 5 - 137757926 tgtgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372478 5 -   7948249 tatat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273053 5 -  10730278 tatat
i cerAty1.NW_011999477v1    C 0 I 36
s saiBol1.JH378123           11384500 5 -  29834108 tatat
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159264 50 +    435186 I
e chlSab2.chr11             100764026 50 - 128539186 I

a score=4730.000000
s hg38.chr12_GL383549v1_alt     68213 5 +    120804 caaac
s panTro5.chr12              62759802 5 + 137163284 caaac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883602 5 + 135337776 caaac
i panPan2.chr12             C 0 I 4
s gorGor5.CYUI01000003v1      3099030 5 -  32808036 CAAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289089 5 +  34552619 CAAAC
i nomLeu3.chr23             C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384505 0 -  29834108 C
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159264 50 +    435186 I
e chlSab2.chr11             100764026 50 - 128539186 I
e cerAty1.NW_011999477v1      8273058 36 -  10730278 I
e macNem1.NW_012011422v1      1372483 0 -   7948249 C
e macFas5.chr11             108994579 0 - 137757926 C
e rheMac8.chr11             104594968 46 - 133663169 I

a score=100.000000
s hg38.chr12_GL383549v1_alt     68218 1 +    120804 c
s panTro5.chr12              62759807 1 + 137163284 c
i panTro5.chr12             C 0 C 0
e otoGar3.GL873576            4560194 2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e nomLeu3.chr23               7289094 0 +  34552619 C
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384505 0 -  29834108 C
e colAng1.NW_012114364v1      3553160 0 +   9309688 C
e manLeu1.NW_012101287v1       159264 50 +    435186 I
e chlSab2.chr11             100764026 50 - 128539186 I
e cerAty1.NW_011999477v1      8273058 36 -  10730278 I
e macNem1.NW_012011422v1      1372483 0 -   7948249 C
e macFas5.chr11             108994579 0 - 137757926 C
e rheMac8.chr11             104594968 46 - 133663169 I
e gorGor5.CYUI01000003v1      3099035 0 -  32808036 C
e panPan2.chr12              60883607 4 + 135337776 I

a score=59539.000000
s hg38.chr12_GL383549v1_alt     68219 22 +    120804 atatatatatatatatattttt
s panTro5.chr12              62759808 18 + 137163284 atatatagatatatata----t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883611 17 + 135337776 -aatatatatatatata----t
i panPan2.chr12             I 4 C 0
s gorGor5.CYUI01000003v1      3099035 13 -  32808036 -----CATATATATAtt----t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289094 11 +  34552619 -------CATATATATA----t
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595014 18 - 133663169 gtgtgtgtgtgtATATA----t
i rheMac8.chr11             I 46 I 4
s macFas5.chr11             108994579 18 - 137757926 gtgtatatatatatata----t
i macFas5.chr11             C 0 I 4
s macNem1.NW_012011422v1      1372483 18 -   7948249 atatatatatatatttt----t
i macNem1.NW_012011422v1    C 0 I 4
s cerAty1.NW_011999477v1      8273094 18 -  10730278 gtgtatatatatatata----t
i cerAty1.NW_011999477v1    I 36 I 3
s chlSab2.chr11             100764076 18 - 128539186 atatatatatatatata----t
i chlSab2.chr11             I 50 I 2
s colAng1.NW_012114364v1      3553160 18 +   9309688 atatatatatatatata----t
i colAng1.NW_012114364v1    C 0 I 4
s saiBol1.JH378123           11384505 18 -  29834108 atatatatgtatgtata----t
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194  2 -  12054995 I
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e manLeu1.NW_012101287v1       159264 50 +    435186 I

a score=1750377.000000
s hg38.chr12_GL383549v1_alt     68241 295 +    120804 tttttttttcttgagatggagttttactcttgtcacccaggctggagtgcagtggcacaatctcggctcattttaacctccacctcatgggttcaagtgattctcctacttcagcctccaaagttgctgggattataggtgcttgccatcacgcccggctaa-tttttgtatttttagtagagatggggtttcaccaggttggccaggctggtctcaaactcctgacctcaggtgatccacctgtctcggcctcccaaagtgctgggattacaggcataagccaccgtgcccagcc
s panTro5.chr12              62759826 295 + 137163284 attttttttcttgagatggagttttactcttgtcatccaggctggagtgcagtggcacgatctcagctcatttcaacctccacctcatgggttcaagtgattctcctacttcagcctccaaagtagctgggattataggtggttgccatcacgcctggctaa-tttttgtatttttagtagagatggggtttcaccaggttggccaggctggtctcaaactcctgacctcaggtgatccacctgtctcggcctcccaaagtgctgggattacaggcataagccaccgtgcccagcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883628 295 + 135337776 tttttttttcttgagatggagttttactcttgtcacccaggctggagtgcagtggcatgatctcggctcatttcaacctccacctcatgggttcaagtgattctcctacttcagcctccaaagtagctgggattataggtgcttgccatcatgcccggctaa-tttttgtatttttagtagagatggggtttcaccaggttggccaggctggtctcaaactcctgacctcaggtgatccacctgtctcggcctcccaaagtgctgggattacaggcataagccaccatgcccagcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099048 295 -  32808036 tttttttttcttgagatggagttttactcttgtcacccaggctggagtgcagtggcacgatctcggctcatttcaacctccacctcatgggttcaagtgattctcctacttcagcctccaaagtagctgggattataggtgcttgccatcacgcctggctaa-tttttgtatttttagtagagatggggtttcaccaggttggccaggctggtctcaaactcctgacctcaggtgatccacctgtctcggcctcccaaagtgctgggattacaggcataagccaccgtgcccagcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289105 295 +  34552619 tttttttttcttgagagggagttttactcttgtcacccaggctggagtgcagtggcacgatctctgctcatttcaacctccacctcatgggttcaagtgattctcctacttcagcctccaaagtagctgggattataggtgcttgccatcacacccggctaa-tttttgtatttttagtagagatggggtttcaccaggttggccaggctggtctcaaactcctgacctcaggtgatccacccatctcggcctcccaaagtgctaagattacaggcataagccaccatgcccagcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595036 281 - 133663169 ttt----ttttttaagtggagttttactcctatcacccaggctggagtgcagtggtgcgacctcggctcacttcaacctccccctcatgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa--ttttgtatttttagaagagatggggtttcaccagatcggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i rheMac8.chr11             I 4 C 0
s macFas5.chr11             108994601 285 - 137757926 tttttttttttttaagtggagttttactcctatcacccaggctggagtgcagtggtgcgacctcggctcacttcaacctccccttcatgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa--ttttgtatttttagaagagatggggtttcaccaggtcggccagcctggtcttgaactcctgacctcaggtcatccacccatcttggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i macFas5.chr11             I 4 C 0
s macNem1.NW_012011422v1      1372505 285 -   7948249 ttttttcttttttaagtggagttttactcctatcacccaggctggagtgcagtggtgcgacctcggctcacttcaacctccccctcatgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa--ttttgtatttttagaagagatggggtttcaccaggtcggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i macNem1.NW_012011422v1    I 4 C 0
s cerAty1.NW_011999477v1      8273115 278 -  10730278 -------ttttttaagtggagttttactcctatcacccaggctggagtgcagtggtgcgacctcggctcacttcaacctccccctcatgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa--ttttgtatttttagaagagatggggtttcaccaggttggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i cerAty1.NW_011999477v1    I 3 C 0
s chlSab2.chr11             100764096 276 - 128539186 ----------ttaaagtggagttttactcctgtcacccaggctggagtgcagtggtgtgacctcggctcacttcaacctccccctcacgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa-tttttgtatttttagaagagatggggtttcaccaggttggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i chlSab2.chr11             I 2 C 0
s manLeu1.NW_012101287v1       159314 285 +    435186 tttttttttttttaagtggagttttactcctatcacccaggctggagtgcagtggtgcgacctcggctcacttcaacctccccctcatgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa--ttttgtatttttagaagagatggggtttcaccaggttggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctctcaaagtgctgggattatagctgtgagccactgtgcccagcc
i manLeu1.NW_012101287v1    I 50 C 0
s colAng1.NW_012114364v1      3553182 285 +   9309688 tgttgttgttgttAAGTggagttttactcttgtcacctaggctggagtgcagtggtgtgacctcagctcacttcaacctccccctcacgggttcaagtg---------cttcagcctccaaagtagctgggattttaggtgcttgccatcacacctggctaa-tttttgtattttta-aagagatggggtgtcactaggttggccagcctggtcttgaactcctgacctcaggtcatccacccatctcggcctcccaaagtgctgggattacagctgtgagccaccgtgcccagcc
i colAng1.NW_012114364v1    I 4 C 0
s saiBol1.JH378123           11384523 286 -  29834108 ----------ttgagacagagttatactcttgtagcccacgctgaagttcagtggtgtaatctcaactcacttcaacctctgcctcccagattcaagtgattctcctgcctcagtctcccaagtagctaggattataggtgctcaccaccacacttggctaattttttgtatttttaggatagatggggtttcaccaggttggccaggctggtctcaaactcctgacctgaagtgatccacccaccttggcctgccaaagtactgggattacaggcataagcccctgcacccagcc
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4560194   2 -  12054995 I
e mm10.chr6                   2403627  38 - 149736546 I
e micMur3.chr21               2999748  36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973  91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I

a score=235298.000000
s hg38.chr12_GL383549v1_alt     68536 34 +    120804 aaaccctatatatTTTGAACACTGTGGTAAACAT
s panTro5.chr12              62760121 34 + 137163284 aaaccctatatatTTTGAACACTGTGGTAAACAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883923 34 + 135337776 aaaccctatatatTTTGAACACTGTGGTAAACAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099343 34 -  32808036 AAACCCTATATATTTTGAACACTGTGGTAAACAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289400 34 +  34552619 AAACCCTATATATTTTGAACACTGTGGTAAACAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595317 34 - 133663169 CAACCCTATATATTTTAGACACTGTGGTAAACAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994886 34 - 137757926 CAACCCTATATATTTTAGACACTGTGGTAAACAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372790 34 -   7948249 CAACCCTATATATTTTAGACACTGTGCTAAACAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273393 34 -  10730278 CAACCCTATATGTTTTAGACACTGTAGTAAACAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764372 34 - 128539186 CAACCCTATATAATTTAGACACTGTGGTAAACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159599 34 +    435186 GAACCCTATATATTTTAGACACTGTAGTAAACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553467 34 +   9309688 CAACCCTATATATTTTAGACACTGTGGTAAACAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384809 34 -  29834108 AAACACTATATATTTTGGACACTGTGGTAAATAT
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4560196 34 -  12054995 aacccctgtatatgtcaggcactgtgttaaatgc
i otoGar3.GL873576          I 2 C 0
e mm10.chr6                   2403627 38 - 149736546 I
e micMur3.chr21               2999748 36 +  31815103 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I

a score=240411.000000
s hg38.chr12_GL383549v1_alt     68570 36 +    120804 TGGCACCACAAAGAAGAAAAAAAGTTTCTTGAACTC
s panTro5.chr12              62760155 36 + 137163284 TGGCACCACAAAGAAGAAAAAAAGTTTCTTGAACTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883957 35 + 135337776 TGGCACCACAAAGAAG-AAAAAAGTTTCTCGAACTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099377 36 -  32808036 TGGCACCACAAAGAAGAAAAAAAGTTTCTCGAACTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289434 36 +  34552619 TGGCACCACAAAGAAGAAAAAAAGTTTCTCGAACTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595351 36 - 133663169 TGGTACCACAAAGAAGAAAAAAACTTTCTCAAACTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994920 36 - 137757926 TGGTACCACAAAGAAGAAAAAAACTTTCTCAAACTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372824 36 -   7948249 TGGTACCACAAAGAAGAAAAAAAGTTTCTCAAACTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273427 36 -  10730278 TGGTACCACAAAGAAGAAAAAAAGTTTCTCAAACTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764406 36 - 128539186 TGGTACCACAAAGAAGAAAAAAAGTTTCTCAAACTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159633 36 +    435186 TGGTACCACAAAGAAGAAAAAAAGTTTCTCAAATTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553501 36 +   9309688 TGGTACCACAAAGAAGAAAAAAGTTTTCTCAAACTA
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               2999784 35 +  31815103 tggcaccacaaagaag-aaaaaagtttctcaaacta
i micMur3.chr21             I 36 C 0
s otoGar3.GL873576            4560230 34 -  12054995 tag-ACCAAAAAGATG-CAAAAAGTTTCTCAAACTA
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2403627 38 - 149736546 I
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384843  0 -  29834108 C

a score=1795302.000000
s hg38.chr12_GL383549v1_alt     68606 250 +    120804 AGAAGCTCACAGGAGCTCATTCCAGGTACCCTGAgcactggcaacaccaagctattaactgtttctcaac-acgtcgcatatcctcccaacactgtgggactgttctctcttcttgaaatgccctttcctccctattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacgcttctccaacctcaaagtcagaattgaggactccccac-ccatctactgccatagcaTTTAACATCTA
s panTro5.chr12              62760191 250 + 137163284 AGAAGCTCATAGGAGCTCATTCCAGGTACCCTGAgcactggcaacaccaagctattaactgtttctcaac-acgtcgcatatcctcccaacactgtgggactgttctctcttcttgaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacgcttctccaacctcaaagtcagaattgaggactccccac-ccatctactgccatagcaTTTAACATCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60883992 250 + 135337776 AGAAGCTCATAGGAGCTCATTCCAGGTACCCTGAgcactggcaacaccaagctattaactgtttctcaac-acgtcacatatcctcccaacactgtgggactgttctctcttcttgaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaatgcttctccaacctcaaagtcagaattgaggactccccac-ccatctactgccatagcaTTTAACATCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099413 250 -  32808036 AGAAGCTCATAGGAGCTCATTCCAGGTAACCTGAgcactggcaacaccaagctattaactgtttctcaac-acgtcgcatatcctcccaacactgtgggactgttctctcttcttgaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacgcttctccaacctcaaagtcagaattgaggactccccac-ccatctactgccatagcaTTTAACATCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289470 250 +  34552619 AGAAGCTCACAGGGGCTCATTCCAGGTACCCTGAgcactggcaacaccaagctattaactgtttctcaac-acgtcacatatcctcccaacactgtgggattattctctcttcttgaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcttgtgagaacgcttctccaacctcaaagtcagaattgaggactccccac-ccatctactgccatagcaTTTAACATCTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595387 250 - 133663169 AGAAGCTCATAGGAGCTCATT-CAGGTACCCTGAGCAAGGGCAACACCAAGCTATTAGCTGTTTCTCAAC-ATGTCACATATCCTCCCAACACTGTGAGACTGTTCTCTCTTCTTAAAATGCCCTTTCCTCCCCATTACTGCTGGTAGAAA--------------TTCTAATTATT---AGTGCTACTTCCTATGAGAACCCTTCTCCAACATCAAAGTCAGAATTGAGAACTCCCCCTGTCATCTACTGTCATAGCATTTAACATCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108994956 250 - 137757926 AGAAGCTCATAGGAGCTCATT-CAGGTACCCTGAGCAAGGGCAACACCAAGCTATTAGCTGTTTCTCAAC-ATGTCACATATCCTCCCAACACTGTGAGACTGTTCTCTCTTCTTAAAATGCCCTTTCCTCCCCATTACTGCTGGTAGAAA--------------TTCTAATTATT---AGTGCTACTTCCTATGAGAACCCTTCTCCAACCTCAAAGTCAGAATTGAGAACTCCCCCTGTCATCTACTGTCATAGCATTTAACATCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1372860 250 -   7948249 AGAAGCTCATAGGAGCTCATT-CAGGTACCCTGAGCAAGGgcaacaccaagctattagctgtttctcaac-atgtcacatatcctcccaacactgtgagactgttctctcttcttaaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacccttctccaacctcaaagtcagaattgagaactccccctgtcatctactgtcatagcattcAACATCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273463 250 -  10730278 AGAAGCGCATAGGAGctcatt-caggtaccctgagcacgggcaacaccaagctattagctgtttctcaac-atgtcacatatcctcccaacactgtgagactgttctctcttcttaaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacccttctccaacctcaaagtcagaattgagaactccccctgtcatctactgtcatagcatttaacatctA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764442 249 - 128539186 AGAAGCTCATAGGAGCTCATT-CAGGTACCCTGAGCACTGGCAACACCAAGCTATTAGCTGTTTCTCAAC-ATGTCACATATCCTCCCAACACTGTGAGACTGTTCTCTCTTCTTAAAATGCCCTTTCCTCCCCATTACT-TTGGTAGAAA--------------TTCTAATTATT---AGTGCTACTTCCTATGAGAACCCTTCTCCAACCTCAAAGTCAGAACTGAGAACTCCCCCTGTCATCTACTGTCATAGCATTTAACATCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159669 250 +    435186 AGAAGCTCATAGGAGctcatt-caggtaccctgagcacgggcaacaccaagctattagctgtttctcaac-atgtcacatatcctcccaacactatgagactgttctctcttcttaaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacccttctccaacctcaaagtcagaattgagaactccccctgtcatctactgtcatagcatttaacatctA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553537 250 +   9309688 AGAAGCTCATAGGAGctcatt-caggtaccctgagcactggcaacaccaagctattagctgtttctcaac-atgtcacatatcctcccaacactgtgagactgttctctgttcttaaaatgccctttcctccccattactgctggtagaaa--------------ttctaattatt---agtgctacttcctatgagaacccttcttcaacctcaaagtcagaattgagaactccccctgtcatctactgtcatagcatttaacatctA
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               2999819 250 +  31815103 agaacctcctaggaactcatttccagtgTcctgagcactagcaacaccaggctattgactgtttctcaaagatgtcctatatctttccaaaactatgggactatttttccttcctgaaatgccctttcctccctatcGCTGCTGGTGCAAA--------------ATCTA-TTATACTCAGAGCTACTTCCTATGGGAGCCCTTCTCTAACCTCAAAGTCAGAATTCGGCACCCTCCTTATC-TGTGCTGCCATAGCACTTAACTT---
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560264 247 -  12054995 AGGACCTCGTTGGAGTTCATTTCCAGTATCCTGAGTGctagcagca-caggctgttaactgtttctcaaaaatgtcagatgtccttggaaaactgtggaactgtttttccttcctgaaatgccctttcctccctattcctgctaatacaaa--------------ttctacttatg---agagctacctcctatgggaacctttttccagcctcaaagtcagaattgtgggcccctcttatc-tctcctgccatagcacTTGACTT---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403665 244 - 149736546 AGAGACTTGGAGAAATTCATCTCAAAGA-----AACACTCACAACCCTAAGCTATGAGCTA---CTCAGAGTCATCCCAGATTCTCAACATACAGTG-----------CTCTCCTAAAACATTCATCCTTCCTTGTTGCTTCTGGTAGTAAGAACTCTTCGTTGCTCCTTCCCGTG---GACCCTCCTTTCTATGGGAACTCTTCTCTGATCTCGGAGTCAGAGTACAGGAGTCCCTTT-TC-TGTACT-TCACAACACTCATTTTATA
i mm10.chr6                 I 38 C 0
e canFam3.chr27              19714947 1377 +  45876710 I
e proCoq1.NW_012140524v1      5090973  91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384843   0 -  29834108 C

a score=73365.000000
s hg38.chr12_GL383549v1_alt     68856 13 +    120804 GAAAGTAGAGC-----CT
s panTro5.chr12              62760441 13 + 137163284 GAAAGTAGAGC-----CT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884242 13 + 135337776 GAAAGTAGAGC-----CT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099663 13 -  32808036 GAAAGTAGAGC-----CT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289720 13 +  34552619 GAAAGTAGAGC-----CT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595637 13 - 133663169 GAAAGTAGAAC-----CT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995206 13 - 137757926 GAAAGTAGAAC-----CT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373110 13 -   7948249 GAAAGTAGAAC-----CT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273713 13 -  10730278 GAAAGTAGAAC-----CT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764691 13 - 128539186 GAAAGTAGAAC-----CT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159919 13 +    435186 GAAAGTAGAAC-----CT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553787 13 +   9309688 GAAAGTAGAAC-----CT
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               3000069  2 +  31815103 ----------------CT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560511  2 -  12054995 ----------------CT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403909 11 - 149736546 TTCA--AGGGC-----CT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716324 18 +  45876710 GATAGTAGAGCTGATTCT
i canFam3.chr27             I 1377 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e dasNov3.JH562883             913625 1215 -   1687904 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384843  0 -  29834108 C

a score=248339.000000
s hg38.chr12_GL383549v1_alt     68869 29 +    120804 GAGAGAAGGGGATACCTAAATAATACCAA
s panTro5.chr12              62760454 29 + 137163284 GAGAGAAGGGGATACCTAAATAATACCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884255 29 + 135337776 GAGAGAAGGGGATACCTAAATAATACCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099676 29 -  32808036 GAGAGAAGGGGATACCTAAATAATACCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289733 29 +  34552619 GAGAGAAGGGGATATCTAAGTAATACCAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595650 29 - 133663169 GAGAGAAGGGGATACCTAAATAATACCAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995219 29 - 137757926 GAGAGAAGGGGATACCTAAATAATACCAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373123 29 -   7948249 GAGAGAAGGGGATACCTAAATAATACCAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273726 29 -  10730278 GAGAGAAGGGGATACCTAAATAATACCAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764704 29 - 128539186 GAGAGAAGGGGATACCTAAATAACACCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159932 29 +    435186 GAGAGAAGGGGATACCTAAATAATACCAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553800 29 +   9309688 GAGAGAAGGGGATACCTAAATAATACCAA
i colAng1.NW_012114364v1    C 0 C 0
s micMur3.chr21               3000071 28 +  31815103 AAGAAAAGGGAACACCTAAA-GATACCAA
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560513 28 -  12054995 GAGAAAAGGGAACACCTAAG-GACACCAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403920 25 - 149736546 GGAAGAAG---ACACTTCAGT-ATACAGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716342 28 +  45876710 GAAAAAATGGAACATCTAAAT-ATACCAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             914840 28 -   1687904 GAGAAAAGAGGCTACCAAAAC-ATAACAA
i dasNov3.JH562883          I 1215 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I
e saiBol1.JH378123           11384843  0 -  29834108 C

a score=37327.000000
s hg38.chr12_GL383549v1_alt     68898 5 +    120804 -TGGGG
s panTro5.chr12              62760483 5 + 137163284 -TGGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884284 5 + 135337776 -TGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099705 5 -  32808036 -TGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289762 5 +  34552619 -TGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595679 5 - 133663169 -TGGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995248 5 - 137757926 -TGGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373152 5 -   7948249 -TGGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273755 5 -  10730278 -TGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764733 5 - 128539186 -GGGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159961 5 +    435186 -TGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553829 5 +   9309688 -TGGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384843 5 -  29834108 -TGGAA
i saiBol1.JH378123          C 0 C 0
s micMur3.chr21               3000099 5 +  31815103 -TGGGA
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4560541 5 -  12054995 -GGGGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403945 4 - 149736546 --GAAG
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19716370 5 +  45876710 -TGGAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             914868 5 -   1687904 CTGGG-
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1857612 377 -   2295209 I
e cebCap1.NW_016107911v1       837085 373 -   1015025 I

a score=1900384.000000
s hg38.chr12_GL383549v1_alt     68903 141 +    120804 GAAATCTGGCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATGGCATAACTACAAGAACGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
s panTro5.chr12              62760488 141 + 137163284 GAAATCTGGCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATGGCATAACTACAAGAACGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884289 141 + 135337776 GAAATCTGGCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATGGCATAACTACAAGAACGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099710 141 -  32808036 GAAATCTGGCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATGGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289767 141 +  34552619 GAAATCTGGCTTA-------TGTAAGCAAAGACAGAAATTTATCAGAAGGATATGGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAATCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595684 141 - 133663169 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGGTTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995253 141 - 137757926 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGGTTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373157 141 -   7948249 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGGTTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273760 141 -  10730278 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTGCAAGAATGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764738 141 - 128539186 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTGATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTCGGGTTCCAGGGAACAGACACTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       159966 141 +    435186 GAAATCTGTCTTA-------TGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553834 141 +   9309688 GAATTCTGTCTTA-------CGTAAGCAAAGATAGAAATTTATCAGAAGGATATAGCATAACTACAAGAATGAAAAGAGAAGTTG-AAAGTCAGATTTTAGAATCAACTGGAACCTGGGTAGCTCTTGGGTTCCAGGGAACAGACACTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384848 142 -  29834108 GAAATCTGGCTTA-------TGTAAGCAAAGATATAAATTTATCAGAAGGATATGGCATAACTACAAGAATGAAAAGAGAAGTTGAAAAGTCATATTTTAGAATCAACTGGAACCTGGGTCACTCTTGGGTTCCAGGGAAAAAACACTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837458 142 -   1015025 GAAATCTGGCTTA-------TGTAAGCAAAGATATAAATTTACCAGAAGGATATGGCATAACTACAAGAATGAAAAGAGAAGTTGAAAAGTCAAATTTTAGAATCAACTGGAACCTGGGTCACTCTTGGGTTACAGGGAAAAAACACTA
i cebCap1.NW_016107911v1    I 373 C 0
s aotNan1.NW_018488218v1      1857989 142 -   2295209 GAAATCTGGCTTA-------CGTAAGCAAATATATAAATTTATCAGAAGGATATGGCATAACTACAAGAATGAAAAGAGAAGTTGAAAAGTCACATTTTAGAATCAACTGGAACCTGGGTCGCTCTTGGGTTCCAGGGAACAAACACTA
i aotNan1.NW_018488218v1    I 377 C 0
s micMur3.chr21               3000104 142 +  31815103 GAAATCTGGCTTA-------TATAAGCAAAGATAGAAATGTATTAGAAGGATACAGAACAACTCCAAGAATGAAAAGGAAAGTTGGAAAGCCAGATTTTAGAATCAACAGGAACCAGGGTAGCTTTTGGGTTCCAGGGAACAGACACTA
i micMur3.chr21             C 0 I 110
s otoGar3.GL873576            4560546 148 -  12054995 GAAACCTGGCCTATACCAAGTATAAGCAAAGATAGAAATTTATTAGAAGAATATGGAACAACTCCAAGTATGGAAAGGAAAATGGAAAAGCCAGATTTTAAAATCAGCAGGAACCAGGGTAGGTCTTGAGGTCT-GGAAGCAGACCCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2403950 141 - 149736546 GGGATCCAGCCT--------CATAATCAAAGATAGAAATGCATTGAGAGGGTATGAACTCAGTCTAGTAGTGAAGAAGGAAGATGAAATGCCATGTTTTAGAACCAGTGGGAACCAGGGTGGTTCTTGGTTTTCACAGACTAGGTAGGC
i mm10.chr6                 I 1 I 3
s canFam3.chr27              19716375 137 +  45876710 GAAATCTA----A-------CATAAGCAAAGATAGAAATGTTTCGGAAGGATAGAGAATAACTCTGAAAATGAAATG-GAAGTTGAGAAAACAGATTTCTGAATCAACAGGAACCAGCGTAACTCTTTGGCTGTAGGGAGCAGACACTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             914873 142 -   1687904 GAGAGctggctaa-------cctaagcagagacaggcatttattagaaggatatggaatagcttccagaatGAAAAGAGAAGTTAAAAAAGCATATTTCAGAATCGACAGGAGCCAGGGTAGCTCTTGGGCTCCGGGAAGCAGACACAA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5090973  91 +  13104022 I

a score=53292.000000
s hg38.chr12_GL383549v1_alt     69044 5 +    120804 GAGGT
s panTro5.chr12              62760629 5 + 137163284 GAGGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884430 5 + 135337776 GAGGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099851 5 -  32808036 GAGGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289908 5 +  34552619 GAGGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595825 5 - 133663169 GAGGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995394 5 - 137757926 GAGGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373298 5 -   7948249 GAGGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273901 5 -  10730278 GAGGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764879 5 - 128539186 GAGGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160107 5 +    435186 GAGGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553975 5 +   9309688 GAGGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384990 5 -  29834108 GAGGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837600 5 -   1015025 GAGGT
i cebCap1.NW_016107911v1    C 0 I 79
s aotNan1.NW_018488218v1      1858131 5 -   2295209 GAGGT
i aotNan1.NW_018488218v1    C 0 I 1
s otoGar3.GL873576            4560694 5 -  12054995 ATGGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404094 3 - 149736546 GAG--
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19716512 5 +  45876710 AAGGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915015 5 -   1687904 ACTGT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000246 110 +  31815103 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I

a score=262172.000000
s hg38.chr12_GL383549v1_alt     69049  84 +    120804 GA---------TTTCgttgttgt------------------------------tgttgttgttgttgt--------------------tgttg----------------------------------ttgttgGCCAGGGAGCATCAAAACACTTTGATTGACAATGCTGTCAAGGC
s panTro5.chr12              62760634  93 + 137163284 GA---------TTTCAttgttgt------------------------------tgttgttgttgttgt--------------------tgttgttgttg-------------------------CTATTGTTGGCCAGGGAGCATCAAAACACTTTGATTGACAATGCTGTCAAGGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884435  81 + 135337776 GA---------TTTCgttgttgt------------------------------tgttgttgttgttgt--------------------ta-------------------------------------tttttgGCCAGGGAGCATCAAAACACTTTGATTGACAATGCTGTCAAGGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099856  78 -  32808036 GA---------TTTCgttgttgt------------------------------tgttgttgttgtta------------------------------------------------------------ttgttgGCCAGGGAGCATCAAAACATTTTGATTGACAATGCTGTCAAGGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289913  72 +  34552619 GA---------TTttgttgttgt------------------------------ggttgtta------------------------------------------------------------------ttgttgGCCAGGGAGCATCAAAACATTTTGATTGACAATGCTGTCAAGGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595830  61 - 133663169 GA---------TTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACCGTCAAGGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995399  61 - 137757926 GA---------TTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACCGTCAAGGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373303  61 -   7948249 GA---------TTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACTGTCAAGGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273906  62 -  10730278 GA--------TTTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACTGTCAAGGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764884  62 - 128539186 GA--------TTTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACTGTCAAGGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160112  61 +    435186 GA---------TTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTAATTGACAATACTGTCAAGGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3553980  65 +   9309688 GATTT-----TTTTTTTTTT-----------------------------------------------------------------------------------------------------------CCTTTGGCCAGGGAGCATCAAAATATTTTGATTGACAATACTGTCAAGGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11384995  28 -  29834108 AA---------TTTTTTTGTTGT------------------------------TGTTTTTATT--------------------------------------------------------------------------------------------------------------CAGC
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1858137  77 -   2295209 At---------tttttttgttgt------------------------------tgtttttattattg------------------------------------------------------------ttgttgGCCAGGGAGCATC-AAACACTTTGATTGACAGTACTGTCAAGGC
i aotNan1.NW_018488218v1    I 1 C 0
s otoGar3.GL873576            4560699  61 -  12054995 -----------GTTTTTTGCTG---------------------------------------------------------------------------------------------------------GTGGTGGTCAGGAAAGATCAAAACATTTTCATTGACAATACCAATAAGGC
i otoGar3.GL873576          C 0 I 353
s mm10.chr6                   2404097  55 - 149736546 GA---------TTTG----------------------------------------------------------------------------------------------------------------TTAATTGGGAGAGACAGTCAATACATTTTGATTGACAACACAGA-GAGAC
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19716517  55 +  45876710 --------------GTTTTT-----------------------------------------------------------------------------------------------------------TGGCTGGCCAAGGAGGGTC-AAACATTTTGATTGGCAATACCAACAAGGC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915020 175 -   1687904 --GCCGTTGGTTTTTGTTTTCACATCCACCAGTAGGATGGATGAATTCCTACAGGTTTCCATTTTCGTGCCGTTCTGCTCTGAATGAGTATAGCTGCTGGGCCAAGCGTGGGTCAGGCTTTGTCCTCCTGCTGGGCAGGGAGGCTCAAAGCATCCTGAGGGACCGTTCCAGCAAGAC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000246 110 +  31815103 I
e proCoq1.NW_012140524v1      5090973  91 +  13104022 I
e cebCap1.NW_016107911v1       837605  79 -   1015025 I

a score=131692.000000
s hg38.chr12_GL383549v1_alt     69133 17 +    120804 TGAAT----CCAATTGAGGGG
s panTro5.chr12              62760727 17 + 137163284 TGAAT----CCAATTGAGGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884516 17 + 135337776 TGAAT----CCAATTGAGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099934 17 -  32808036 TGAAT----CCAATTGAGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7289985 17 +  34552619 TGAAT----CCAATTGAGGGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595891 17 - 133663169 TGAAT----CCAATTGAGGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995460 17 - 137757926 TGAAT----CCAATTGAGGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373364 17 -   7948249 CGAAT----CCAATTGAGGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273968 17 -  10730278 TGAAT----CCAACTGAGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764946 17 - 128539186 TGAAT----CCAATTGAGGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160173 17 +    435186 TGAAT----CCAATTGAGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554045 17 +   9309688 TGAAT----CCAATTGAGGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385023 17 -  29834108 TGAAT----TCAGTTGAGGGG
i saiBol1.JH378123          C 0 I 1
s aotNan1.NW_018488218v1      1858214 17 -   2295209 TGAAT----TCAGTTGAGGAG
i aotNan1.NW_018488218v1    C 0 I 33
s mm10.chr6                   2404154 11 - 149736546 AGAAT----CCGGTG------
i mm10.chr6                 I 2 I 3
s canFam3.chr27              19716572 17 +  45876710 TGAAT----CCAGTGGGGGTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915195 16 -   1687904 TGAATGCGCACAGCTC-----
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4560760 353 -  12054995 I
e micMur3.chr21               3000246 110 +  31815103 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e cebCap1.NW_016107911v1       837605 79 -   1015025 I

a score=-14725.000000
s hg38.chr12_GL383549v1_alt     69150 12 +    120804 AGCGGA----------AGGAGG------
s panTro5.chr12              62760744 12 + 137163284 AGCGGA----------AGGAGG------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884533 12 + 135337776 AGCGGA----------AGGAGG------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099951 12 -  32808036 AGCGGA----------AGGAGG------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290002 12 +  34552619 AGCGGA----------AGGAGG------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595908 10 - 133663169 ATGGG------------GTAGG------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995477 10 - 137757926 ATGGG------------GTAGG------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373381 10 -   7948249 ATGGG------------GTAGG------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273985 10 -  10730278 ATGGG------------GTAGG------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764963 10 - 128539186 ATGGG------------GGAGG------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160190 10 +    435186 ATGGG------------GTAGG------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554062 10 +   9309688 ATGGG------------GGAGG------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385041 10 -  29834108 CGGGG------------GTGGG------
i saiBol1.JH378123          I 1 I 1
s mm10.chr6                   2404168 22 - 149736546 ATAAGGCTATTTTAACCGCAGG------
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19716589  3 +  45876710 -------------------GGG------
i canFam3.chr27             C 0 I 19
s dasNov3.JH562883             915211 12 -   1687904 ----------------CGCGGCGTCCAC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4560760 353 -  12054995 I
e micMur3.chr21               3000246 110 +  31815103 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e aotNan1.NW_018488218v1      1858231 33 -   2295209 I
e cebCap1.NW_016107911v1       837605 79 -   1015025 I

a score=24857.000000
s hg38.chr12_GL383549v1_alt     69162 2 +    120804 GC
s panTro5.chr12              62760756 2 + 137163284 GC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884545 2 + 135337776 GC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099963 2 -  32808036 GC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290014 2 +  34552619 GC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595918 2 - 133663169 GC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995487 2 - 137757926 GC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373391 2 -   7948249 GC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273995 2 -  10730278 GC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764973 2 - 128539186 GC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160200 2 +    435186 GC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554072 2 +   9309688 GT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385052 2 -  29834108 GC
i saiBol1.JH378123          I 1 I 26
s aotNan1.NW_018488218v1      1858264 2 -   2295209 GA
i aotNan1.NW_018488218v1    I 33 C 0
s micMur3.chr21               3000356 2 +  31815103 GC
i micMur3.chr21             I 110 C 0
s mm10.chr6                   2404190 2 - 149736546 GC
i mm10.chr6                 C 0 I 6
s canFam3.chr27              19716611 2 +  45876710 GC
i canFam3.chr27             I 19 I 6
s dasNov3.JH562883             915223 2 -   1687904 GC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4560760 353 -  12054995 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I
e cebCap1.NW_016107911v1       837605 79 -   1015025 I

a score=109849.000000
s hg38.chr12_GL383549v1_alt     69164 9 +    120804 TGTTGCCAG-
s panTro5.chr12              62760758 9 + 137163284 TGTTGCCAG-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884547 9 + 135337776 TGTTGCCAG-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099965 9 -  32808036 TGTTGCCAG-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290016 9 +  34552619 TATTGCCAG-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595920 9 - 133663169 TGTTGCCAG-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995489 9 - 137757926 TGTTGCCAG-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373393 9 -   7948249 TGTTGCCAG-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8273997 9 -  10730278 TGTTGCCAG-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764975 9 - 128539186 TGTTGCCAG-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160202 9 +    435186 TGTTGCCAG-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554074 9 +   9309688 TGTTGCCAG-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385080 9 -  29834108 TGTTGCCAG-
i saiBol1.JH378123          I 26 C 0
s cebCap1.NW_016107911v1       837684 9 -   1015025 TGTTGCCAG-
i cebCap1.NW_016107911v1    I 79 C 0
s aotNan1.NW_018488218v1      1858266 9 -   2295209 TGTTGCCAG-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3000358 9 +  31815103 TGTTGCCAA-
i micMur3.chr21             C 0 C 0
s mm10.chr6                   2404198 9 - 149736546 CATTCCCAG-
i mm10.chr6                 I 6 C 0
s canFam3.chr27              19716619 9 +  45876710 TGTTACCAG-
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             915225 9 -   1687904 -AGTTACAGC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4560760 353 -  12054995 I
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I

a score=664938.000000
s hg38.chr12_GL383549v1_alt     69173 64 +    120804 AAAAAAAGAGATAATACGAGGCGGGAATGCAGCAGATGCACCCTCCACTACAGGTGATAGCCAG
s panTro5.chr12              62760767 64 + 137163284 AAAAAAAGAGATAATACGAGGCGGGAATGCAGCAGATGCACCCTCCACTAAAGGTGATAGCCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884556 64 + 135337776 AAAAAAAGAGATAATACGAGGCGGGAATGCAGCAGATGCACCCTCCACTAAAGGTGATAGCCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3099974 64 -  32808036 GAAAAAAGAGATAATACGAGGTGGGAATGCAGCAGATGCACCCTCTACTAAAGGTGATAGCCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290025 64 +  34552619 AAAAAAAGAGATAATACGAGGCGGGAATATAGCAGATGCACCCTCCACTAAAGGTGACAGACAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595929 64 - 133663169 AAAAAAAGAGATAATACAAGGCAGTAATGCAGCAGATGCACCCTCCACTAAAGATGAtagccat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995498 64 - 137757926 AAAAAAAGAGATAATACAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGATAGCCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373402 64 -   7948249 AAAAAAAGAGATAATACAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGAtagccat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274006 64 -  10730278 AAAAAAAGAGATAATACAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGAtagccat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100764984 64 - 128539186 AAAAAAAGAGATAATACAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGATAGCCGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160211 64 +    435186 AAAAAAAGAGATAATACAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGAtagccat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554083 64 +   9309688 AAAAAAAGAGATAATGCAAGGCAGGAATGCAGCAGATGCACCCTCCACTAAAGATGATAGCCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385089 62 -  29834108 AAAAAAAGAGATAACAC-AGTGGGGAGGGCAGTAAATGCACCCTCCACTGAAG-TGGTAGCCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837693 62 -   1015025 AAAAAAAGAGATAACAC-AGGCGGGAGTGCAGTAAATGCATCCTCCACTGAAG-TGGTAGCCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858275 63 -   2295209 AAAACAAGAGATAATACAAGGCAGGAGTGCAGTAAATGCACCCTCCACTGAAG-TCATAGCCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3000367 64 +  31815103 CAAAAAAGAGATAATATGAGGCAGGAATGCAACACATGCACACTCCAGTAAATGTTATAGCTAT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4561113 64 -  12054995 aaaaaaaGACATAATATGAGTCAGGAACACAACACGTGCACACTCCAGTGAATGTTATAGCCAT
i otoGar3.GL873576          I 353 C 0
s mm10.chr6                   2404207 53 - 149736546 ---AAGAAAGAT------AGGTAGG--TAGATGAGATGCCTGCACTAATGAAAGTTATAGCTGT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716628 62 +  45876710 -AGAAAAAAGAGGTTATGAGGCAGAACAGCAACAGATGCCTATTCCAGTAAATGTTATAGCTA-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915234 43 -   1687904 AGAAGAGGGGATGATGTGAGCCAGGA------------TACCCAC---------GTAAAGCCAT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5090973 91 +  13104022 I

a score=1232324.000000
s hg38.chr12_GL383549v1_alt     69237 87 +    120804 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATAtagataaattcatatatggtagatc
s panTro5.chr12              62760831 87 + 137163284 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATAtagataaattcatatatggtagatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884620 87 + 135337776 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATAtagataaattcatatatggtagatc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100038 87 -  32808036 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATAtagataaattcatatatggtagatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290089 87 +  34552619 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATAtagatgaattcatatatggtagatc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104595993 83 - 133663169 aggaattatcaaatttttccaaatgaacttgcttagaaactcctagggtcctgatttaa----atataaattcatatatggtagatc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995562 83 - 137757926 AGGAATTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAA----ATATAAATTCATATATGGTAGATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373466 83 -   7948249 aggaattatcaaatttttccaaatgaacttgcttagaaactcctagggtcctgatttaa----atataaattcatatatggtagatc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274070 83 -  10730278 aggaattatcaaatttttccaaatgaacttgcttagaaactcctagggtcctgatttaA----ATATAAATTCATATATGGTAGATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765048 87 - 128539186 AGGAATTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGGTCCTGATTTAAATATATATAAATTCATATATGGTAGATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160275 83 +    435186 aggaattatcaaatttttccaaatgaacttgcttagaaactcctagggtcctgatttaa----atataaattcatatatggtagatc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554147 87 +   9309688 AGGAGTTATCAAATTTTTCCAAATGAACTTGCTTAGAAACTCCTAGGCTCCTGATTTAAATAtagataaattcatatatggtagatc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385151 87 -  29834108 AGGAGTTACCAAATTTTTTCAAATGAACTTGCTTAGAAATTTTTAGGGTCCTGATTTAAATAtagataaattcatgtagggtagatc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837755 87 -   1015025 AGGAGTTACCAAATTTTTTCAGATGAACTTGCTTAGAAATTTTTAGGGTCCTGATTTAAACAtagataaattcatgtatggtagatc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858338 87 -   2295209 AGGAGTTACCAAATTTTTTCAAATGAACTTGCTTAGAAATTTTTAGGGTCCTGATTTAAATAtagataaattcatgtatggtagatc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3000431 87 +  31815103 AGGAGTTATCAAATTTTTCAAAATAAACTTGCTTAGAAATTCCTGGAGTCTGGATTTAATTATAGATGAGTTCATATGTGGTAGATC
i micMur3.chr21             C 0 I 6
s proCoq1.NW_012140524v1      5091064 87 +  13104022 AGGAGTTATCAAATTTTTCAAAATAAACTTGCTTGGAAATTCCTGGAGTCTTGATTTAAATATAGATAAGTTGATATGTGGTAGATC
i proCoq1.NW_012140524v1    I 91 I 100
s otoGar3.GL873576            4561177 77 -  12054995 --GAGTTACC--------CAAAATAAACTTGGTTAGAAATTCCTGGAGTCTTGAGTTAAATAtagataaattcatatatggtagatc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404260 80 - 149736546 AGGGGTTGTTGACTGTTTCAGGA-AAACTTGCTTAGAAATTCACAGGTT------TTAAATATACATATATTCATGCTTGATAGATC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716690 85 +  45876710 --TAGTTATCAGATTTTTCAGGATAAAATTACTTGGAAATTCCTGGAATCCTAAATTAAATGtagatgaattcatatatagtagatc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915277 85 -   1687904 AGGACTTCTCAAACTTTCCAGGACAAACTTGCTTAGAAATACCCAGAATCCTGATTTACAC--AGATAAATTCATAGCATGTAGAGC
i dasNov3.JH562883          C 0 C 0

a score=1000890.000000
s hg38.chr12_GL383549v1_alt     69324 89 +    120804 cacaataggatgttaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAAGAGTATTTA-----TTGCACGCA-----TAACAATACAA
s panTro5.chr12              62760918 90 + 137163284 cacaataggatgttaacaaagtaaagattatgaagcatggttaaactttaaC-CCAA-AAAAAGAGTATTTA-----TTGCATGCA-----TAACAATACAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884707 89 + 135337776 cacaataggatgttaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAAGAGTATTTA-----TTGCACGCA-----TAACAATACAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100125 89 -  32808036 cacaataggatgttaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAAGAGTATTTA-----TTGCACACA-----TAACAATACAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290176 87 +  34552619 cacaataagatgttaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAA--AGTATTTA-----TTGCATGCA-----TAACAATACAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596076 89 - 133663169 cacaataggatgtcaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAACAGTATTGA-----TTGCACACA-----TAACAGTACAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995645 89 - 137757926 CACAATAGGATGTCAACAAAGTAAAGATTATGAAGCATGGTTAAACTTTAAC-CC-A-AAAAACAGTATTGA-----TTGCACACA-----TAACAGTACAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373549 89 -   7948249 cacaataggatgtcaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAGCAGTATTGA-----TTGCACACA-----TAACAGTACAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274153 89 -  10730278 CAGAATAGGATGTCAACAAAGTAAAGATTATGAAGCATGGTTAAACTTTAAC-CC-A-AAAAACAGTATTGA-----TTGCACACA-----TAACAGTACAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765135 89 - 128539186 CACAATAGGATGTCAACAAAGTAAAGATTACGAAGCATGGTTAAACTTTAAC-CC-A-AAAAACAGTATTGA-----TTGCACACG-----TAACAGTACAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160358 89 +    435186 cacaataggatgtcaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAAAACAGTATTGA-----TTGCACACA-----TAACAGTACAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554234 89 +   9309688 cacaataggatgtcaacaaagtaaagattatgaagcatggttaaactttaaC-CC-A-AAGAACAGTATTGA-----TTGCACACA-----TAACAGTACAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385238 90 -  29834108 cacaataggatgttaataaagtcaggattatgaagcatggttaaactttaaC-CC-AGAAAAAGAGTATTTA-----TTGCACAGA-----TAACAATACAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837842 90 -   1015025 cacaataggatgttaataaagtaaggattatgaagcatggttaaactttaaC-CC-AGAAAAAGAGTATTTA-----TTGCACAGA-----TAACAATACAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858425 90 -   2295209 cacaatagaatgttaataaagtaaggattatgaagcatggttaaactttaaC-CC-AGAAAAAGAATATTTA-----TTGCACAGA-----TAACAATACAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3000524 93 +  31815103 TACAATAGGATGTCAATGAAGTAAGGATTATGAGGCATGATCTAACTTTAACAAC-A-AAAATAAGTATTTATTGTTTTACATATA-----TAGCAATAC--
i micMur3.chr21             I 6 C 0
s otoGar3.GL873576            4561254 95 -  12054995 tacaataagatgtcaaggaagtaaggatTATGAGGCACAGCTTAATTTCAACAAC-C-AAAAAAAGTATTTACTATTTTGCATGTG-----TACCAATATAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404340 87 - 149736546 TGAAATAGGAAGTTGGCAAAGTAAATTCTATAAGATTTGGCCCAACTTGAAC-CA-A-AAGGAAAGGA--AA-----CAGTCCATG-----TAATAGCAGAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716775 76 +  45876710 cataataggatgctaacaaagaatggattctaaagTATGG-----------C-CT-G-AAAA--TGCTTTTA-----TTGCATTTA-----TGCTGTAACAA
i canFam3.chr27             C 0 I 4
s dasNov3.JH562883             915362 90 -   1687904 CACAATAGGATGTCGCCCAAGTGGGGATTAGGAGGCACAGTCTAGCTCTAAC-CT-A-AAGA---GTGTTTA-----TTGCATGTATATTGTAACACTACA-
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5091151 100 +  13104022 I

a score=2066680.000000
s hg38.chr12_GL383549v1_alt     69413 158 +    120804 AAACATTTCTGTAAGAC-AAAATCACTCG-TTTTTTCCTACGTTCCCTTCCAACACTTGATCATATATA--TAAAATCCCAGCATAAATCGAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCTT---GCACATTTTTTCAGGCTGCTTCACAGTC--TTTAA
s panTro5.chr12              62761008 158 + 137163284 AAACATTTCTGTAAGAC-AAAATCACTCG-TTTTTTCCTACGTTCCCTTCCAACACTTGATCATATATA--TAAAATCCCAGCATAAATCGAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTTTTCAGGTTGCTTCACAGTC--TTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884796 158 + 135337776 AAACATTTCTGTAAGAC-AAAATCACTCG-TTTTTTCCTACGTTCCCTTCCAACACTTGATCATATATA--TAAAATCCCAGCATAAATCGAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTTTTCAGGTTGCTTCACAGTC--TTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100214 157 -  32808036 AAACATTTCTGTAAGAC-AAAATCACTC--TTTTTTCCTACGTTCCCTTCCAACACTTGATCATATATA--TAAAATCCCAGCATAAATCGAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCATATTTTTTCAGGTTGCTTCACAGTC--TTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290263 158 +  34552619 AAACATTTCTGTAAGAC-AAAGTCACTCA-TTTTTTCCTACGTTCCCTTCCAACACTTGATCATATATA--TAAAATCCCAGCATAAATCGAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATTTCAT---GCACATTTTTTCAGGTTGCTTCACAGTC--TTTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596165 158 - 133663169 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAAATCCCAGTATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995734 158 - 137757926 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAAATCCCAGTATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373638 158 -   7948249 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAAATCCCAGTATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274242 158 -  10730278 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAAATCCCAGCATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765224 158 - 128539186 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAAATCCCAGCATAAATCAAGCTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160447 159 +    435186 AAATATTTCTGTAAGAC-AAAATCACTCATTTTTTTCCTATGTTCCCTTCCAACACTTGATCATACATA--TAAGATCCCAGCATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554323 158 +   9309688 AAATATTTCTGTAAGAC-AAAATCACTCA-TTTTTTCCTATGTTGCCTTCCAACACTTGATCATACATA--TAAAATCCCAGCATAAATCAAGTTATGTTTTCCAAATTTTCCCCTTTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGCC--TTTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385328 157 -  29834108 AAACATTTCTGTAAGAC-AAAATTATTCA-TTTCTTCCTATGTTCCCTTCCAACACTTGATCATATGTA--TAAAATCCCAGCACAGATCATGTTATGTTTTTTGAATTTCCC-CTGTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGTC--TTTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       837932 157 -   1015025 AAACATTTCTGTAAGAC-AAAATTATTCA-TTTCTTCCTATGTTCCCTTCCAACACTTGATCATATGTA--TAAAATCCCAGCACAGATCATGTTATGTTTTTTGAATTTCCC-CTGCTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGTC--TTTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858515 157 -   2295209 AAACATTTCTGTAAGAC-AAAATTATTCA-TTTCTTCCTATGTTCTCTTCCAACACTTGATCATATGTA--TAAAATCCCAGCACAGATCAAGTTATGTTTTTTGAATTTCCC---GTTTCTATGTCAT---GCACATTTCTTCAGGTTGCTTCACAGTCTTTTTAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3000617 158 +  31815103 AAACATTTCTATAAGAC-AAAATCACTCA-CTTTTTCCTACATCTTCTTCCAACATTTGATCATACATATGTAAAATCCTAACATAAAGATAGTCATGTTTTCTAAACA--TCCCTTTTTCTGTATCAT---GCACATTTTTCCAGGTTGCCTCATAGTC--TTTAA
i micMur3.chr21             C 0 I 528
s proCoq1.NW_012140524v1      5091251 161 +  13104022 AAACACTTCTATAAAAC-AAAATCACTCATTTTTTTCCTACATCCTCTTCCAACATTTGATCATACATATGTAAAATCCTAACATAAAGATAGTCATGTTTTCTGAACAGCCCCCTTTTTCTGTATCAT---GCACATTTCTCCAGGTTGCCTCATAGTC--TTTAA
i proCoq1.NW_012140524v1    I 100 I 550
s otoGar3.GL873576            4561349 139 -  12054995 -AAGTTTTCTACATGACAAAAATCACGAATCT----------------------AGGTGCTCCTTCATAGGTAAAATTCTAGCGTAAAGATAGTCATGTTTTCTGAACCTCCCCCTTTTTCTGTATCAT---GCACATTTCCCCAGGTTGCCTCATAGTC--TTTAA
i otoGar3.GL873576          C 0 I 97
s mm10.chr6                   2404427 132 - 149736546 -AATGCTTT------AC-AAACCTGCTTG-GGTTTTCCTAGGTTCTCTTCCAAGACTTGATTATATATA---------------GAAATATGGTTGTATTTTCTGGAT---CCTCTTTTTC-ATCTCAT---GGACATTTTCTCAGGCTGCTTCACTGTC--TTT--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19716855 156 +  45876710 TAACATCTTTAAAAGGC-AAACTCACCCA--TTTTTCCCATATTCTCCTCCAACACTTGATCATATAGA--TAAAATCCTAGCACAGA----GGTATGTTTTCTGAATTTTCCCCTTTTCCTATAATATATAATATATTTCCTCAGGCTCCTTCACAGTC--TTTAT
i canFam3.chr27             I 4 C 0
s dasNov3.JH562883             915452 130 -   1687904 AAGCAATTTTATAAGAC-AAAATCAACCA-ATTTATCTTATGTTCCTTtcc----------------ta------------gcatagatgtaattatgtttcctgaatt--cccccatttccatatttt---gcacctttcccgaggttgctgcatagtc--tttat
i dasNov3.JH562883          C 0 C 0

a score=622355.000000
s hg38.chr12_GL383549v1_alt     69571  63 +    120804 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACACAGAATTTGTTCATTGAA---------------
s panTro5.chr12              62761166  63 + 137163284 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACACAGAATTTGTTCATTGAA---------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60884954  63 + 135337776 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACACAGAATTTGCTCATTGAA---------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100371  63 -  32808036 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACACAGAATTTGCTCATTGAA---------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290421  63 +  34552619 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTGAATATCCTGTGTGTTCCTAACATAGAATTTGCTCATTGAA---------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596323  63 - 133663169 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995892  63 - 137757926 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373796  63 -   7948249 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274400  63 -  10730278 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765382  63 - 128539186 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160606  63 +    435186 CAT---------------------TTTTATA-----------------------------------------------------TTAATTATT----------------------------TTTTAATATCCTGTGTGTTCCTAACATAGAATTTTCTCATTGAA---------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554481  62 +   9309688 CAT---------------------TTTTATA-----------------------------------------------------TTAATT-TT----------------------------TTTTAATATCCTGTGTATTCCTAACATAGAATTTTCTCATTGAA---------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385485  63 -  29834108 CAT---------------------TTTTATT-----------------------------------------------------TTAGTTATT----------------------------TTAGAATATCCTGTGTGTTCCTAACATATAATTTGCTCATTGGA---------------
i saiBol1.JH378123          C 0 I 369
s cebCap1.NW_016107911v1       838089  62 -   1015025 CAT---------------------TTTTATT-----------------------------------------------------TTAGTTATT----------------------------TTAGAATATCCTGTGTGTTCCTAACATATAATTTGCTCATTGA----------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858672  63 -   2295209 CAT---------------------TTTTATT-----------------------------------------------------TTAGTTATT----------------------------TTAGAATATCCTGCGTGTTCCTAACATATAATTTGCTCATTGGA---------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4561585 165 -  12054995 catttatagggtacaatgtgctgattttatatacaatttagaatgcttcatcaaactggttaacatagccttcacctcacttacttaattattgtgttaagacatttaTACTTTTAATTAATTTACATATCCTGTATGTTACTCACACATAATTTGTTCCTTGAA---------------
i otoGar3.GL873576          I 97 I 9
s mm10.chr6                   2404559  53 - 149736546 ------------------------------------------------------------------------------------TTAAGCTAT----------------------------TCCTAACATCATGTGTGCTACTTCTATAGcattcacttattgaa---------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19717011  56 +  45876710 AAT---------------------TTTCATT-----------------------------------------------------TTAA---------------------------------TTATAGTATTCTGTATGTTTCCAACATA--ATTTGTTCATTGAA---------------
i canFam3.chr27             C 0 I 9
s dasNov3.JH562883             915582  78 -   1687904 gat---------------------ttttatt-----------------------------------------------------ataattatt----------------------------tcataacattctgtatgtttccgatacataatttgctcattgaatcgtctatcattgga
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I

a score=188817.000000
s hg38.chr12_GL383549v1_alt     69634 15 +    120804 TGTTTAGGATATTTC
s panTro5.chr12              62761229 15 + 137163284 TGTTTAGGATATTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60885017 15 + 135337776 TGTTTAGGATATTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100434 15 -  32808036 TGTTTAGGATATTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290484 15 +  34552619 TGTTTAGGATATTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596386 15 - 133663169 TGTTTGGGCTATTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995955 15 - 137757926 TGTTTGGGATATTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373859 15 -   7948249 TGTTTGGGATATTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274463 15 -  10730278 TGTTTGGGATATTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765445 15 - 128539186 TGTTTGGGGTATTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160669 15 +    435186 TGTTTGGGATATTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554543 15 +   9309688 TATTTAGGATATTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385917 15 -  29834108 tgtttaggatatttc
i saiBol1.JH378123          I 369 C 0
s cebCap1.NW_016107911v1       838151 15 -   1015025 TGTTTAGAATATTTC
i cebCap1.NW_016107911v1    C 0 I 351
s aotNan1.NW_018488218v1      1858735 15 -   2295209 TGTTTAGTATATTTC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4561759 15 -  12054995 tgtttaggatatttc
i otoGar3.GL873576          I 9 C 0
s mm10.chr6                   2404612 15 - 149736546 tcttgtggatgttta
i mm10.chr6                 C 0 I 6
s canFam3.chr27              19717076 15 +  45876710 TGTTTGGAATATTTC
i canFam3.chr27             I 9 C 0
s dasNov3.JH562883             915660 15 -   1687904 tgtttggaacagttc
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I

a score=652843.000000
s hg38.chr12_GL383549v1_alt     69649 65 +    120804 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAATTTTC-----ttttcttt---
s panTro5.chr12              62761244 65 + 137163284 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAATTTTC-----ttttcttt---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60885032 65 + 135337776 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAATTTTC-----ttttcttt---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100449 65 -  32808036 TAATGTTTGCTTCTATATAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAATTTTC-----ttttcttt---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290499 61 +  34552619 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAAttttc-----tttt-------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596401 62 - 133663169 TAACGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTAGACAAGTtttc-----ttttt------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108995970 62 - 137757926 TAACGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAGTtttc-----ttttt------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373874 62 -   7948249 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAGTtttc-----ttttt------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274478 62 -  10730278 TAATGTTTGCTTCTATACAT-AGTTCTATCATTGAT----ATCTTCATGTATACAAGTtttc-----ttttt------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765460 62 - 128539186 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAGTtttc-----ttttt------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160684 62 +    435186 TAATGTTTGCTTCTATACAT-AGTTCTATCATTAAT----ATCTTCATGTATACAAGTtttc-----ttttt------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554558 62 +   9309688 TAATGTTTGCTTCTATACAT-AGTTCTAGCATTAAT----ATCTTCATGTATACAAGttttc-----ttttt------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385932 63 -  29834108 taatgtttGCTCCTACACAT-AGTTCTATCATCAAT----ATCTTAATGTATACAAATTttct----ttttt------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       838517 67 -   1015025 taatgtttGCTCCTACACAT-AGTTCTATCATTAGT----ATCTTAATGTATACAAATTTTCTtttcttttt------
i cebCap1.NW_016107911v1    I 351 C 0
s aotNan1.NW_018488218v1      1858750 64 -   2295209 TAATGTTTGCTCTTATACAT-AGTTCTATCATTAAT----ATCTTAATGTATACAAATTTTCtt---ttttt------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4561774 65 -  12054995 taatttttgcctgtatacat-aattctataattaat----gtctctgcgtatacaaattttt-----ctttcttt---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404633 62 - 149736546 ttctttctcctcccttaaac-agccccataattaac----gccctcgtgtatacaaattttc-----ctttc------
i mm10.chr6                 I 6 I 189
s canFam3.chr27              19717091 62 +  45876710 TAATTTTTA-TCCTATACAT-AATTCCATAATTAATTCAGATTTTC-TATTAGCAGTGTTTC-----ATC--------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             915675 66 -   1687904 tcatttttgcttctataaataaattctataattaat----atcttcacataaaccaattttc-----tttta---ttt
i dasNov3.JH562883          C 0 I 588
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I

a score=39693.000000
s hg38.chr12_GL383549v1_alt     69714 6 +    120804 ctttta
s panTro5.chr12              62761309 6 + 137163284 ctttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60885097 5 + 135337776 -tttta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100514 5 -  32808036 -tttta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290560 5 +  34552619 -ttttg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596463 5 - 133663169 -tttaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108996032 5 - 137757926 -tttta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373936 5 -   7948249 -tttta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274540 5 -  10730278 -tttta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765522 5 - 128539186 -tttta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160746 5 +    435186 -tttta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554620 5 +   9309688 -ttaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11385995 5 -  29834108 -tttta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       838584 5 -   1015025 -tttta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858814 5 -   2295209 -tttta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4561839 6 -  12054995 gtatta
i otoGar3.GL873576          C 0 I 560
s canFam3.chr27              19717153 6 +  45876710 CTCCCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=7732.000000
s hg38.chr12_GL383549v1_alt     69720 2 +    120804 ac
s panTro5.chr12              62761315 2 + 137163284 ac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60885102 2 + 135337776 ac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100519 2 -  32808036 ac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290565 2 +  34552619 ac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596468 2 - 133663169 aa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108996037 2 - 137757926 aa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373941 2 -   7948249 aa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274545 2 -  10730278 aa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765527 2 - 128539186 aa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160751 2 +    435186 aa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554625 2 +   9309688 at
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11386000 2 -  29834108 ac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       838589 2 -   1015025 at
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858819 2 -   2295209 ac
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19717159 2 +  45876710 AC
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=17559912.000000
s hg38.chr12_GL383549v1_alt     69722 2021 +    120804  
s panTro5.chr12              62761317 2021 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60885104 2023 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3100521 2021 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7290567 2017 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104596470 2012 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108996039 2012 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1373943 2012 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8274547 2013 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100765529 2014 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       160753 2014 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3554627 1998 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11386002 2049 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       838591 2023 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1858821 2023 -   2295209  
i aotNan1.NW_018488218v1    C 0 I 326
e otoGar3.GL873576            4561845  560 -  12054995 I
e mm10.chr6                   2404695  189 - 149736546 I
e micMur3.chr21               3000775  528 +  31815103 I
e canFam3.chr27              19717161    0 +  45876710 C
e proCoq1.NW_012140524v1      5091412  550 +  13104022 I
e dasNov3.JH562883             915741  588 -   1687904 I

a score=83590.000000
s hg38.chr12_GL383549v1_alt     71743 11 +    120804 caagaatt-aca
s panTro5.chr12              62763338 11 + 137163284 caagaatt-aca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887127 11 + 135337776 caggaatt-aca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3102542 12 -  32808036 caagaattaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7292584 11 +  34552619 caagaatt-aca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104598482 11 - 133663169 caagaatt-aca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998051 11 - 137757926 caagaatt-aca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1375955 11 -   7948249 caagaatt-aca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8276560 11 -  10730278 caagaatt-aca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100767543 11 - 128539186 caagaatt-aca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       162767 11 +    435186 caagaatt-aca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3556625 11 +   9309688 caagaatt-aca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11388051 11 -  29834108 caagaatt-aca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       840614 11 -   1015025 caagaatt-aca
i cebCap1.NW_016107911v1    C 0 I 328
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717161  0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e aotNan1.NW_018488218v1      1860844 326 -   2295209 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=2308.000000
s hg38.chr12_GL383549v1_alt     71754 1 +    120804 g
s panTro5.chr12              62763349 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887138 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3102554 1 -  32808036 g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7292595 1 +  34552619 g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104598493 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998062 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1375966 1 -   7948249 a
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8276571 1 -  10730278 a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100767554 1 - 128539186 a
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       162778 1 +    435186 a
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3556636 1 +   9309688 a
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11388062 1 -  29834108 a
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717161 0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e aotNan1.NW_018488218v1      1860844 326 -   2295209 I
e dasNov3.JH562883             915741 588 -   1687904 I
e cebCap1.NW_016107911v1       840625 328 -   1015025 I

a score=19110.000000
s hg38.chr12_GL383549v1_alt     71755 2 +    120804 aa
s panTro5.chr12              62763350 2 + 137163284 aa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887139 2 + 135337776 aa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3102555 2 -  32808036 aa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7292596 2 +  34552619 aa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104598494 2 - 133663169 aa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998063 2 - 137757926 aa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1375967 2 -   7948249 aa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8276572 2 -  10730278 aa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100767555 2 - 128539186 aa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       162779 2 +    435186 aa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3556637 2 +   9309688 aa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11388063 2 -  29834108 aa
i saiBol1.JH378123          C 0 I 326
s cebCap1.NW_016107911v1       840953 2 -   1015025 aa
i cebCap1.NW_016107911v1    I 328 C 0
s aotNan1.NW_018488218v1      1861170 2 -   2295209 aa
i aotNan1.NW_018488218v1    I 326 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717161 0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=6255764.000000
s hg38.chr12_GL383549v1_alt     71757 712 +    120804  
s panTro5.chr12              62763352 712 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887141 705 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3102557 717 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7292598 720 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104598496 720 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998065 720 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1375969 720 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8276574 720 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100767557 720 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       162781 720 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3556639 728 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11388391 722 -  29834108  
i saiBol1.JH378123          I 326 C 0
s cebCap1.NW_016107911v1       840955 721 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1861172 725 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717161   0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=300918.000000
s hg38.chr12_GL383549v1_alt     72469 38 +    120804 TATACGGCATTACCATAATTTTGCTCATCATTAAGATT
s panTro5.chr12              62764064 38 + 137163284 TATACGGCATTACCATAATTTTGCTCATCATTAAGATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887846 38 + 135337776 TATACGGCATTACCATAATTTTGCTCATCATTAAGATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3103274 38 -  32808036 TATACGGCATTACCATAATTTTGCTCATCATTAAGATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7293318 38 +  34552619 TATATGGCATTGCCATAATTTTGCTCATCATTACAATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599216 36 - 133663169 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998785 36 - 137757926 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1376689 36 -   7948249 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277294 36 -  10730278 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768277 36 - 128539186 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       163501 36 +    435186 TAT--GACATTACCATCATTTTGATAATCATTAAGATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3557367 36 +   9309688 TAT--GACATTATCATCATTTTGATAATCATTAAGATT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389113 37 -  29834108 TATATGACATTG-GATCATTTTGCTAATCATTAAGATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       841676 38 -   1015025 TATATGGCATTGCCATCATTTTGCTAATCATTAAGATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1861897 38 -   2295209 TATATGGCATTGCCATCATTTTGCTAATCATTAAGATT
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19717161 38 +  45876710 TAGATAGTATTACCATCATTTTGCTAGTCATTAAGATT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=1357901.000000
s hg38.chr12_GL383549v1_alt     72507 186 +    120804 TAAAGTACAATTTGCTgtctggaaacaacagatgctggagaggatatggagaaataggaatgcttttatactgttggtgggagtgtaaattagttctaccattgtggaagacagtgtggtgattcctcaaggatctagaaccagaaataccatttgaccctgcaatccc-attactgggtatatac-c
s panTro5.chr12              62764102 186 + 137163284 TAAAGTACAATTTGCTgtctggaaacaacagatgctggagaggatatggagaaataggaacacttttatactgttggtgggagtgtaaattagttctaccattgtggaagacagtgtggtgattcctcaaggatctagaaccagaaataccatttgaccctgcaatccc-attactgggtatatac-c
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60887884 186 + 135337776 TAAAGTACAATTTGCTgtctggaaacaacagatgctggagaggatatggagaaataggaacgcttttatactgttggtgggagtgtaaattagttctaccattgtggaagacagtgtggtgattcctcaaggatctagaaccagaaataccatttgaccctgcaatccc-attactgggtatatac-c
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3103312 186 -  32808036 TAAAGTACAATTTGCTgtctggaaacaacagatgctggagaggatgtggagaaataggaacgcttttatactgttggtgggagtgtaaattagttctaccattgtggaagacagtgtggtgattcctcaaggatctagaaccagaaataccatttgaccctgcaatccc-attactgggtatatac-c
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7293356 171 +  34552619 TAAAGTACAGTTTGCTGTTTggaaataacagatgctggagaggatgtggagaaataggaacgcttttatactgt---tgggagtgtaaattagttctaccat------------tgtggcgattcctcaaggatctagaaccagaaataccatttgacccagcaatccc-attactgggtatatac-c
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599252 166 - 133663169 TAAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaatgcttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattattgggtatatac--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998821 166 - 137757926 TAAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaatgcttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattattgggtatatac--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1376725 166 -   7948249 TAAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaatgcttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattactgggtatatac--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277330 166 -  10730278 TAAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaacgcttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattactgggtatatac--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768313 166 - 128539186 TAAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaacacttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattactgtgtatatac--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       163537 166 +    435186 TTAAGTACAATTTGCTgtctggaaacaacagatgctggaaaggatgtggagaaataggaacgcttttagagtgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaatgccatttgatccagcaatccccattactgggtatatac--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3557403 158 +   9309688 TAAAGTACAATTTGCTgtctgggaacaacagatgctggaaaggatgtagagaaataggaacacttttagaatgttggtgggagtg--------------------ggaagacagtgtggtgattcctcaaggatctagaaccagaaataccatttgaaccagaaatgcc---------gtttatacc-
i colAng1.NW_012114364v1    C 0 I 16
s saiBol1.JH378123           11389150 186 -  29834108 TAAAATACAATTTATTgtctggaaacaacagatgctgatgagaatgtggagaaataggaatgcttttacactgttggtgagagtgtaaattagttcaacctttggggaagatagtgtggcgattcctcaaggatctagaacctgaaacaccatttgacccagctatccc-attactgggtatatac-c
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       841714 186 -   1015025 TAAAATACAATTTTTTgtctggaaacaacagatgctgatgagaatatggagaaataggaatgcttttacactgttggtgagagtataaattagttcaacctttggggaagatagtgtggcgattcctcaaggatctagaacctgaaacaccatttgacccagctatccc-attactgggtatatac-c
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1861935 186 -   2295209 TAAAATACAATTTATTgtctggaaacaacagatgctgatgaggatgtggagaaataggaatgcttttacactgtttgtgagagtgtaaattagttcaaccattggggaagatagtgtggcgattcctcaaggatctagaacctgaaataccatttgacccagcaatccc-attactgggtacatac-c
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717199   0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=176549.000000
s hg38.chr12_GL383549v1_alt     72693 76 +    120804 caaaatattataaatcattctacaataaagacacatggacatgtatgtttattgtagcacta-cttacaatagcaaa
s panTro5.chr12              62764288 76 + 137163284 caaaatattataaatcattctacaataaagacacatggacatgtatgtttattgtagcacta-cttacaatagcaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888070 76 + 135337776 caaaatattataaatcattctacaataaagacacatggacatgtatgtttattgtagcacta-cttacaatagcaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3103498 76 -  32808036 caaaatattataaatcattctacaataaagacacatggacatgtatgtttattgtagcacta-cttacaatagcaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7293527 76 +  34552619 caaaatattataaatcattctacaataaagacacatggacatgtatgtttattgtagcacta-cttacaatagcaaa
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11389336 77 -  29834108 caaaggattataaatcattttataataaagatacatggacatgaatatttattgcagcactattttacaatagcaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       841900 77 -   1015025 caaaggattataaatcattttataataaagacacatggacatgtatgtttattgcagcactattttacaatagcaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862121 77 -   2295209 caaaggattataaatcattttataataaagacacatggacatgtatgtttattgcagcactattttacaatagcaaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717199  0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I
e colAng1.NW_012114364v1      3557561 16 +   9309688 I
e manLeu1.NW_012101287v1       163703  0 +    435186 C
e chlSab2.chr11             100768479  0 - 128539186 C
e cerAty1.NW_011999477v1      8277496  0 -  10730278 C
e macNem1.NW_012011422v1      1376891  0 -   7948249 C
e macFas5.chr11             108998987  0 - 137757926 C
e rheMac8.chr11             104599418  0 - 133663169 C

a score=3829271.000000
s hg38.chr12_GL383549v1_alt     72769 449 +    120804 gacttggaaccaacccaaatgcccatcaatgatagactggat-aaagagaatgtggcacatatacaccatggaatactatgcagccataaaaaagaatgagatcatgtcttttgcagggacatagataaagctggaaaccatcatcctcagcaaactaacataggaacagaaaaccaaacaccgcatgttctcacttataagtgggaattgaacaatgagaacacatggacacagggaggggaacatcacacaccggggcctgtcgacggg-tggggggaaggggagggagagcattaagacaaatacctaatgcttgcagggcttaaaacctagatgacaagttgataggtgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtaccccagaacttaaagtaaaatttttaaaaataaataaa
s panTro5.chr12              62764364 446 + 137163284 gacttggaaccaacccaaatgcccatcaatgatagattggat-aaagagaatgtggcacatatacatcatggaatactatgcagccataaaaaagaatgagatcatgtcttttgcagggacatagataaagctggaaaccatcatcctcagcaaactaacataggaacagaaaaccaaacaccgcatgttctcacttataagtgggagttgaacaatgagaacatatggacacagggaggggaacatcacacaccggggcctgtcgaggggttgggggaaaggggagggagagcattaagacaaatacctaatgcttgcagggcttaaaacctagatgacaagttgataggtgcaccaaaccaccatggcacctgtatacctatgtaacaaacctgcacattcagcacatgtaccccagaacttaaagtaaaatttttaa----aaataaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888146 446 + 135337776 gacttggaaccaacccaaatgcccatcaatgatagattggat-aaagagaatgtggcacatatacatcatggaatactatgcagccataaaaaagaatgagatcatgtcttttgcagggacatagataaagctggaaaccatcatcctcagcaaactaacataggaacagaaaaccaaacaccgcatgttctcacttataagtgggagttgaacaatgagaacatatggacacagggaggggaacatcacacaccggggcctgtcgaggggttgggggaaaggggagggagagcattaagacaaatacctaatgcttgcagggcttaaaacctagatgacaagttgataggtgcaccaaaccaccatggcacctgtatacctatgtaacaaacctgcacattcagcacatgtaccccagaacttaaagtaaagtttttaa----aaataaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3103574 450 -  32808036 gacttggaaccaaccaaaatgcccatcaatgatagactggat-aaagagaatgtggcacatatacaccatggaatactatgcagccataaaaaagaatgagatcatgtcttttgcagggacatagataaagctggaaaccatcatcctcagcaaactaacacaggaacagaaaaccaaacaccgcatgttctcacttataagtgggagttgaacaatgagaacatatggacacagggaggggaacatcacacaccggggcctgtcgaggggtcgggggacaggggagggagagcattaagacaaatacctaatgcttgcagggcttaaaacctagatgacaagttgataggtgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtaccccagaacttaaagtaaaattttaaaaaataaaTAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7293603 420 +  34552619 gacttagaa-caacccaaatgcccatcaatgatagactggat-aaagaaaatgtggcacatatacaccatggaatactaagcagccacaaaaaagaataagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaagaacagaaaaccaaacaccgcatgttctcacttataagtgggaattgaacaatgagaacatatggacacaaggaggggaacatcacacaccggggcctgtcgaggggtcgggggaaaggggagggagagtattaagacaaatacctaatgcttgc-----------------------------aggtgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtaccccagaacttaaagtaaaattttaaaaaataaaTAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599418 450 - 133663169 gacttggaaccaacccaaatacccatcagtgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccacaagaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaggaagagaataccaaacactgcatgttctcactcataagtgggagttgaacagtgagaacacatggacacagggaggggaacatcacacaccggggcctgtcgaggggtggggggaaaggggagggagagcattaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgatagatgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtatcccagaacttaaagtaaaattttaaaaaataaaTAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108998987 450 - 137757926 gacttggaaccaacccaaatacccatcagtgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccacaagaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaggaacagaataccaaacactgcatgttctcactcataagtgggagttgaacagtgagaacacatggacacagggaggggaacatcacacaccggggcctgtcgaggggtggggggaaaggggagggagagcattaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgatagatgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtatcccagaacttaaagtaaaattttaaaaaataaaTAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1376891 450 -   7948249 gacttggaaccaacccaaatacccatcagtgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccacaagaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaggaacagaataccaaacactgcatgttctcactcataagtgggagttgaacagtgagaacacatggacacagggaggggaacatcacacaccggggcctgtcaaggggtggggggaaaggggagggagagcattaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgacagatgcaccaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtatcccagaacttaaagtaaaattttaaaaaataaaTAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277496 435 -  10730278 gacttggaaccaacccaaatacccatcagtgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccaccagaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaggaacagaataccaaacactgcatgttctcactcataagtgggagttgaacagtgagaacacatggacacagggaggagaacatcacacactggggcctgttgcggggtggggggaaaggggagggagagcattaggacaaatacctaatgcatgcagggcttaaaacctagattatgggttgatagatgcatcaa-----------acatgtatacctatgtaacaaacctacacattcagcacatgtatcgcagaacttaaagtaaaattttaaa----aaataaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768479 450 - 128539186 gacttggaaccaacccaaatgcccatcagtgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccacaaaaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacccaggaacagaataccaaacaccgcatgtactcactcataagtgggagttgaacagtgagaacacatggacacagggaggggaacatcacacaccggggcctgtcaaggggtggggggaaaggggagggagagcgttaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgatagatgcaccaaaccaccatggcacatgtatacctgtgtaacaaacctgcacattcagcacatgtatcccagaacttaaagtaaaatttttaaaaataaataaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       163703 450 +    435186 gacttggaaccaacccaaatacccatcagtgatagactggat-aaagaaaatgtggtacatatacaccatggaatactacgcagccacaaaaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacaggaacagaataccaaacactgcatgttctcactcataagtgggagttgaacagtgagaacacatggacacagggaggggaacatcacacaccggggcctgtcgaggggtggggggaaaggggagggagaacattaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgatagatgaaacaaaccaccatggcacatgtatacctatgtaacaaacctgcacattcagcacatgtatcccagaacttaaagtaaaattttaaaaaataaaTAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3557577 450 +   9309688 gacttggaaccaacccaaatgctcatcaatgatagactggat-aaagaaaatgtggcacatatacaccatggaatactatgcagccacaaaaaagaatgagatcatgtcttttgcagggacatggataaagctggaaaccatcatcctcagcaaactaacacatgaacagaaaaccaaacaccacatgttctcactcataagtgggagttgaacagtgagaacacgtggacacagggaggggaacgtcacacactggggcctgtcgcggggtcaggggaaaggggagggagagcattaggacaaatacctaatgcatgcagggcttaaaacctagatgacaagttgatagatgcaccaaaccaccatggcacatgtatacttatgtaacaaacctgcacattcagcacatgtatcccagaacttaaagcaaaattttaaaaaataaaTAAA
i colAng1.NW_012114364v1    I 16 C 0
s saiBol1.JH378123           11389413 439 -  29834108 gacttaaaaccaactcaaatgcccatcagtgatagactggctaaaaaaaaatgtggcatatatacactatggaatactatgcagccataaaaaagagtgagatagtgtcctttgcagggacacggatgaagttggaaa-catcattctcagaaaactaacacaggaacagaaaaccaaacactgcatgttctcacttataagtgggagttgaacaatgagaacacatggacacagggaggggaatgtcacacatgggggcctgtcaggaggtgaggggaaaggggagggagagcattaggacaaacacctgatgcatgtgggacttaaaacctagat-----------agatgcagcaaaccactatggcacatgtatacctatgtaataaacctgcatgttcagcacatgtatcccagaacttaaagtaaaattcaaaaaaataaaGAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       841977 439 -   1015025 gacttaaaaccaactcaaatgcccatcaatgatagactggct-aaaaaaaatgtggtatatatacactgtggaatactatgcggccctaaaaaagaatgagatagtgtcctttgcagggacatggatgaagttggaaaccatcattctcagaaaactaacacaggaacagaaatccaaacactgcatgttctcacttataagtgggtgttgaacaatgagaacacatggacacagagaggggaatgtcacacatgggggcctgtcgggaggtggggggaaaggggagggagagcattaggacaaatacctgatgcatgtgggacttaaaacctagat-----------aggtgcaacaaaccaccatggcacgtgtatacctatgtaataaacctgcatgttcagcacatgtatcccagaacttaaagtaaaattcaaaaaCATAAAGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862198 439 -   2295209 gacttaaaaccaactcaaatgcccatcaatgatagactggct-aaagtaaatgtggcatatatacaccatggaatgctatgcagccataaaaaagaatgagatcgtatcctttgcagggacatggatgaagttggaaaccatcattctcagaaaactaacacaggaacagaaaaccaaacactgcatgttctcacttataagtgggagttgaacaatgagaacacatggacacagagaggggaacgtcacacataggggcctgtcaggaggtggggacaaaggggagggagagcattaggacaaatacctgatgcatgtgggacttaaaacctagat-----------aggcatagcaaaccaccatggcacatgtatacctatgtaataaacctgcatgttcagcacatgtatcccagaacttaaagtaaaattgaaaaaaGTAAAGAAA
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e canFam3.chr27              19717199   0 +  45876710 C
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=94530.000000
s hg38.chr12_GL383549v1_alt     73218 12 +    120804 TAAAGTACAATT-
s panTro5.chr12              62764810 12 + 137163284 taaaGTACAATT-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888592 12 + 135337776 taaaGTACAATT-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104024 12 -  32808036 TAAAGTACAACT-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294023 12 +  34552619 TAAAGTACAATT-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599868 12 - 133663169 TAAAGTTCAATT-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999437 12 - 137757926 TAAAGTTCAATT-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377341 12 -   7948249 TAAAGTTCAATT-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277931 12 -  10730278 TAAAGTTCAATT-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768929 12 - 128539186 TAAAGTTCAATT-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164153 12 +    435186 TAAAGTTCAATT-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558027 12 +   9309688 TAAAGTTCAATT-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389852 12 -  29834108 GAAAGTACAATT-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842416 12 -   1015025 GAAAGTACAATT-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862637 12 -   2295209 GAAAGTACAATT-
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19717199 13 +  45876710 TAAAGTGGCACTT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4561845 560 -  12054995 I
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=25976.000000
s hg38.chr12_GL383549v1_alt     73230 2 +    120804 TG
s panTro5.chr12              62764822 2 + 137163284 TG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888604 2 + 135337776 TG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104036 2 -  32808036 TG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294035 2 +  34552619 TG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599880 2 - 133663169 TG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999449 2 - 137757926 TG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377353 2 -   7948249 TG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277943 2 -  10730278 TG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768941 2 - 128539186 TG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164165 2 +    435186 TG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558039 2 +   9309688 TG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389864 2 -  29834108 TG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842428 2 -   1015025 TG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862649 2 -   2295209 TG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4562405 2 -  12054995 TG
i otoGar3.GL873576          I 560 C 0
s canFam3.chr27              19717212 2 +  45876710 TG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             915741 588 -   1687904 I

a score=308450.000000
s hg38.chr12_GL383549v1_alt     73232 26 +    120804 TTGTTTAAATTTGTTTAGTATATGAG
s panTro5.chr12              62764824 26 + 137163284 TTGTTTAAATTTGTTTAGTATATGAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888606 26 + 135337776 TTGTTTAAATTTGTTTAGTATATGAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104038 26 -  32808036 TTGTTTAAATTTGTTTAGTATGTGAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294037 26 +  34552619 TTGTTTAAATTTGCTTAGTATATGAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599882 26 - 133663169 TTGTTTAAATTTGTTTAGTATATGAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999451 26 - 137757926 TTGTTTAAATTTGTTTAGTATATGAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377355 26 -   7948249 TTGTTTAAATTTGTTTAGTATATGAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277945 26 -  10730278 TTGTTTAAATTTGTTTAGTATATGAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768943 26 - 128539186 TTGATTAAATTTGTTTAGTATATGAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164167 26 +    435186 TTGTTTAAATTTGTTTAGTATATGAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558041 26 +   9309688 TTGTTTAAATTTGTTTAGTATATGAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389866 26 -  29834108 TTGTTTAAATTTGTTTAGTATATGAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842430 26 -   1015025 TTGTTTAAATTTGTTTAGTATATGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862651 26 -   2295209 TTGTTTAAATTTGTTTAGTATATGAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4562407 26 -  12054995 TTGTTCAAATTTGTTTAGTATATGGA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19717214 26 +  45876710 TTGTTGAAATTTGCTTAATATATGGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             916329 24 -   1687904 TTGTTTGAATTTCATGAACAAGTA--
i dasNov3.JH562883          I 588 C 0
e mm10.chr6                   2404695 189 - 149736546 I
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I

a score=643570.000000
s hg38.chr12_GL383549v1_alt     73258 57 +    120804 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCTGCTTGGTCTGAAGC
s panTro5.chr12              62764850 57 + 137163284 GGGATTAGCCACAATATGTTCTCTT-ACACCTGTGTGAGAAGCTGCTTGGTCTGAAGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888632 57 + 135337776 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCTGCTTGGTCTGAAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104064 57 -  32808036 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCTGCTTGGTCTGAAGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294063 57 +  34552619 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599908 57 - 133663169 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999477 57 - 137757926 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377381 57 -   7948249 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8277971 57 -  10730278 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTTTGAGAAGCAGCTTGGTCTGAAGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100768969 57 - 128539186 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164193 57 +    435186 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558067 57 +   9309688 GGGATTAGCCACAATATGTTCTCTT-ATACCTGTGTGAGAAGCAGCTTGGTCTGAAGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389892 57 -  29834108 GGGATTAACCACAATATGTTCTCAT-ATGCTTGTGTGAGAAGCAGCTTGGTCTGAAGC
i saiBol1.JH378123          C 0 I 15
s cebCap1.NW_016107911v1       842456 57 -   1015025 GGGATTAGCCACAATATGTGCTCAT-ATGCTTGTGTGAGAGGCAGCTTGGTCTGAAGC
i cebCap1.NW_016107911v1    C 0 I 15
s aotNan1.NW_018488218v1      1862677 57 -   2295209 GGGATTAGCCACAATATGTTCTCAT-ATGCTTGTGTGAGAGGCAGCTTGGTCTGAAGC
i aotNan1.NW_018488218v1    C 0 I 60
s otoGar3.GL873576            4562433 42 -  12054995 GGAATTGTC-------------CTT-ATGCCAGTGCAAGA-GCAGGTTGATCTGAAC-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404884 58 - 149736546 GGATTTCTCCACAGCATACCTTCTTCACAACAAGGTACCAGGCAACTCCGTCTAAGAT
i mm10.chr6                 I 189 C 0
s canFam3.chr27              19717240 57 +  45876710 GGGATTCTCCACAATATATCCCCTT-ATATCAATACAAGAGACAGCTTGATCTGAAGC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             916353 56 -   1687904 -GGAGTCGCCGCAATACATTCCACT-ATGCCAATGTAAGAGGCACCCTGCTCTGAAGC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I

a score=239511.000000
s hg38.chr12_GL383549v1_alt     73315 46 +    120804 TACC--------------ATTTAGCTGTCCTGATGTCGTAGTTCT----------------------------tgtgtgtgtgtg------tgt----
s panTro5.chr12              62764907 42 + 137163284 TACC--------------ATTTAGCTGTCCTGATGTCGTAGTTCT--------------------------------tgtgtgtg------tgt----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888689 66 + 135337776 TACC--------------ATTTAGCTGTCCTGATGTCGTAGTTCT--------tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtg------tgt----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104121 42 -  32808036 TACC--------------ATTTAGCTGTCCTGATGTTGTAGTTCT--------------------------------tgtgtgtg------tgt----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294120 74 +  34552619 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCTtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtctgtgtg------tgt----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104599965 42 - 133663169 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999534 42 - 137757926 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377438 42 -   7948249 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278028 42 -  10730278 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769026 30 - 128539186 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTC------------------------------------------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164250 42 +    435186 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558124 42 +   9309688 TACC--------------ATTTACCTGTCCTGATGTTGTAGTTCg--------------------------------tgtgtgtg------tgt----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11389964 56 -  29834108 TACTGAAGCTTGGTCTGAAGCTACCTATCCTGATGCTGTATTTCg--------------------------------tgtgtgtg------tgt----
i saiBol1.JH378123          I 15 C 0
s cebCap1.NW_016107911v1       842528 62 -   1015025 TACTGATACTTGGTCTGAAGCTACCTATCCTGATGCTGTATTTCg--------------------------------tgtgtgtgtgtggatgt----
i cebCap1.NW_016107911v1    I 15 C 0
s otoGar3.GL873576            4562475 39 -  12054995 CACT--------------ACTTACCTTTTCTGAT---ATATTTCT--------------------------------TGTCCatt------ttt----
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2404942 41 - 149736546 CTCC--------------ATTCATGTA-CCCAATGTTGTATTTCT--------------------------------TGGGATTT------CAT----
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19717297 34 +  45876710 CACC------------------ACCCATCCTGAT---GTATTACT--------------------------------TGCGTTT-------TGT----
i canFam3.chr27             C 0 I 5
s dasNov3.JH562883             916409 40 -   1687904 CACC--------------ATTTG------CTGATGTTGTATTTCC--------------------------------CGTGTTTT------TCTAAAT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3000775 528 +  31815103 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e aotNan1.NW_018488218v1      1862734 60 -   2295209 I

a score=101069.000000
s hg38.chr12_GL383549v1_alt     73361 13 +    120804 gtgtgtgtgtgtg
s panTro5.chr12              62764949 13 + 137163284 gtgtgtgtgtgtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888755 13 + 135337776 gtgtgtgtgtgtg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104163 13 -  32808036 gtgtgtgtgtgtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294194 13 +  34552619 gtgtgtctgtgtg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600007 13 - 133663169 gtgtgtgtgtgtg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999576 13 - 137757926 gtgtgtgtgtgtg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377480 13 -   7948249 gtgtgtgtgtgtg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278070 13 -  10730278 gtgtgtgtgtgtg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769056 13 - 128539186 gtgtgtgtgtgtg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164292 13 +    435186 gtgtgtgtgtgtg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558166 13 +   9309688 gtgtgtgtgtgtg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390020 13 -  29834108 gcgcgcgcatgtg
i saiBol1.JH378123          C 0 I 2
s cebCap1.NW_016107911v1       842590 13 -   1015025 gtgtgcgcatgtg
i cebCap1.NW_016107911v1    C 0 I 2
s micMur3.chr21               3001303 11 +  31815103 --gtgtgtgtgtg
i micMur3.chr21             I 528 C 0
s mm10.chr6                   2404987  1 - 149736546 ------------A
i mm10.chr6                 I 4 I 1
s canFam3.chr27              19717336 13 +  45876710 TTTTTTAAACTTG
i canFam3.chr27             I 5 C 0
e otoGar3.GL873576            4562514  2 -  12054995 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e aotNan1.NW_018488218v1      1862734 60 -   2295209 I
e dasNov3.JH562883             916449  0 -   1687904 C

a score=21270.000000
s hg38.chr12_GL383549v1_alt     73374  13 +    120804 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
s panTro5.chr12              62764962  13 + 137163284 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888768  13 + 135337776 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104176  13 -  32808036 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294207  13 +  34552619 tgtctgt------------------------------------------------------gtg-------------------------------------tCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600020  13 - 133663169 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i rheMac8.chr11             C 0 I 4
s macFas5.chr11             108999589  13 - 137757926 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i macFas5.chr11             C 0 I 4
s macNem1.NW_012011422v1      1377493  13 -   7948249 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i macNem1.NW_012011422v1    C 0 I 59
s cerAty1.NW_011999477v1      8278083   7 -  10730278 tgtgtgt-------------------------------------------------------------------------------------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769069  13 - 128539186 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164305  13 +    435186 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558179   3 +   9309688 tgt-----------------------------------------------------------------------------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390035   7 -  29834108 t------------------------------------------------------------gtg-------------------------------------tgt
i saiBol1.JH378123          I 2 C 0
s cebCap1.NW_016107911v1       842605  13 -   1015025 tatgtgc------------------------------------------------------gtg-------------------------------------tgt
i cebCap1.NW_016107911v1    I 2 C 0
s aotNan1.NW_018488218v1      1862794  13 -   2295209 TGTGTGT------------------------------------------------------GTG-------------------------------------TGT
i aotNan1.NW_018488218v1    I 60 C 0
s micMur3.chr21               3001314  13 +  31815103 tgtgtgt------------------------------------------------------gtg-------------------------------------tgt
i micMur3.chr21             C 0 C 0
s canFam3.chr27              19717349 104 +  45876710 TGTAAGTTCACAgggacttgaacttacaaccctgagatcaagacttgagctgaaatcaagagtgggatgcttaaccaactgagccacccaggcaccccTCTTGT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4562514   2 -  12054995 I
e mm10.chr6                   2404988   1 - 149736546 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             916449   0 -   1687904 C

a score=18843.000000
s hg38.chr12_GL383549v1_alt     73387 2 +    120804 gt
s panTro5.chr12              62764975 2 + 137163284 gt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888781 2 + 135337776 gt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104189 2 -  32808036 gt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294220 2 +  34552619 GT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600037 2 - 133663169 gt
i rheMac8.chr11             I 4 C 0
s macFas5.chr11             108999606 2 - 137757926 gt
i macFas5.chr11             I 4 C 0
s cerAty1.NW_011999477v1      8278090 2 -  10730278 gt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769082 2 - 128539186 gt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164318 2 +    435186 gt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558182 2 +   9309688 gt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390042 2 -  29834108 gt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842618 2 -   1015025 gt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862807 2 -   2295209 GT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3001327 2 +  31815103 TT
i micMur3.chr21             C 0 I 2
s otoGar3.GL873576            4562516 1 -  12054995 -t
i otoGar3.GL873576          I 2 I 2
s canFam3.chr27              19717453 2 +  45876710 AT
i canFam3.chr27             C 0 I 8
e mm10.chr6                   2404988 1 - 149736546 I
e proCoq1.NW_012140524v1      5091412 550 +  13104022 I
e dasNov3.JH562883             916449 0 -   1687904 C
e macNem1.NW_012011422v1      1377506 59 -   7948249 I

a score=62478.000000
s hg38.chr12_GL383549v1_alt     73389 4 +    120804 TTTA
s panTro5.chr12              62764977 4 + 137163284 TTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888783 4 + 135337776 TTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104191 4 -  32808036 TTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294222 4 +  34552619 TTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600039 4 - 133663169 TTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999608 4 - 137757926 TTTA
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8278092 4 -  10730278 TTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769084 4 - 128539186 TTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164320 4 +    435186 TTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558184 4 +   9309688 TTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390044 4 -  29834108 TTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842620 4 -   1015025 TTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862809 4 -   2295209 TTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3001331 4 +  31815103 TTTA
i micMur3.chr21             I 2 C 0
s proCoq1.NW_012140524v1      5091962 4 +  13104022 TTTA
i proCoq1.NW_012140524v1    I 550 C 0
s otoGar3.GL873576            4562519 4 -  12054995 ttta
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2404989 4 - 149736546 TTTA
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19717463 4 +  45876710 TTCA
i canFam3.chr27             I 8 C 0
s dasNov3.JH562883             916449 3 -   1687904 -TCA
i dasNov3.JH562883          C 0 C 0
e macNem1.NW_012011422v1      1377506 59 -   7948249 I

a score=4442716.000000
s hg38.chr12_GL383549v1_alt     73393 364 +    120804 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTGTCCTGCTTTCCAATATACATAATTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttacttataagtttacataagttaaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcacctttaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----ttaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtactt-gtttattttt
s panTro5.chr12              62764981 364 + 137163284 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTGTCCTGCTTTCCAATATACATAATTAtgttaacatgactttttttgagccctcaagtgttttgctgggcagaaaagtttacttataagtttacataagttaaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcacctttaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----ttaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtactt-gtttattttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60888787 364 + 135337776 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTGTCCTGCTTTCCAATATACATAATTAtgttaacatgacttgttttgagccctcaagtgttttgctgggcagaaaagtttacttataagtttacataagttaaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcacctttaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----ttaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtactt-gtttattttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104195 362 -  32808036 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATATACATAATTAtgttaacgtgactttttttgagccctcaagagttttgctgggcagaaaagtttgcttataagtttacataagttaaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcacctttaaaa---tc----ttattt---tatt-tacaagc---aaaattttttgtaataatttctttgaaaattgtttagaataatgttttgttctatttataaacttt-----ttaaacac------------aaataattttaactgcattaatacagta-------ttcctttcttatttaaatacagtactt-gtt--ttttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294226 359 +  34552619 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATACACCTAATTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttacttataagtttacataagttaaaaagaaataa---ctttcaattcattgaagctacaaatttaaaaaccttaggcttttg--agttcacctttaaaa---tc----ttattt---gatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataacattttgttctatttataaacttt-----ttaaacac-----------------attttaactgcattaatacagta-------ttcctttctcatttaaatacagtactt-gtttattttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600043 361 - 133663169 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATAAACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtattt-ct---ttttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999612 361 - 137757926 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATAAACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaatcttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtattt-ct---ttttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377565 361 -   7948249 tctaaatATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATAAACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcgttaatacagta-------ttcctttcttatttaaatacagtattt-ct---ttttt
i macNem1.NW_012011422v1    I 59 C 0
s cerAty1.NW_011999477v1      8278096 362 -  10730278 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATAAACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtatttgtt---ttttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769088 361 - 128539186 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAGTAAACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ctcctttcttatttaaatacagtattt-gt---ttttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164324 361 +    435186 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATAAACATAGTTAtgttaacatgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcgtaagtttacgtaagttgaaaagaaataa---cgttcaattcattgaagttacaaatttaaaaaccttaggcttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaatacagtattt-gt---ttttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558188 362 +   9309688 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCCTGCTTTCCAATATACATAGTTAtgttaacgtgactttttttgagccctcaagtgttttgctgggcagaaaagtttactcataagtttacataagttgaaaagaaataa---ttttcaattcactgaagttacaaatttaaaaaccttaggtttttg--agttcaccttcaaaa---tc----ttattt---tatt-tacaagc---aaaattttttataataatttctttgaaaattgtttagaataatattttgttctatttataaacttt-----taaaacac------------aaatcattttaactgcattaatacagta-------ttcctttcttatttaaattcagtatttgtt---ttttc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390048 351 -  29834108 CCTAAGTATCTTCTCCATTCCAGCAAAAACAGTTTTTCTGCTTTCCAATGTACATAATTAtgttaacatgactttttttgagccctcaagtgttttactgggcagaaaagtttacttgtaagtttacat-agttaaaaagaaataa---ctttcaattcattgaagttacaaatttaaaaac------cttttg--agttcaccttcaaaa---tc----ttgttt---tatt-tataagc---aaaattttt----ataatttctttgaaaattgtttagaataatattttgttctatttataagcttt-----ttaaacac-----at-----gaataattttaactgcattaatacagta-------ttccttttttgtttgaatacggtactt-g----ttttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842624 350 -   1015025 CCTAAGTATCTTCTCCATTCCAGCAAAAACAATTTTTCTGCTTTCCAATGTACATAATTAtgttaacatgactttttttgagccctcaagtgttttgctgggcagaaaagtttacttgtaagtttacataagttaaaaagaaataa---ctttcaattctttgaagtcacaaatttaaaaa-------cttttg--agttcaccttcaaaa---tc----ttgttt---tatt-tataagc---aaaa-tttt----ataatttctttgaaaattgtttagaataatattttgttctatttataagcttt-----ttaaacac---ttat-----gaataattttaactgcattaatacggta-------ttccttttt--tttgaatacagtacct-g----ttttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1862813 354 -   2295209 CCTAAGTATCTTCTCCATTCCAGCAAAAACAATTTTTCTGCTTTCCAATGTACATAATTAtgttaacatgactttttttgagccctcaagtgttttgctgggcagaaaagtttacttgtaagtttacataagttaaaaagaaataa---ctgtcaattcactgaagtcacaaatttaaaaac------cttttg--agttcaccttcaaaa---tc----ttattt---tatt-tatgagc---aaaattttt----ataatttctttgaaaattatttagaataatattttgttctatttataagcttt-----taaaacac---ttat-----gaataattttaactgcattaatacagta-------ttccttttttgtttaaatacagtactt-g----ttttt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3001335 351 +  31815103 CCTAAACATCTTCTCCATTTCAGCAAAAACAATTTTCTTGCTTTCCAATGTACATAATTACATTCACgtgact--ttttgagccctcaagtgttttattggtcaaaaaaggttacttgtaagttcacttgagttctaaaaagttaa---ctttcaattcattgaagttacaaacttaaaaacattaggctttta--agttcaccttagaag---tc----ttattattttatt-tataagc---caagaaatgtttagtaatttctttgaaaatcatttagaataatattttgttccatttataaactttgttaattaaacac---ttac-----gaataattttaactgcattgatacat--------------------tttaaatattttttaa-----------
i micMur3.chr21             C 0 I 86
s proCoq1.NW_012140524v1      5091966 351 +  13104022 CCTAAATATCTTCTCCATTCCAGCAAAAACAATTTTCTTGCTTTCCAATGTACATGATTGtgttaacgtgact--ttttgagccctcaagtgttttgttggtcaaaaaagactacttgtaagttcacttgagttttaaaaaattaa---ctttcaattcactgaagttacagacttaaaaatattaggttttta--agttcaccttagaaa---tc----ttattattttatt-tataagc---caaaaattgtttagtaatttctttgaaaatcatttagaataatattttgctccatttataaactttgttaattaaacac---ttac-----aaataattttaactgtattaatatat--------------------tttaaacattttttaa-----------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4562523 323 -  12054995 cataaatatttttGCCATTTTAACAAAACCAGTTTTCTTGCCTTCCAATGCATATAATTGTGTTAACCTTACt--ttttgagccctcaagtgttttactggggagaaaagattaattgtaagttcagttgagtttaaaagaattaa---ctttcaattcactgaagttacaaacttaaaaactttaagctttta--agttcaccttagatg---tc----tcacta---tatt-ttcaagc---caaaaaaagtttagtaattcctttgaaaatcatttagaataatattttgttcc-----------------attaaactc---ttac-----aaataatctcaactgcattaaaacat--------------------ttaaaaca-------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2404993 305 - 149736546 CAAGAATATGTT---AATTCCAGAAAAAACAATTTT-TTGCTTTTGAATGTACATA---------AAATTATCATTTCTGAGCTTTCAAATGTTTTGTTGAACC-CAAATCTTGGGTGTATGAACCCTTAATATTAAAAGAAAAAAATgcttttaattaa------------------------------------agttcatcttagaaa---tt----ttgttt---tatt-tgtaagc---caaagtaggt-tagcaacatttttggaaa-catttagaatagtattttgttctacacacacaagta-----tagattgt---tacttaataaaataattttagctctgttcacaaa----------------------tttaatatagtttat-gc---tc---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19717467 336 +  45876710 CCTAAGTATGTTCTTCATTCCAGCAAAACAAATTTGCTAGCTTTTCAATGTACATAATTGCCTGaatgtgact-tttttgatctctgaagtgttttattgggcagaaaaaattatttgtaagttcacttaattttttttaaaaaac---cttccaatttattgaagttaaaaacttaaaaacctaaagcttttattattttttttttatta---ttattattattt---tattaaataagccttaaaact-----tagcaatttcttagaaaagcatttagaat---gtattatttcatttacaaacttt----gccaaacac---tttc-----atataattttaaatgcattagctca---------------------tttaat---------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             916452 380 -   1687904 CCTAGCTATTCCTTCCATTCCAGCAAAATCGATTTGCTTGCCTTTCAAAGAACATAATTGTATGaatgtgactttttctgagtcctcaag-atttggggagatagaaaagattatttgttagttcgctttacttttaaaaaatcag---ttttcaattgattgaaattacaaactcaaaaaccttaagc-ttta--agctcaccttaaaaacagtt----ttattt---tatt-tacaagc---ttaatgcattttaacactcttgtttaagagtattcaggatagtagtttattcaacttataaactta----attaaataaacttttc-----aaataatcttaaatatattaatgtattgaatgtatttcatttcctttttcaaaaaaagattt-atttatttct
i dasNov3.JH562883          C 0 I 421

a score=38220.000000
s hg38.chr12_GL383549v1_alt     73757 4 +    120804 ttaa
s panTro5.chr12              62765345 4 + 137163284 ttaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889151 4 + 135337776 ttaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104557 4 -  32808036 ttaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294585 4 +  34552619 ttaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600404 4 - 133663169 ttaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999973 4 - 137757926 ttaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377926 4 -   7948249 ttaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278458 4 -  10730278 ttaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769449 4 - 128539186 ttaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164685 4 +    435186 ttaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558550 4 +   9309688 ttaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390399 4 -  29834108 ttaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842974 4 -   1015025 ttaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863167 4 -   2295209 ttaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4562846 0 -  12054995 C
e mm10.chr6                   2405298 0 - 149736546 C
e micMur3.chr21               3001686 86 +  31815103 I
e canFam3.chr27              19717803 0 +  45876710 C
e proCoq1.NW_012140524v1      5092317 0 +  13104022 C
e dasNov3.JH562883             916832 421 -   1687904 I

a score=102508.000000
s hg38.chr12_GL383549v1_alt     73761 12 +    120804 gaactagtattt
s panTro5.chr12              62765349 12 + 137163284 gaactagtattt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889155 12 + 135337776 gaactagtattt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104561 12 -  32808036 gaactagtattt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294589 12 +  34552619 gaactagtattt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600408 12 - 133663169 gaactagtattt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999977 12 - 137757926 gaactagtattt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377930 12 -   7948249 gaactagtattt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278462 12 -  10730278 gaactagtattt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769453 12 - 128539186 gaactagtattt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164689 12 +    435186 gaactagtattt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558554 12 +   9309688 gaactagtattt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390403 12 -  29834108 gaacaagtattt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842978 12 -   1015025 gaacaagtattt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863171 12 -   2295209 gaacaagtattt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4562846  2 -  12054995 ----------tt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2405298  3 - 149736546 ---------tct
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19717803  5 +  45876710 ------gta-tt
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3001686 86 +  31815103 I
e proCoq1.NW_012140524v1      5092317  0 +  13104022 C
e dasNov3.JH562883             916832 421 -   1687904 I

a score=1027027.000000
s hg38.chr12_GL383549v1_alt     73773 92 +    120804 tttaagtactactattttgacaacaa-tttttctaagtactt------ttaagacattattattctggtaaattaaacctataaatacaatgtacttta
s panTro5.chr12              62765361 92 + 137163284 tttaagtactactattttgacaacaa-tttttctaagtactt------ttaagacattattattctggtaaattaaacctataaatacaatgtacttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889167 92 + 135337776 tttaagtactactattttgacaacaa-tttttctaagtactt------ttaagacattattattctggtaaattaaacctataaatacaatgtacttta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104573 92 -  32808036 tttaagtactactattttgacaacaa-tttttctaagtactt------ttaagacgttattattctggtaaattaaacctataaatacaatgtacttta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294601 92 +  34552619 tttaaggactactattttgacaacaa-tttttctaagtattt------ttaagatgttattattctagtaaattaagcctataaatacaatgtacttta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600420 93 - 133663169 tttaagtactactattttgacaacaattttttctaagtactt------taaagactttattattctagtaaagtaaacctataaatatgatgtagttta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             108999989 93 - 137757926 tttaagtactactattttgacaacaattttttctaagtactt------taaagactttattattctagtaaagtaaacctataaatatgatgtagttta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1377942 93 -   7948249 tttaagtactactattttgacaacaattttttctaagtactt------taaagactttattattctagtaaagtaaacctataaatatgatgtagttta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278474 93 -  10730278 tttaagtactactattttgacaataattttttctaggtactt------taaagactttattattctagtaaagtaaacctataaatatgatgtagttta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769465 93 - 128539186 tttaagtactactactttgacaacaattttttctaagtactt------tcaagactttattattctagtaaagtaaacctataaatgtgatgtagttta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164701 93 +    435186 tttaagtactactattttgacaacaattttttctaagtactt------taaagactttattattctagtaaagtaaacctataaatatgatgtagttta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558566 93 +   9309688 tttaagtactactattttgacaacaattttttctaagtactt------tcaagacgtcattattctagtaaagtaaacctataaatatgatgtacttta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390415 92 -  29834108 tttaggtaagagtattttgacaacaa-tttttctgagtactt------ttaagactttattattctagtaaattaaagccataaatactatggacttta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       842990 92 -   1015025 tttaggtaagactattgtgacagcaa-tttttccgagtactt------ttaaggctttattattctagtaaattaaaaccataagtatgatggacttta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863183 92 -   2295209 tttaggtacgactattttgacaacaa-tttttctgagtaatt------ttaagactttattattctactaaattaaaaccataaatgcgatagacttta
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5092317 85 +  13104022 ---aagtactgctattgtgac-----ttttttctgagaactt------ttagaaccttattgtttgagtatattaaacctataagtatgatgaacttta
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4562848 81 -  12054995 tttaaagactgcta------------cattttttgagaactt------ttaaaaccttctttttgtagtaaattaaacctataagtgtaatgaacttta
i otoGar3.GL873576          C 0 I 5
s mm10.chr6                   2405301 89 - 149736546 gttaagtacagctatc---acaatga-ctatcctttgtccca------tcagaacaacattattctagtgaattaaacatataaacacagtggattttg
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19717808 91 +  45876710 tttaagtactgctattgtgacaataa--ttttctgagtactt------ttagaatcttaacattctaattaattggatttacaaatatgatgagcttta
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917253 97 -   1687904 tttaagtactgcta-tgtgacaacaa-tttttctgagtacttaagtaaatacaatcttataaatctaacaaattaaacctaagaatatgatgaaacttg
i dasNov3.JH562883          I 421 C 0
e micMur3.chr21               3001686 86 +  31815103 I

a score=915345.000000
s hg38.chr12_GL383549v1_alt     73865 64 +    120804 tgctttttaaactcgtccaatactt--aataagcttgct-aagatttaagttaaaagcacaagtcta
s panTro5.chr12              62765453 64 + 137163284 tgctttttaaactcgtccaatactt--aataagcttgct-aagatttaagttaaaagcacaagtcta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889259 64 + 135337776 tgctttttaaactcgtccaatactt--aataagcttgct-aagatttaagtcaaaagcacaagtcta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104665 64 -  32808036 tgctttttaaactcgtccaatactt--aataagcttgct-aagatttaagttaaaagcacaagtcta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294693 64 +  34552619 tgctttttaaactcgtccaatactt--aataagcttgct-aagacttaagttaaaagcacaagtcta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600513 64 - 133663169 tgctttttaaactcgtccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000082 64 - 137757926 tgctttttaaactcgtccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378035 64 -   7948249 tgctttttaaactcgtccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278567 64 -  10730278 tgctttttaaactcgtccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769558 64 - 128539186 tgctttttaaactcgtccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164794 64 +    435186 tgctttttaaactcgtccaatactc--aataaacttgct-aagagttaagttacaagcacaagtcta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558659 64 +   9309688 tgctttttaaactcttccaatactc--aataagcttgct-aagagttaagttaaaagcacaagtcta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390507 64 -  29834108 tgctttttaaattcgtctaatactc--aataagcttgct-aagatttaagttaaaatcacaagtcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843082 64 -   1015025 tgctttttaaactcgtctaatactc--aataagcttgct-aagatttaagttaaaagcacaagtcta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863275 64 -   2295209 tgctttttaaactcgtctaatactc--aataagcttgct-aagatttaagttaaaagcacaagtcta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3001772 62 +  31815103 tgtttttttaactcttccaatactc----taatcttggt-atgatttaacttaaaagcacaagtcta
i micMur3.chr21             I 86 C 0
s proCoq1.NW_012140524v1      5092402 66 +  13104022 tgtttttttaactcttccaatattctaaataatcttggt-acgatttaacttaaaagcacaagtcta
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4562934 61 -  12054995 ttgttttttaactcttccaa-ataa----taatcttgat-aagacttaacttaaaatcacaagtctg
i otoGar3.GL873576          I 5 C 0
s mm10.chr6                   2405390 66 - 149736546 tgttttcttaacttttccaataatctaaataaagttgat-gagatttaacttaaaagtgcaaatcta
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19717899 66 +  45876710 ggtttttttatgtcctccaatactctaaataaacttggt-aaggtttaacttaaaagaacaaatcta
i canFam3.chr27             C 0 I 203
s dasNov3.JH562883             917350 67 -   1687904 tgttttcttaaatctcccaataatctgaataagcctcataaaaatttaacttgaaagcacaggccta
i dasNov3.JH562883          C 0 C 0

a score=5738659.000000
s hg38.chr12_GL383549v1_alt     73929 457 +    120804 aattacttatgcaattaca--catttcaaattggaatgataaggttgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaagtattaatgctatatgtttgattttcttaaacatctgtaattagtgctaagtctacccACC-GGAAAACTTTCTTGGCTAACTGAAGTTATTCCTCCACCAGAGCTTCAGCCTGGGATACTGCCTGAATTTGTGTTAACTACTCTGGGGAAACACATTGAACTCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTGTTTATCTCATAGAAGCCTGAAAATCTTACCCAGACTGGTCACTTCATGGTCCTGGGCACTTGATTGGCTTCCAACTCCA
s panTro5.chr12              62765517 457 + 137163284 aattacttatgcaattaca--catttcaaattggaatgataaggttgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattctttg-ttataaaagtattaatgctatatgtttgattttcttaaacatctgtaattagtgctaagtctacccACT-GGAAAACTTTCTTGACTAACTGAAGTTATTCCTCCACCAGAGCTTCAGCCTGGGATACTGCCTGAATTTGTGTTAACTACTCTGGGGAAACACATTGAACTCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTGTTTATCTCATAGAAGCCTGAAAATCTTACCCAGACTGGTCACTTCATGGTCCTGGGCACTTGATTGGCTTCCAACTCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889323 457 + 135337776 aattacttatgcaattaca--catttcaaattggaatgataaggttgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattctttg-ttataaaagtattaatgctatatgtttgattttcttaaacatctgtaattagtgctaagtctacccACT-GGAAAACTTTCTTGACTAACTGAAGTTATTCCTCCACCAGAGCTTCAGCCTGGGATACCGCCTGAATTTGTGTTAACTACTCTGGGGAAACACATTGAACTCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTGTTTATCTCATAGAAGCCTGAAAATCTTACCCAGACTGGTCACTTCATGGTCCTGGGCACTTGATTGGCTTCCAACTCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3104729 457 -  32808036 aattacttatgcaattaca--catttcaaattggaatgataaggctgatctatga---caat-aagta--aaagtcttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaagtattaatgctatatgtttgattttcttaaacatctgtaattagtgctaagtctacccACT-GGAAAACTTTCTTGGCTAACTGAAGTTATTCCTCCACCAGAGCTTCAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACTCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTGTTTATCTCATAGAAGCCTGAAAATCTTACCCAGACTGGTCACTTCATGGTCCTGGGCACTTGATTGGCTTCCAACTCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7294757 429 +  34552619 aattacttacgcaattaca--catttcaaattggaatgataagcctgacctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagacatatccgattctgta-ttataaaagtattaatgctatacgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTGGCTAACTGAAGTTATTCCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTTTGTTAACAACTCTGGGGAAACACATTGAACCCAATGTATAGTCTATAACAGGCACCCCAT-A-ACTTAAAAGAAGTGAGGG-------------------------ACGAAATGG---TCATCTCTGTTTATCTCATAGAAGCCTGAAACTCTTACCCAGACTGGTCACTTCTTGGTCCTCGGCACTTGATTGGCTTTCAACTCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104600577 437 - 133663169 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-AGAAAACTTTCTTAGCTAAATGAAGTTATTTCCCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTTCTAGTCTCATACCCAAAATGGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000146 437 - 137757926 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTTCTAGTCTAATACCCAAAATAGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378099 437 -   7948249 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTTCTAGTCTCATACCCAAAATGGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8278631 437 -  10730278 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAAAATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTTCATGTCCCTCCTAGTCTCATAACCAAAATGGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100769622 437 - 128539186 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCTAATATATAGTCTATAACAGGAATCCTAT-A-ACTTAAAAGAAGTATTGGCTTCATGTCCCTCCTAGTCTCATATCCAAAATGGTCTTCATCTCTATTTATCTCAAGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGTACTTGATTGGCTTCCAACTCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       164858 437 +    435186 aattacttatgc----------------------aatgataaggctgatctatga---caat-aagta--aaagtgttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctatatgtttgattttcttaaacatctataattagtgctaagtctacccACT-GGAAAACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTTAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAATATGTAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATCGGTTTCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTCTTACCCAGACTGGTCACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3558723 437 +   9309688 aattacttatgc----------------------aatgataaggctgatctgtga---caat-aagta--aatgtgttcttaaatattatgaaataa---aataatagatatatcagattcttta-ttataaaaatactaaagctataagtttgattttcttaaacatttataattagtgctaagtctacccACT-GGAACACTTTCTTAGCTAAATGAAGTTATTTCTCCACCAGAGCTTCAGCCTGGGATACTGCCTGAATTTGTGTTAACAACTCTGGGGAAACACATTGAACCCAATATATAGTCTATAACAGGAACCCCAT-A-ACTTAAAAGAAGTATTGGTTCCATGTCCCTCCTAGTCTCATACCCAAAATGGTCTTCATCTCTATTTATCTCATGGAAGCCTGAAACTTTTACCCAGACTGATAACTTGATGGACCTGGGCACTTGATTGGCTTCCAACTCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11390571 438 -  29834108 aa----ttacacaattaca--catttcaaattggaatgataaggctgatctatgg---caat-aagta--a--gttttcttaaacattatgaaataa---aataatagatatgtcagattcttta-ttataaaagtaataatgctatatgtttgatttccttaaacatctctaattagtgctaagtctacccACT-GGAAAATGTTGTTGGCTAACTGAAGTTATTCCTCCACCAGAGTTTTAGCCTGGAATACTGCCTGAATTTGCGTTAACAACTCTGGGGGAACACACTGAACCCAATATGTAGTCTATAACAGAGACCTCATAA-ACTTAAAACAAGTATTGGTTTCATGTCCCTCCTAGGCCTATTCCCAAAATGGTCTTCATCTCTGTTTATCTCGTAGAAG--------------CCAGACTGGTCACTTGATGGTCCTGGGCACTTGATTGGATTCCAACTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843146 441 -   1015025 aattacttacgcaattaca--cacttcaaattggaatgataaggctgatctatga---caat-aagta--a--gttttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaagtaataatgctatatgtttgattttcttaaacatctctaattagtgctaagtctacccACT-GGAAAACTTTCTTGGCTAACTGAAGTTATTCCTCCACcagagctttagcctgggatactgcctgaatttgtgttaacaactctgggggaacacactgaaCCCAATATGTAGTCTATAACAGAGACCTCATAA-ACTTAAAACAAGTATTGGTTTCATGTCCTTCCTAGGCCCATACCCAAAATGGTCTTCATCTCTGTTTATCTCATAGAAG--------------CCAGACTGGTCACTTGATGGTCCTGGGCACTTGATTGGATTCCAGCTCC-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863339 442 -   2295209 aattacttatgcaattaca--catttcaaattggaatgataaggctaatctatga---caat-aagta--a--gttttcttaaacattatgaaataa---aataatagatatatcagattcttta-ttataaaagtaataatgctatatgtttgattttcttaaacatctctaattagtgctaagtctacccACC-GGAAAACTTTCTTGGCTAACTGAAGTTATTCCTCCACCAGAGCTTTAGCCTGGAATACTGCCTAAATTTGTGTTAACAACTCTGGGGGAACACATTGAACCCAATATATAGCCTATAACAGAGACCTCATAA-ACTTAAAACAAGCATTGGTTTCGTGTCCCTCCTAGGCTTATACCCAAAATGGTCTTCATCTCTGCTTATCGCATAGAAG--------------CCAGACTAGTCACTTGATGGTCCTGGGCACTTGATTGGATTCTAACTCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3001834 454 +  31815103 aattacttatacaattata--cattttaaattggaatgataaggttgacctattattgcaat-aggca--acaatattcttaaatattataagataa---aataatacatatat-agattcttta-ttataaaagtattaatgccatatatttgattttcttttatatctataatgagtgctaaatctacccACT-AGGAAATCTTCTTGGCTAGCTGAAGTCTTTCCTCCATTAGAGATCTGGCCTGGGATATTGCCTGGATTCTTGTTGGTAACTCTGGGGGAACACACTGAGCCTCATTTACAGTTTATAGCAGAGACCTCAT-A-ACTT-----AAGAATTGGTTGCATGGCCCTCCTGGCTTCATGCACAAAATGGTCCTCCTCTCTGTTTATCTCACAGACATCTGAAACTCTTACCCAGACAGGCCACTTGATGATCCTACATTCTTATTTGGCTTCCAACTCTA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5092468 445 +  13104022 aattacttatacaattata--cattttaaattagaatgataagattgacctattattgcaat-aggta--acaatattcctaaatattataagataa---aataatacatatat-agattcttta-ttagaaaggtattaatgccatgtgtttgattt---------tctATAAAGAGTGCTTAATCTACCCATA-GGGAAATCTTCGTGGCTAGCTGAAGTTGTTCCTCCATCAGAGATCTGGCCTGGGATATTGCCTGGATTCTTGTTGGTAACTCTGGGGGAACACACTGAGCCTCATTTACAGTTTATAACAGAGACCTTAT-A-ACTT-----AAGAATTGGTTGCATGGCCCTCCTGGCTTCATGCCCAAAATGGTCCTCGTCTCTGTTTATCTCGCAGACGTCTGAAACTCTTCCCCAGACTGGTCACTTGATGATCCTAGGCTCTTATTTGGCTTCCAACTCTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4562995 451 -  12054995 aattacttttgcaattata--cattttaaatctga---ataagtctgacctattgttgcaataaggaa--aaaatattcttaaacattataaggtaa---aataatacatatatcagattcttta-ttatgaaggtattaatgccatgagtttgattttcttaaatacgtataattagtgctaaatctacccACT-AGG-ACTCTCGTTGGCTCCCTGATGTTGTTCCTCCATCAGAGATCCAGCCTGGGGTAGGGTCTGGATTCTTTTTGGTAACCCCAGAGAAACACAGTGACCCTCATTTACAGTTTGTAACAGAGACCTCAT-G-ACTTAAAAGAAGGATTGGTTACATGGCCCTTCTGGCTGCATACCCGAAATG-----CATCTCCGTTTATCTCACAGAAGTCTGAAACTCTTACCCAGACTGGCCACTTGATGATCCTGGACACTTTTTTGGCTTCCAACTTT-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2405456 441 - 149736546 aattacttaaataattgtg--tattttacatcagaatgtcaagactgatctatta---ctgt-gagaagcaaaatattcttagactcagcaagat-------taatatgtatatcaaatt-ttta-ttataaaagtattaatactaagtgcttggctctctcaaacatctacaaccagtgctgggtctgccc-------------TCTAGGCTTCCTGACATGAGTCCTACACCAGAGATTTGACC-GGGATTTTTCCTAAATTCTCATTGATAACATTGGAGGAATACAGGGGGCCATGCTGATAGTCCCTAGCAGAGAACTCAC-A-ACCTAGATAAATTAATGGTTTCATGATGCCCCTACACAAATATTCCAAATGATCTTCATCTCTGTTTATACCACCAAGGTCTGCAAGTCTTGGCCAGGTTACCCATTTAGTTGTCCTGAGCACTTACCTGGCTTTTCAGCCTA
i mm10.chr6                 C 0 I 209
s canFam3.chr27              19718168 458 +  45876710 aatcgatcatgcaagtatatgcattttaaattgaaattataaggctaagctattatt-gaat-agaca--aaaatattcttaaatcttgcaaaataa---aataatacacatcccagattatttatttaaaaaggtatgaatgctatatgtttgattttcttaatcatctataattaatgctaaatatacccACT-AGGAAACCTCCTTGAC----TGAGTCTACTTCTCCCCCAGAGACTTGACTTGGGATGCTGCCTGGGTTCTTGTTGGTAACTCTGAGGGAACATACTAAGCCCACT-TCTAGCCTATAACAGAGGCCACAT-ATAAGTTAAAGAAGTATTGGTTTCCTGGCTCTCCTGGCCTTGTCTTCGGTGAGGTCCTCATCCCAATTCATCTCACAGAAGTCTGAAACTACTATACAAACCAGCCATTTGATTGCCCCAGGCACCCATTTAACCTCGAACTCTA
i canFam3.chr27             I 203 C 0
s dasNov3.JH562883             917417 417 -   1687904 aatcaattttacaat------tacttaaaattggcattataaatctgaccttttattgtcat-aagtc--aaaatattcttaaacattataagatgatacaatagtagttatgccagagtctcta-ctataaaattattaa--------------tTTTTTTAAACATGTGTAATTGGTGT----TCTACCCGCTAGGAAGACCTCTGTGGCTAGCCGAGACTGC-CCTTCTCCAGAGATTCGACCTGGGATGCTTCCTG-----------GCAACCCTGATGGGACACACTGAATCCCAC-TGCAGTGTACA--AGAGACCCCAC-A-ACTT-AAAGAAGTGGCGG--------CCCTCCCAGCTTCGTTCTCAATGTGGGCCTCATCTCTTTTCATCTCA-GGACATCTGAAATTTCTCCCTGGCCTGGCAGCTTGATTGCCCTGGGCACTTACTTGGCATCTAACTCCA
i dasNov3.JH562883          C 0 C 0

a score=412678.000000
s hg38.chr12_GL383549v1_alt     74386 32 +    120804 AAATGCTTTGAACCGGACTCAGTTCTGTATTC
s panTro5.chr12              62765974 32 + 137163284 AAAAGCTTTGAACCGGACTCAGTTCTGTATTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889780 32 + 135337776 AAATGCTTTGAACCGGACTCAGTTCTGTATTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105186 32 -  32808036 AAATGCTTTGAACCCGACTCAGTTCTGTATTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295186 32 +  34552619 AAATGCTTTGAACCAGACTCAGTTCTGTATTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601014 32 - 133663169 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000583 32 - 137757926 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378536 32 -   7948249 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279068 32 -  10730278 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770059 32 - 128539186 AAATGCTTTGAACCTGACTCAGTTCTGCATTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165295 32 +    435186 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559160 32 +   9309688 AAATGCTTTGAACCTGACTCAGTTCTGTATTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391009 32 -  29834108 AAATCCTTTGAACCAGACTCAGTTCTGTATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843587 32 -   1015025 AAATCCTTTGAACCAGACTCAGTTCTGTATTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863781 32 -   2295209 AAATCCTTTGAACCAGACTCAGTTCTGTATTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002288 32 +  31815103 AAATCCTTGGTGCTTGACTCATTTCTGTATTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5092913 32 +  13104022 AAATCCTTGGAGCTTGACTCATTTCTGTATTC
i proCoq1.NW_012140524v1    C 0 I 120
s otoGar3.GL873576            4563446 30 -  12054995 -AATCCTTTGAACTTGACTCAGTTCTGTGTT-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718626 24 +  45876710 AAACCCTTAGAAC----CTCAATTCTGC----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917834 32 -   1687904 AAGACCTTGGAACCTATCTAAGTTCTGTATTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I

a score=140798.000000
s hg38.chr12_GL383549v1_alt     74418 13 +    120804 CCGTTTCATTTTT
s panTro5.chr12              62766006 13 + 137163284 CCGTTTCATTTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889812 13 + 135337776 CCGTTTCATTTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105218 13 -  32808036 CTGTTTCATTTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295218 13 +  34552619 CTGTTTCATTTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601046 13 - 133663169 CTGTTTCATTTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000615 13 - 137757926 CTGTTTCATTTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378568 13 -   7948249 CTGTTTCATTTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279100 13 -  10730278 CTGTTTCATTTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770091 13 - 128539186 CTGTTTCATTTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165327 13 +    435186 CTGTTTCATTTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559192 13 +   9309688 CTGTTTCATTTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391041 13 -  29834108 CTTTTTCATTTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843619 13 -   1015025 CTTTTTCATTTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863813 13 -   2295209 CTTTTTCATTTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002320 13 +  31815103 CCTTTGCATTTTT
i micMur3.chr21             C 0 I 108
s otoGar3.GL873576            4563476  2 -  12054995 -----------TT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718650 13 +  45876710 CTTTTTTTTTTTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917866 12 -   1687904 -CTTTCCATTTCC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I

a score=23715.000000
s hg38.chr12_GL383549v1_alt     74431 2 +    120804 AT
s panTro5.chr12              62766019 2 + 137163284 AT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889825 2 + 135337776 AT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105231 2 -  32808036 AT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295231 2 +  34552619 AT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601059 2 - 133663169 AT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000628 2 - 137757926 AT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378581 2 -   7948249 AT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279113 2 -  10730278 AT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770104 2 - 128539186 AT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165340 2 +    435186 AT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559205 2 +   9309688 AT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391054 2 -  29834108 AC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843632 2 -   1015025 AT
i cebCap1.NW_016107911v1    C 0 I 58
s aotNan1.NW_018488218v1      1863826 2 -   2295209 AT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4563478 2 -  12054995 AT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718663 1 +  45876710 -T
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             917878 2 -   1687904 AT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I

a score=81747.000000
s hg38.chr12_GL383549v1_alt     74433 11 +    120804 CCTGTCATGTC-
s panTro5.chr12              62766021 11 + 137163284 CCTGTCATGTC-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889827 11 + 135337776 CCTGTCATGTC-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105233 11 -  32808036 CCTGTCATGTC-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295233 11 +  34552619 CCTGTCATGTC-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601061 11 - 133663169 CCTGTCATGTC-
i rheMac8.chr11             C 0 I 2
s macFas5.chr11             109000630 11 - 137757926 CCTGTCATGTC-
i macFas5.chr11             C 0 I 2
s macNem1.NW_012011422v1      1378583 11 -   7948249 CCTGTCATGTC-
i macNem1.NW_012011422v1    C 0 I 2
s cerAty1.NW_011999477v1      8279115 11 -  10730278 CCTGTCATGTC-
i cerAty1.NW_011999477v1    C 0 I 2
s chlSab2.chr11             100770106 11 - 128539186 CCTGTCATGTC-
i chlSab2.chr11             C 0 I 2
s manLeu1.NW_012101287v1       165342 11 +    435186 CCTGTCATGTC-
i manLeu1.NW_012101287v1    C 0 I 2
s colAng1.NW_012114364v1      3559207 11 +   9309688 CCTGTCATGTC-
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11391056 11 -  29834108 CTTGTCATGTC-
i saiBol1.JH378123          C 0 I 2
s aotNan1.NW_018488218v1      1863828 11 -   2295209 CTTGTCATGTC-
i aotNan1.NW_018488218v1    C 0 I 46
s otoGar3.GL873576            4563480 11 -  12054995 TTTATGACGTC-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718665  2 +  45876710 CC----------
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             917880  3 -   1687904 ---------TCT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I
e cebCap1.NW_016107911v1       843634 58 -   1015025 I

a score=85172.000000
s hg38.chr12_GL383549v1_alt     74444 130 +    120804 ATGTCatggaaacaaaaaagggcttcaatagccaaggcaatgctaagcaaaaagaacaaagatggaggcatcatgttacctgactgcaaactatactacagggctacagtaaccaaacagcatggtcctA
s panTro5.chr12              62766032 130 + 137163284 ATGTCatggaaacaaaaaagggcttcaatagccaaggcaatgctaagcaaaaagaacaaagatggaggcatcatgttacctgactgcaaactctactacagggctacagtaaccaaacagcatggtcctA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889838 130 + 135337776 ATGTCatggaaacaaaaaagggcttcaatagccaaggcaatgctaagcaaaaagaacaaagatggaggcatcatgttacctgactgaaaactatactacagggctacagtaaccaaacagcatggtcctA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105244 130 -  32808036 ATGTCatggaaacaaaaaagggcttcaatagccaaggcaacgctaagcaaaaagaacaaagatggaggcatcatgttacctgactgcaaactatactacagggctacagtagccaaacagcatggtcctA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295244 130 +  34552619 ATGTCatggaaacaaaaaacggcttcaatagccaaggcaatgctaagcaaaaagaacaaagatggaggcatcacgttacctgactgcaaactatactacggggctacagtaaccaaacagcatggtcctA
i nomLeu3.chr23             C 0 C 0
s canFam3.chr27              19718667  33 +  45876710 ---------------------ACTTC------------------------------------------CATCCTGCTA----------------------GGTCTACA----CAAAGCTGCA--------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917883  13 -   1687904 -----------------------------------------------------------------------------------CTTCAGCCTGTAC----------------------------------
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4563491   0 -  12054995 C
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I
e aotNan1.NW_018488218v1      1863839  46 -   2295209 I
e cebCap1.NW_016107911v1       843634  58 -   1015025 I
e saiBol1.JH378123           11391067   2 -  29834108 I
e colAng1.NW_012114364v1      3559218   2 +   9309688 I
e manLeu1.NW_012101287v1       165353   2 +    435186 I
e chlSab2.chr11             100770117   2 - 128539186 I
e cerAty1.NW_011999477v1      8279126   2 -  10730278 I
e macNem1.NW_012011422v1      1378594   2 -   7948249 I
e macFas5.chr11             109000641   2 - 137757926 I
e rheMac8.chr11             104601072   2 - 133663169 I

a score=1695.000000
s hg38.chr12_GL383549v1_alt     74574 2 +    120804 CC
s panTro5.chr12              62766162 2 + 137163284 CC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889968 2 + 135337776 CC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105374 2 -  32808036 CC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295374 2 +  34552619 CC
i nomLeu3.chr23             C 0 C 0
s otoGar3.GL873576            4563491 1 -  12054995 -T
i otoGar3.GL873576          C 0 I 1
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e canFam3.chr27              19718700 0 +  45876710 C
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I
e aotNan1.NW_018488218v1      1863839 46 -   2295209 I
e dasNov3.JH562883             917896 0 -   1687904 C
e cebCap1.NW_016107911v1       843634 58 -   1015025 I
e saiBol1.JH378123           11391067 2 -  29834108 I
e colAng1.NW_012114364v1      3559218 2 +   9309688 I
e manLeu1.NW_012101287v1       165353 2 +    435186 I
e chlSab2.chr11             100770117 2 - 128539186 I
e cerAty1.NW_011999477v1      8279126 2 -  10730278 I
e macNem1.NW_012011422v1      1378594 2 -   7948249 I
e macFas5.chr11             109000641 2 - 137757926 I
e rheMac8.chr11             104601072 2 - 133663169 I

a score=315815.000000
s hg38.chr12_GL383549v1_alt     74576 46 +    120804 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTATG--AT
s panTro5.chr12              62766164 46 + 137163284 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTATG--AT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60889970 46 + 135337776 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTATG--AT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105376 46 -  32808036 GATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTATG--AT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295376 46 +  34552619 CATAGGTCCTATGGGTAGAAAAATAATATACAGCTGAAATAATA--AT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601074 44 - 133663169 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i rheMac8.chr11             I 2 C 0
s macFas5.chr11             109000643 44 - 137757926 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i macFas5.chr11             I 2 C 0
s macNem1.NW_012011422v1      1378596 44 -   7948249 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i macNem1.NW_012011422v1    I 2 C 0
s cerAty1.NW_011999477v1      8279128 44 -  10730278 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i cerAty1.NW_011999477v1    I 2 C 0
s chlSab2.chr11             100770119 44 - 128539186 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i chlSab2.chr11             I 2 C 0
s manLeu1.NW_012101287v1       165355 44 +    435186 CATAGGTCCTATGGGTAGTAAAATAATATACAGCTGAAATTTTG----
i manLeu1.NW_012101287v1    I 2 C 0
s colAng1.NW_012114364v1      3559220 46 +   9309688 CATAGGTCCTATGGGTAGTAAAATAATACACAGCTGAAATTTTGAT--
i colAng1.NW_012114364v1    I 2 I 4
s saiBol1.JH378123           11391069 41 -  29834108 CATGGGTCCTATGGTTAGTAAAAT-----ACAGCTGAAATTTTG--AT
i saiBol1.JH378123          I 2 C 0
s otoGar3.GL873576            4563493 46 -  12054995 CACAAGTTGTAGGAATACTAAAATGGTATCTAACTGAAATCTTG--AC
i otoGar3.GL873576          I 1 C 0
s canFam3.chr27              19718700 28 +  45876710 ------------GGATACTAAAATGATATCTAACTGAAAT--------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917896 43 -   1687904 ---AAGTCTTAAGGATACTAAAATGATATCCACCTGAATTCTTG--AT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I
e aotNan1.NW_018488218v1      1863839 46 -   2295209 I
e cebCap1.NW_016107911v1       843634 58 -   1015025 I

a score=-11552.000000
s hg38.chr12_GL383549v1_alt     74622 15 +    120804 TTCAGCTGTATATTA
s panTro5.chr12              62766210 15 + 137163284 TTCAGCTGTATATTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890016 15 + 135337776 TTCAGCTGTATATTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105422 15 -  32808036 TTCAGCTGTATATTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295422 15 +  34552619 TTCAGCTGTATATTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601118  6 - 133663169 -------ATATCT--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000687  6 - 137757926 -------ATATCT--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378640  6 -   7948249 -------ATATCT--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279172  6 -  10730278 -------ATATCT--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770163  6 - 128539186 -------ATATCT--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165399  6 +    435186 -------ATATCT--
i manLeu1.NW_012101287v1    C 0 C 0
s saiBol1.JH378123           11391110  4 -  29834108 ---------ATCT--
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4563539  4 -  12054995 ---------ATCT--
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718728 10 +  45876710 ---CTTCGTACCT--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917939  2 -   1687904 ---------AT----
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I
e aotNan1.NW_018488218v1      1863839 46 -   2295209 I
e cebCap1.NW_016107911v1       843634 58 -   1015025 I
e colAng1.NW_012114364v1      3559266  4 +   9309688 I

a score=436988.000000
s hg38.chr12_GL383549v1_alt     74637 42 +    120804 TGTATGGCTTTGTCTGACAACTCAGTCACAACTTCCAACTTT
s panTro5.chr12              62766225 42 + 137163284 TGTATGGCTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890031 42 + 135337776 TGTATGGCTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105437 42 -  32808036 TGTATGGCTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295437 42 +  34552619 TGTATGGCTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601124 42 - 133663169 TGTACGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000693 42 - 137757926 TGTATGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378646 42 -   7948249 TGTATGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279178 42 -  10730278 TGTATGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770169 42 - 128539186 TGTATGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165405 42 +    435186 TGTATGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559270 42 +   9309688 TGTATGGTTCTGTCTGACAACTCAGTCACAACTTCCAAGTTT
i colAng1.NW_012114364v1    I 4 C 0
s saiBol1.JH378123           11391114 42 -  29834108 TGTGTGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843692 42 -   1015025 TGTGTGGTTTTGTCTGACAACTCAGTCACAACTTCCAAGATT
i cebCap1.NW_016107911v1    I 58 C 0
s aotNan1.NW_018488218v1      1863885 42 -   2295209 TGTGTGGTTTTGTCCGACAACTCAGTCACAACTTCCAATATT
i aotNan1.NW_018488218v1    I 46 C 0
s otoGar3.GL873576            4563543 30 -  12054995 TGTGTGGTT------------TCCATCAAGAGGTATAAGTTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718738 42 +  45876710 TTCATGGGTTTGCCTGACTTCTCAGTCACAAGTGCCAACTTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917941 28 -   1687904 --------------TTTCCACTTGGTCACAATTTCCAAGTTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I
e micMur3.chr21               3002333 108 +  31815103 I
e proCoq1.NW_012140524v1      5092945 120 +  13104022 I

a score=449847.000000
s hg38.chr12_GL383549v1_alt     74679 36 +    120804 ATTCTACTGACAATAATAAATTAACAGCCACTTTTG
s panTro5.chr12              62766267 36 + 137163284 ATTCTACTGACAATAATAAATTAACAGCCACTTTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890073 36 + 135337776 ATTCTACTGACAATAATAAATTAACAGCCACTTTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105479 36 -  32808036 ATTCTACTGACAATAATAAATTAACAGCCACTTTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295479 36 +  34552619 ATTCTACTGACAATAATAAATTAACAGCCACTTTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601166 36 - 133663169 ATTCTACCGACAATAATAAATTAACACGTACTTTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000735 36 - 137757926 ATTCTACCGACAATAATAAATTAACACGTACTTTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378688 36 -   7948249 ATTCTACCGACAATAATAAATTAACACGTACTTTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279220 36 -  10730278 ATTCTACCGACAATAATAAATTAACACGTACTTTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770211 36 - 128539186 ATTCTACCGACAATAATAAATTAACACCTACTTTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165447 35 +    435186 ATTCTA-CGACAATAATAAATTAACACGTACTTTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559312 35 +   9309688 ATTCTCCCGACAATAATAAATTAGCACCCAC-TTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391156 36 -  29834108 ATTCTACTGACAATAATAAATTAACACCCACTTTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843734 36 -   1015025 ATTCTACTGACAATAATAAATTAACACTCACTTTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863927 36 -   2295209 ATTCTACTGGCAATAATAAATTAACACCCACTTTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002441 36 +  31815103 ATTCTACTGACAACAATACATTAACACCCTCTTTTG
i micMur3.chr21             I 108 C 0
s proCoq1.NW_012140524v1      5093065 36 +  13104022 ATTCTACTGACAATAATAAATTAACACCCACTTTTG
i proCoq1.NW_012140524v1    I 120 C 0
s otoGar3.GL873576            4563573 36 -  12054995 ATTCTACCAACAATAATAAATTAACACCCACTTTCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19718780 35 +  45876710 ATTCTGCTGGCAATAACAAGTTAATACACACTTTT-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             917969 28 -   1687904 ATTCTG-GGACCAGAGCATTT-------CATTTATG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2405897 209 - 149736546 I

a score=4872534.000000
s hg38.chr12_GL383549v1_alt     74715 375 +    120804 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTTCTT--TTCTATTATGAAATCTTTAAGATGAAGTCTTG-CAGAAAT-TGACTTGATTAAT----------------------TTATAGGGCACTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAA-CACTGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTTGTATAAAAA------GGGGCAGAGAATTTGCAAGGACTAGAAAAAAAATTTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGACCACATAATTAGAAAAACAATAATTATGGTTCATTGAGCATTTACTCCAGTGCC
s panTro5.chr12              62766303 375 + 137163284 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTTCTT--TTCTATTATGAAATCTTTAAGATGAAGTCTTG-CAGAAAT-TGACTTGATTAAT----------------------TTATAGGGCACTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAA-CACTGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTTGTATAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAAATTTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGACCACATAATTAGAAAAACAATAATTATGGTTCATTGAGCATTTACTCCAGTGCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890109 375 + 135337776 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTTCTT--TTCTATTATGAAATCTTTAAGATGAAGTCTTG-CAGAAAT-TGACTTGATTAAT----------------------TTATAGGGCACTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAA-CACTGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTTGTATAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAAATTTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGACCACATAATTAGAAAAACAATAATTATGGTTCATTGAGCATTTACTCCAGTGCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105515 375 -  32808036 AGCTT---TTGTTTTTCTCGCCTTTGGAATTCATGTCTTTCTT--TTCTATTATGCAATCTTTAAGACGAAGTCTTG-CAGAAAT-TGACTTGATTAAT----------------------TTATAGGGCACTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAA-CACTGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTTGTATAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAAATTTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGACCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCCAGTGCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295515 369 +  34552619 AGCTT---TTGTTTTTCTCCCCATTGAAATTCATGTCTTTCTT--TTCTATTATGCAACCTTTAAGACGAAATCTTG-TAGAAAT-TGACTTGATTAAT----------------------TTATAGGGTACTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATTAAGTAGTTATACTTTTAATATAA-CACTGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTCATATAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAA--TTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGACCACATAATTAGAACAACAATAATTATGG----TTGAGCATTTACTCTACTGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601202 377 - 133663169 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTCCTT--TTCTATTACCAAACCTTTAAGATAAAATCTTG-CAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATTACTTTACATTGCACCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATTATGTCGTGTAAAAA------GGGGCAGAGAGTTCGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAAGATTTTAATGACCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109000771 373 - 137757926 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTCCTT--TTCTATTACCAAACCTTTAAGATAAAATCTTG-CAGAAAT-TGAC----TTAAG----------------------TTATAGAGCACTACATTACTTTACATTGCACCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATTATGTCGTGTAAAAA------GGGGCAGAGAGTTCGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAAGATTTTAATGACCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1378724 370 -   7948249 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTCCTT--TT-------CAAACCTTTAAGATAAAATCTTG-CAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATTACTTTACATTGCACCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATTATGTCGTGTAAAAA------GGGGCAGAGAGTTCGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAAGATTTTAATGACCACATAATTAGAACAACAATAATTATTGTTCATTGAGCATTTACTCTAGTGCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279256 377 -  10730278 AGCTT---TTGTTTTTCTCCCGTTTGGAATTCATGTCTTCCTT--TTCTATTACCAAACCTTTAAGATAAAATCTTG-TAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATTACTTTACATTGCACCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATTATGTCGTGTAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAATATTTTAATGTTCACATAATTAGAACAAGAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770247 377 - 128539186 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTCCTT--TTCTATTACCAAACCTTTAAGACAAAATCTTG-CAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATGACTTTACATTGCATCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATTATGTCGTGTAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAAGATTTTAATGACCACATAATTAGAACAACAGTAATTATGGTTCATTGAGTATTTACTCTAGTGCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165482 377 +    435186 AGCTT---TTGTTTTTCTCCCCTTTGGAATTCATGTCTTCTTT--TTCTATTACCAAACCTTTAAGATAAAATCTTG-CAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATTACTTTACATTGCACCTCTCACGTTGTTGGGTTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCATCATGTCATGTAAAAA------GGGGCAGAGAGTTTGCAAGGACTAGAAAAAAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACATAGGAAGATTCTAATGACCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559347 376 +   9309688 AGCTT---TGGTTTTTCTCCCCTTTGGAATTCATGTCTTCCTT--TTCTATTACCAAACCTTTAAGACAAAATATTG-CAGAAAT-TGACTTGATTAAG----------------------TTATAGAGCACTACATGACTTTACATTGCACCTTTCACATTGTTGGGGTCATTAAGTAGTTATACCTTTAATATAACCACCGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTCATGTAAAAA------GGGGCAGAGAGTTTGTAAGGACTAGAAAACAATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCCAGGTATTTGATGAACTTAGGAAGATTTTAATGACCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391192 373 -  29834108 AGCTT---TCATTTTTCTCCCCTTTGGAATTCATGTTTTTCTT--TTCTGTTATCAACCCTTTCAGATGAAAATTTG-CAGAAAC-TGACTTGATTAAT----------------------TTATAGGGTACTACATGACTTTATATTGCACCTCTCACATTATTGGGGTTAATAAGTAGTTAGATCTTTAATATAA-CACTGGTTTGTAGCCAAC-C-ATCTAGAAGCAC-ATGTCATATAAGAA------GGGGCAAAGAGTTTCCAAGGACTAGAAAA-AATATTTGTCATTATTTCAACACTTGGTGATATTTAAGAATTCTGGGTATTTGATGAACATAGGAAGATTTTAATGATCACATAATTAGAACAACAATAATTAAGCTTCATTGAGCATTTACTCTAGTGCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       843770 374 -   1015025 AGCTT---TCGTTTTTCTCCCCTTTGGAATTCATGTCTTTCTT--TTCTGTTATCAACCCTTTAAGATGAAAATTTG-CAGAAAC-TGACTTGATTAAT----------------------TTACAGGGCACTACATGACTTTATATTGCACCTCTCACATTACTGGGGTCATTAAGTAGTTATATCTTTAATATAA-CACTGGTTTGCGGCCAAAGC-ATCTAGAAGCAT-ATGTCATGTAAGAA------GGGGCAAAGAGTTTTCAAGGACTAGAAAA-AATATTTGTAATTATTTCAACACTTGGCGATATTTAAGAATTCTGGGTATTTGATGAACATAGGAAGATTTTAATGATCACATAATTAGAACAACAATAATTATGCTTCATTGAACATTTACTCTAGTGCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1863963 374 -   2295209 AGCTT---TCGTTTTTCTCCCGTTTGGAATTCATGTCTTTCTT--TTCTATTATCAACCCTTTAAGATGAAAATTTG-CAGAAAC-TGACTTGATTAAT----------------------GTATAGGGCACTACATGACTTTATATTGCACCTCTCACATTATTGGGTTCATTAGGTAGTTATACCTTTAATATAA-CACTGGTTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGTCATGTAAGAA------GGGGCAGAGAGTTTCCAAGGACTAGAAAA-AATATTTGTCATTATTTCAACACTTGGTGATATCTAAGAATTCTGGGTATTTGATGAACATAGGAAGATTTTAATGATCACATAATTAGAACAACAATAATTATGGTTCATTGAGCATTTACTCTAGTGCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002477 370 +  31815103 AAGTT---TTATTTTTCTCCTCCTTGAAATTCATGTCTTCCTT--TC-TATTAGTAACCCATTAAGATCAAATTTTG-CAGAATTCTGACTTGATGAAA----------------------T----TAACGCTACATGACTTTACATTGCACCTCTCACATTGTTGGGTTCATGAACTAATTATACCTTTATTATAA-CAATGACTTGTCACCACAGC-ATCTAGAGGCAT-ATGCCATGTAAAAA------GGTGCAGAGATTTTTCAAAAATTAGACTAAAATATTTGTCACTATTCCAACACTAGGCAGTATCCAAGAATTCCGGGTATCTGATGAATATAGGAAGATT-GAATGACCACATAATTAGAACAACAATACTTATGATGCATTGAGCATTTACACTaatacc
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5093101 370 +  13104022 AGCTT---TTGTTTTTCTCCTCTTTGAAATTCATGTTTTCCTT--TC-TATTAGTAACCCTTTAAGATCAAATTTTGCCAGAATTTTGCCTTGATTAAA----------------------T----TGACACTACATGA-TTTACATTGCACCTCTCACATTGTTGGGTTCATGAACTAATTATACCTTTATTATAA-CAATGATTTGTAGCCAAAGC-ATCTAGAAGCAT-ATGCCATGTAAAAA------GGCACAGAGATTTTCCAAAAATTAGAATAAAATATTTGTCACTATTCCAGTACTTGGCAATATCCACGAATTCCGGGTATTTGATGAATATAGGAAGATT-GAATGACCACATAATTAGAACAACTATAATTATGATGTATTGAACATTTACACTaatacc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4563609 362 -  12054995 AAATT---TTGTTTTTCTCCTCCTTGGAACTCATGTCTTCCTG--TC-----AGTAACCCTTTAAGATCAAAGCTTG-CAGAATTTTGACTTGAGTAAC----------------------TAATAGGGCACTAAACGACTTTCCATTGCACCTCTCACATCGTT-GGTTCATTAACTTGTTGTGCCTTTCTTATAA-CAGTGATTGATAACCAAAGC-ATCTAGAAGTAT-ATCCCATGTAAAAA------GCTGTAGAGATTTTCCAAAAATTAGAATAAAATATTCATCATGATTCCAGCACTTGGCAATGGCCAAGAATTCCAGGTATTTGACGAACATAGAGATATT-TAATGACCACATAATTAGAACAACAATAATTGTGATG-------CATTTACACTaatacc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2406106 352 - 149736546 AGGTT---TTCATCTTCTCACT----GAACCCATGAGTCCCTC--TC-CATTAAAAGCCCTCTAGAGTC---------CAGTTCC-TGCCTTAATTAAC---------------------------GAGTGCTACATGAGTTTATATCTCACTCGCCATATTTTTGAGTTTGGTAACTAG----ACTTTTATTATAA-CAATATTTTGTGGCCAAACCTATCTGGAAGCAT-ATG-CGTGTCAAAATTTGGCATGCAAAAGATTTCCCAAGCACTCGATC--AATACTTGCCATTATTCTAGCTATAAATGACATCCAAGACACCCATGT-TTTGGTGACTGTAGGAAGATT-TAATGTCTACACAGTC---GTAACCATAATTAGGATACAATGAGCATTTTCTTTCATGTT
i mm10.chr6                 I 209 C 0
s canFam3.chr27              19718815 390 +  45876710 -GTTTAAGTCAATTTTACCTTCCTTGGAATTCAT-----TGTC--TCCTACCCACAATCCATTGAGGTCAAATCTTG-CAAAATT-TTGGTTAATTGATATTTGAAAATTTGGTAA--TGATTAAAGGACTCTACATGGTTTTATACTTTAGCTCTTATGTTGCTGGGCTTGTTAACTACTTTTATCTTCACTATAA-CAATGGTTTGTAGCCAAAAC-ATCTGGAAGAAA-ATGCCATGTAAAAC------GGCACAGAGA-TTTCTTGGGACTAGAATAAAATATGTGTCCTTACTCTAGCACTT-ACAATATCCAGAGTTTCCAGGTATTTAATGAATATAGGAAGATTTTAATGACCACATAATTTTAACAACAGGACTTATCATGAATTGAGCTCTTACTCTAATACC
i canFam3.chr27             C 0 I 539
s dasNov3.JH562883             917997 378 -   1687904 --------TCCGTTTTCTCCCCTTGGGAATCCATTCCTTCCTCTGTTCTATCAGTAGTCTTTTAAGACCAAATCTTT-CAGAATTTTGACCTGATTAAT------------GATGAATGGGTCAC-GGTCACTGCATCACTTTTTGCTGCA-CTTTCACATTGCTAGGCTCATTGACTACTT-TGACTTTATTATTGAGAATGGTTTGTAGGCAAAGC-ATCTAGAAGTAT-ATGCCATGTAAAAA------GTGGCAGAGATTTCCCAAGGACTAAAATAAAACTTTTGTCATTATTCTCTCACTC-ATAATACCTAAGATTTCCAGCTATTTGATGAATGTAG-AAGATTTTAATGCCCACATAACAACAACGATAACAATTGCCATCAGTTGAGCTTTTACTCT-GTACC
i dasNov3.JH562883          C 0 I 4

a score=308787.000000
s hg38.chr12_GL383549v1_alt     75090 24 +    120804 AAATAAGattcactgagctctcac
s panTro5.chr12              62766678 24 + 137163284 AAATAAGattcactgagctctcac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890484 24 + 135337776 AAATAAGattcactgagctctcac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105890 24 -  32808036 GAATAAGattcactgagctctcac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295884 24 +  34552619 aaataagattcactgagctctcac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601579 24 - 133663169 AAATAAGattcactgagctctcac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001144 24 - 137757926 AAATAAGattcactgagctctcac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379094 24 -   7948249 AAATAAGattcactgagctctcac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279633 24 -  10730278 AAATAAGATTCCCTGAGCTCTCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770624 24 - 128539186 AAATAAGattcactgagctcttac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165859 24 +    435186 AAATAAGattcactgagctctcac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559723 24 +   9309688 AAATAAGattcactgagctctcac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391565 24 -  29834108 AAAtaatattcactgtgctctcat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844144 24 -   1015025 aaataagattcactgtgctctcac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864337 24 -   2295209 aaataagattcactgtgctctcac
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002847 24 +  31815103 aattgacattcagtgagctttcac
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5093471 24 +  13104022 gattaacattcagtgagctgtcgc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4563971 24 -  12054995 aaccaacattcagcgaactcttgc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2406458 23 - 149736546 -ACTGATATTCACTGAGCTCACAC
i mm10.chr6                 C 0 I 37
s canFam3.chr27              19719744 22 +  45876710 AAACTAAATTCATAGTATTCAC--
i canFam3.chr27             I 539 C 0
s dasNov3.JH562883             918379 24 -   1687904 aattaatagtcattgaatattcat
i dasNov3.JH562883          I 4 I 3

a score=2439376.000000
s hg38.chr12_GL383549v1_alt     75114 200 +    120804 catgtgccagggactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgataggtttcatgattttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTACTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
s panTro5.chr12              62766702 200 + 137163284 catgtgccagggactctgcaaagtactttatatgtgt------------------tttcgttttatctagtcattatagaacccatggagtgataggtttcatgattttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTACTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890508 200 + 135337776 catgtgccagggactctgcaaactactttatatgtgt------------------tttcgttttatctagtcattatagaacccatggagtgataggtttcatgattttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTACTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3105914 200 -  32808036 catgtgccagggactctacaaagtactttatatgtgt------------------tttcgttttatctagtcattatagaacccatggagtgataggtttcatgattttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7295908 200 +  34552619 catgtgccaaggactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgacaggtttcataattttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACTAGTGTGACACGTAGCTCTGGGAATAATTAAGAGCTATTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601603 199 - 133663169 cacgtgccagggactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgataggtttcataatc-tcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001168 199 - 137757926 cacgtgccagggactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgataggtttcataatc-tcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379118 199 -   7948249 cacgtgccagggactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgataggtttcataatc-tcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279657 200 -  10730278 CACGTGCTAGGGACTCTGCAAAGTACTTTATATGTGT------------------TTTCATTTTATCTAGTCATTATAGAACCCATGGAGTGATAGGTTTCATAATCTTCTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770648 199 - 128539186 cacgtgccagggactctgcaaagtactctatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgataggtTCC-TAATCTTCTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCGTAA-GACAGAAACATGTATGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       165883 200 +    435186 cacgtgccagggactctgcaaagtactttatatgtgt------------------tttcattttatcgagtcattatagaacccatggagtgataggtttcataatcttcTGACATTCTTGGTGTCAGGGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATGTGTATTAAACACCAGTGTGACACCTAGCTCTGGGAATAATTAAGAGCTATTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559747 198 +   9309688 cacgtgccagggactccgtaaagtactttatatgtgt------------------tttcattttatctagtcattatagaacccatggagtgacaggtttcataatcttcTGACGTTCTTGGTGTC--GGGAAGAAAA-------------------------GGAGAACTCTTAA-GACAGAAACATATACGTATGAAACACCAGTGTGACACCTAGCCCTGGGAATAATTAAGAGCTATTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391589 212 -  29834108 tgtgtgccagggactctgcaaagtactttatatgtatATTTTTATATTTTATATGTATCATTTTATCTAGTCATTATCAAAACCATGGAGTGACAGGTTTTATAATATTCTGGTATTCTTGGTGTC-AGGGAAAAAAA-------------------------GAAAAACTT------ATAGAAACATATATATATTAAACACCAGTGTGACATCTAGCTCTGAGAATAATTAAGAGTTATTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844168 215 -   1015025 catgtgccagggaccctgcaaagtactttatatgtgtATTTTTATATTTTATATGTATCATTTTATCTTGTCATTATTGAAACCATGGAGTGACAGGTTTCATAATATTCTGGCATTCTTGGTGTT-GGGGAAAAAAA-------------------------GGAAAACAT--AA-GAAACAAACATACATATATTAAACACCAGTGTGACATCTAGCTCTGGGAATAATTAAGAGTTATTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864361 199 -   2295209 catgtgccaggaactctgcaaagtactttatatgtgt------------------tttcattttatctagtcattatcgaacccatggagtaACAGGTTTGATAATACTCTGGCATTCTTGGTGTT-GGGGAAAAAAA-------------------------GGAAAACTTATAA-GATAGAAACGTATATATGTTAAACACCAGTGTGACATCTAGCTCTGGGAATAATTAAGAGTTATTAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3002871 202 +  31815103 catgtttcaaggacgttgcacagtagtttacatgtac----------------tgtctcatttaatctaatcaatacagaacccgtggagtGATAGGGTTCATAACCTTCTGCCACTCTTGGT-TCAGGGGGAGAAAA-------------------------GGAGAACTTATAAGGACAGAAATACACAAGTGTTAAGCACCAATGCAGCATCTAGCTCTGAGAATGCTTAGGAGTTAGTAG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5093495 202 +  13104022 cgtgtgtcaaggactctgcacagtactttacatgcac----------------tgtctcatttaatctaatcaatacagaacccatggagtGATAGGATTCATAACCTTCTGCCATTCTTGGT-TCAGGGGGAGAAAA-------------------------GGAGAATTTATAAGGACAGAAACATACATGTATTAAGCACCGATGCAGCATCTAGCTCTGAGAATGCTTAGGAGTTAGTAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4563995 202 -  12054995 catgtgtcaaggactctgcagagcaatttgcatgcac----------------tgtcttgtttaatcAAATCAATATAGACCCCAAAGAATGTTAGATTTCATAACCTTCTGCCATTCTTGGTGTGAGGGGGAGAAAA-------------------------GGAGAACTCAGAGGGACAGAAGCTTATGTGTATT-AGCACCAATGCAGCATCTAGCTCTGAGAATACTTCGGAGACAGTAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19719766 213 +  45876710 -ATGTGTTAAGGACTCTGCAAAACACTATAAATGCAT------------------------CTAACCTAATTAACATGAAGTCTAGGAGGTGACGAGTCTCACAA---CCTGGCATTCTGAGTGTCAAAGGGAGAAAAAAAATGTTATAAAAAAAAAGAAAAGAAAAAATTTGTAAGGACAGAAAC--ACAGGTATTAAACACCAATGTGTCACTT-GCTCTGAGAATACTTAAGAGTTGATAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             918406 196 -   1687904 tatgtgttagggactttgtgaagtactttatatactt----------------tatctcatttaatcTGATCAGTGGAGAACCCATGGAGTAACA-GTTTTATAACCTTTTGGCTTTCAGGTTGTCAAGGCCAGAAAA-------------------------GGAGAAGTTTTAAAGACAGAAACATACG-ATGTAATTTCCGAGTGTGGCATTTA-----AAGGATACTTAAAAGTCAGTAA
i dasNov3.JH562883          I 3 C 0
e mm10.chr6                   2406481  37 - 149736546 I

a score=597511.000000
s hg38.chr12_GL383549v1_alt     75314 47 +    120804 ATAAAGTGTCTCTTGAATAG------TTT-GGGGTGTTTTGACTTTCATATGTT
s panTro5.chr12              62766902 47 + 137163284 ATAAAGTGTCTCTTGAATAG------TTT-GGGGTGTTTTGACTTTCATATGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890708 47 + 135337776 ATAAAGTGTCTCTTGAATAG------TTT-GGGGTGTTTTGACTTTCATATGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106114 47 -  32808036 ATAAAGTGTCTCTTGAATAG------TTT-GGGGTGTTTTGACTTTCATATGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296108 47 +  34552619 ATAAAGTGTCTCTTGAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601802 47 - 133663169 ATTAAGTGTATCTCTAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001367 47 - 137757926 ATTAAGTGTATCTCTAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379317 47 -   7948249 ATTAAGTGTATCTCTAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279857 47 -  10730278 ATTAAGTGTATCTCTAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770847 48 - 128539186 ATTAAGTGTCTCTCCAATAG------TTTGGGGGTGTTTTGACTTTCATGTGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166083 47 +    435186 ATTAAGTGTATCTCTAATAG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559945 47 +   9309688 ATTAGGTGTCTCTCAAATAG------TTT-GGGGTGTTTTGACTTTCACGTGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391801 47 -  29834108 ATAAAGTGTCTCTTGAATGG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844383 47 -   1015025 ATAAAGTGCCTCTTGAATGG------TTT-GGGGTGTTTTGACTTTCATGTGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864560 47 -   2295209 ATAAGGTGTCTCTTGAATGG------TTT-GGGTGTTTTTGACTTCTATGTGTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3003073 47 +  31815103 ATAAAGTGTCTCATGAAAAG------TTT-GGGGTGTTTTTCCTTCCGTGTGTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5093697 47 +  13104022 ATAAAGGGTCTCATGAAAAG------TTT-GGGGTGTTTTTCCTTCCATGTGTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4564197 47 -  12054995 ATAAAGTGTCTCATGAGAAG------TTT-GGGGTGTTTTCCTCTCCATGTGCT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2406518 46 - 149736546 ATAAAGTATCTCTCAAAAGG------TTT-GGAGTGTTTTT-CTTCCCTGTGTT
i mm10.chr6                 I 37 I 73
s canFam3.chr27              19719979 52 +  45876710 ACAAAATGCCTCACAGACAGAAAAACACA-GGGGTGTTTTTCCTTT-GTGCGTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             918602 39 -   1687904 ATAAAGTGTCTC--------------ATG-TGAGTGTTTTTTCTTTCACAGGTT
i dasNov3.JH562883          C 0 C 0

a score=161475.000000
s hg38.chr12_GL383549v1_alt     75361 17 +    120804 AATCAGCAACAGACATT
s panTro5.chr12              62766949 17 + 137163284 AATCAGCAACAGACATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890755 17 + 135337776 AATCAGCAACAGACATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106161 17 -  32808036 AATCAGCAACAGACATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296155 17 +  34552619 AATCAGCAACAGACATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601849 14 - 133663169 AATCAGCAACACA---T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001414 14 - 137757926 AATCAGCAACACA---T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379364 14 -   7948249 AATCAGCAACACA---T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279904 14 -  10730278 AATCAGCAACACA---T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770895 14 - 128539186 AATCAGCAACACA---C
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166130 14 +    435186 AATCAGCAACACA---T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3559992 14 +   9309688 AATCAGCAACACA---C
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391848 17 -  29834108 AATCAGCAATAGACATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844430 17 -   1015025 AATCAGCAATAGACATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864607 17 -   2295209 AATCAGCAATAGACATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3003120 17 +  31815103 AATCAGCAATAAACATT
i micMur3.chr21             C 0 I 221
s proCoq1.NW_012140524v1      5093744 17 +  13104022 AATCAGCAATAAACACT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4564244 17 -  12054995 GAGCAGCAATAAACATT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19720031 17 +  45876710 AATTAGCAATAAGCATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             918641 17 -   1687904 AGTTAACAGTAAGCATT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2406564 73 - 149736546 I

a score=493853.000000
s hg38.chr12_GL383549v1_alt     75378 45 +    120804 ATATGCATATTGGAAGACATGCTACTGTGAAATCATTTTAATCTT
s panTro5.chr12              62766966 45 + 137163284 ATATGCATATTGGAAGACATGCTACTGTGAAATCATTTTAATCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890772 45 + 135337776 ATATGCATATTGGAAGACATGCTACTGTGAAATCATTTTAATCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106178 45 -  32808036 ATATGCATATTGGAAGACATGCTACTGTGACATCATTTTAATATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296172 45 +  34552619 ACATGCATATTGGAAGACACGCTACTGTGAAATCATTTTAATCTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601863 45 - 133663169 ATATGCATATTGTAACACATGCTACTGTGAAATCGTTTTAATCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001428 45 - 137757926 ATATGCATATTGTAACACATGCTACTGTGAAATGGTTTTAATCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379378 45 -   7948249 ATATGCATATTGTAACACATGCTACTGTGAAATCGTTTTAATCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279918 45 -  10730278 ATATGCATATTGTAACACATGCTACTGTGAAATCGTTTTAATCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770909 45 - 128539186 ATATGCATATTGTAACACATGCTACTGTGACATCGTTTTAATCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166144 45 +    435186 ATATGCATATTGTAACACATGCTACTGTGAAATCGTTTTAATCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560006 45 +   9309688 ATATGCATATTGTAACACATGCTACTGTGAAATCGTTTTAATCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391865 45 -  29834108 ATATGCATATTGGAACACATGCTACTGTGAAATCATTTCAGTCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844447 45 -   1015025 ATATGCATATTGGAACACATGCTACTGTGAAATCATTTCAATCTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864624 45 -   2295209 ATAAGCATATTGGAACACATGTTACCGTGAAATCATTTCAATCTT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5093761 45 +  13104022 GTGTGCACGTCAGAATACCCGCCACTGTGAAGCCATTTGAATCTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4564261 45 -  12054995 CCACACACATCAGAATACCTGACCCTGCGAAGAGATTTGAATCTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19720048 45 +  45876710 ATATGCACACCAGAATATCTGCCACTGTGCAGACTTTTGAATCTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             918658 43 -   1687904 ATATGCACATCAGAACCAGTGCCAC--TGGAGCCGTGTGAATCTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2406564 73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I

a score=250650.000000
s hg38.chr12_GL383549v1_alt     75423 21 +    120804 -CACATTCAAGTTTCAGGCCtg
s panTro5.chr12              62767011 21 + 137163284 -CACATTCAAGTTTCAGGCCtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890817 21 + 135337776 -CACATTCAAGTTTCAGGCCtg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106223 21 -  32808036 -CACATTCAAGTTTCAGGCCtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296217 21 +  34552619 -CACATTCAAGTTTCAGGCCtg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601908 21 - 133663169 -CACATTCAAGTTTCAGGCCtg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001473 21 - 137757926 -CACATTCAAGTTTCAGGCCtg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379423 21 -   7948249 -CACATTCAAGTTTCAGGCCtg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279963 21 -  10730278 -CACATTCAAGTTTCAGGCCtg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770954 21 - 128539186 -CACATTCAAGTTTCAGGCCtg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166189 21 +    435186 -CACATTCAAGTTTCAGGCCtg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560051 21 +   9309688 -CACATTCAAGTTTCAGGCCtg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391910 20 -  29834108 --ATAGTCAAGTTTCAGGCCtg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844492 21 -   1015025 -CACAGTCAAGTTTCAGGCCtg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864669 21 -   2295209 -CACAGTCAAGTTTCAGGTCtg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5093806 21 +  13104022 -CGAATTCAAGTTTCAGGTCtg
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4564306 21 -  12054995 -CAAATTCAACTTCTAAGCCtg
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             918701 22 -   1687904 CAAAGTTCAAGTTTCAGGGCTG
i dasNov3.JH562883          C 0 I 1580
e mm10.chr6                   2406564 73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I
e canFam3.chr27              19720093  0 +  45876710 C

a score=214000.000000
s hg38.chr12_GL383549v1_alt     75444 26 +    120804 ctactgtttgaatgtaccccccaaaa-
s panTro5.chr12              62767032 25 + 137163284 ctactgtttgaatgtacccccc-aaa-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890838 25 + 135337776 ctactgtttgaatgtaccccct-aaa-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106244 25 -  32808036 ctactgtttgaatgtacccccc-aaa-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296238 25 +  34552619 ctactgtttgaatgtacccccc-aaa-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601929 24 - 133663169 ctactgtttgaatgtaccccg--aaa-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001494 24 - 137757926 ctactgtttgaatgtaccccc--aaa-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379444 24 -   7948249 ctactgtttgaatgtaccccc--aaa-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8279984 24 -  10730278 ctactgtttgaatgtaccccc--aaa-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770975 24 - 128539186 ctactgtttgaatgttccccc--cca-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166210 24 +    435186 ctactgtttgaatgtaccccc--aaa-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560072 24 +   9309688 ctactgtttgaatgtaccccc--aaa-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391930 25 -  29834108 ctactgtttgaatgtattaccc-aaa-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844513 25 -   1015025 ctactgtttgaatgtatccccc-aaa-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864690 25 -   2295209 ctgttgtttgaatgtatctacc-aaa-
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5093827 26 +  13104022 ctatcatttgaatgtgtctccc-aaaa
i proCoq1.NW_012140524v1    C 0 I 139
s otoGar3.GL873576            4564327 25 -  12054995 ctatcatttgattgtgtctccc-aaa-
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2406564 73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I
e canFam3.chr27              19720093  0 +  45876710 C
e dasNov3.JH562883             918723 1580 -   1687904 I

a score=861376.000000
s hg38.chr12_GL383549v1_alt     75470 102 +    120804 agtacatgtgttgaca-ttttaatccgcaatgcaacagtcttcacaagttggacttttaagaggtgatttgctcatgacgactttgcccttataaatggatta
s panTro5.chr12              62767057 102 + 137163284 agtacatgtgttgaca-ttttaatccgcaatgcaacagtcttcacaagttggacttttaagaggtgatttggtcatgagggctttgcccttataaatggatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890863 102 + 135337776 agtacatgtgttgaca-ttttaatccgcaatgcaacagtcttcacaagttggacttttaagaggtgatttggtcatgagggctttgcccttataaatggatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106269 102 -  32808036 agtacatgtgttgaca-ttttaatccgcaatgcaacagtcttcacaagttggacttttaagaggtgatttggtcatgagggctttgcccttataaatggatta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296263 100 +  34552619 agtacatgtgttgaca-ttttaatccgcaatgcaacagtctg-acaggttggac-tttaagagttgattaggtcatgagggctttgcctttataaatggatta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104601953 102 - 133663169 agtccatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctctgcccttataaatggatta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001518 102 - 137757926 agtccatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctctgcccttataaatggatta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379468 102 -   7948249 agtccatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctctgcccttataaatggatta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280008 102 -  10730278 agtccatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctccgcccttataaatggatta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100770999 102 - 128539186 agttcatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctccgcccttataaatggatta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166234 102 +    435186 agtccatgtgctgaca-ttttaatccccaatgcaacagtcttgagaggctagacttctaagaggtgattaggtcatgagggctccgcccttataaatggatta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560096 102 +   9309688 agtccatgtgctgaca-ttttaatccccagtgcaacagtcttgagaggctggacttctaagaggtgattaggtcatgagggctccacccttataaatagatta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11391955 103 -  29834108 agtccatgtgttgaaatttttaatccccagtgcaacactcttaagaggttgaactttcaagaggtgattaggtcatgagggctccgcccttattaattgatta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844538 102 -   1015025 agtccatgtgttgaaa-ttttaatcctcagtgcagcagtcttgagaggttgaacttttaagaggtgattaggtcatgagggctccgccctgataaattgatta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864715 102 -   2295209 agtctatgtgttgaaa-ttttaatccccagtgcaacagtcttgagaggttgaacttttaagaggtgattaggtcatgagggctccacccttataaatggatta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4564352  78 -  12054995 agttta-gtgttgaaa-actttatccaccct------------aaaggtgggacct-----------ttggatcaagagtgctccaccctcatgaatggatta
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2406564  73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I
e canFam3.chr27              19720093   0 +  45876710 C
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I
e dasNov3.JH562883             918723 1580 -   1687904 I

a score=1869532.000000
s hg38.chr12_GL383549v1_alt     75572 219 +    120804 agatcattatcgtgggaatggattagttactgtgggagtgaactcctgatacaacagtaagttctaccctcacacttgcatctgtttcctgccttcagccatgggaggac-ccccaccagacgctggtgctgtgctctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaacaa--cagtctgtggtattctgttata-cag
s panTro5.chr12              62767159 219 + 137163284 aggtcattatcatgggaatggattagttactgtgggagtgaactcctgatacaacagtaagttctaccctcacacttgcatctgtttcctgccttcagccatgggaggac-ccccaccagatgctggtgctgtgctctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaacaa--cagtctgtggtattctgttata-cag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60890965 219 + 135337776 aggtcattatcatgggaatggattagttactgtgggagtgaactcctgatacaacagtaagttctaccctcacacttgcatctgtttcctgccttcagccatgggaggac-ccccaccagatgctggtgctgtgctctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaacaa--cagtctgtggtattctgttata-cag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106371 219 -  32808036 aggtcattatcgtgggaatggattagttactgtgggagtgaactcctgatacaacagtaagttctaccctcacacttgtgtctgtttcctgccttcagtcatgggaggac-ccccaccagatgctggtgctgtgctctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaacaa--cagtctgtggtattctgttata-cag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296363 220 +  34552619 aggtcattatcgtgggaatggattagttactgtgggagtgaactcctgatacaacagtaagttctaccctcacacttgcatctgtttcctgccttcagccatgggaggac-ccccaccagacgctggttctgtgctctgaggccttctagcctcc--aaaactgtgagccaaattaacttctgttctttataaacaa--cagtctgtggtattctgttacagcag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602055 222 - 133663169 aggccattatcgtgggaatggattaattactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccttctagcctccagagaactgtgaaccaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001620 222 - 137757926 aggccattatcgtgggaatggattaattactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccttctagcctccagagaactgtgaaccaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379570 222 -   7948249 aggccattatcgtgggaatggattaattactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccttctagcctccagagaactgtgaaccaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280110 222 -  10730278 aggccattatcatgggaatggattaattactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccttctagcctccagagaactgtgaaccaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771101 222 - 128539186 aggccattattgtgggaatggattagttactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccgtctagcctccagagaactgtgagccaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166336 222 +    435186 aggccattatcatgggaatggattaattactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcgtctgtttcctgccttctgccatggggcgac-ccccaccagatgctggtgctgtgctctgaggccttctagccttcagagaactgtgaacgaaattaacttcagttctttataaatag--cagtctgtggtattgtgttacagcag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560198 220 +   9309688 aggtcattatcatgggaatggattagttactgtgggagtgaactcttgatacaacagtaagttctgccctcacacttgcatctgtttcctgccttctgccatggggcgac-ctccaccagatgctggtgctgtgttctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaatag--cagtctgtggtattgtgttacagcag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392058 222 -  29834108 agttcattaacctgaaagtggatcagttac-gtgtgaatggcctcctgataaaacagtaagttctgccatcacactagcctctgtttcctgccttctgccatgggaggacaccccaccagatggtggtgctgtgctctgaggccttctggcctcc--agaactgtgagccaagttaacttgtgttctttataaataactcagcctgtggcattctgttatagccg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844640 221 -   1015025 aggtcgttatcctgggagtggatcagttactgtgtgaatggacccctgataaaacagtaagttctgccctcacactagcttctgtttcctgccttctgccatgggaggacaccccaccagatgctggtgctgtgctctgcaaccttctggcctcc--agaactgtgagccaaattaacttgtgttctttataaataa--cagtctgtggtattctgttatagcag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1864817 223 -   2295209 aggtcgttatcctgggagtggattagttactgtacgaattgactcctgataaaacagtaagttctgccctcacactttcgtctgtttcctgccttctgccatgggaggacaccccaccagatgctggtgctgtgctctgaggccttctagcctcc--agaactgtgagccaaattaacttctgttctttataaataactcagtctgtggtattctgttatagcag
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4564430   0 -  12054995 C
e mm10.chr6                   2406564  73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I
e canFam3.chr27              19720093   0 +  45876710 C
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I
e dasNov3.JH562883             918723 1580 -   1687904 I

a score=149707.000000
s hg38.chr12_GL383549v1_alt     75791 20 +    120804 cagaaaacaga----ctaaaacaA
s panTro5.chr12              62767378 20 + 137163284 cagaaaacaga----ctaaaacaA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891184 20 + 135337776 cagaaaacaga----ctaaaacaA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106590 20 -  32808036 cagaaaacaga----ctaaaacaA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296583 20 +  34552619 cagaaaacagg----ctaaaacaA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602277 19 - 133663169 cagaaaacgga----c-aagacaA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001842 19 - 137757926 cagaaaacaga----c-aagacaA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379792 19 -   7948249 cagaaaacaga----c-aagacaA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280332 19 -  10730278 cagaaaacaga----c-aagacaA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771323 19 - 128539186 cagaaaacaga----c-aagataA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166558 19 +    435186 cagaaaacaga----c-aagacaA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560418 19 +   9309688 cagaaaacaga----c-aagacaA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392280 20 -  29834108 cagaaaacaga----ctaagacaA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844861 20 -   1015025 cagaaaacaga----ctaagacaA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865040 20 -   2295209 cagaaaacaga----ctaagacaA
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19720093 16 +  45876710 CAGAAACCAGGTTCCC--------
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4564430  0 -  12054995 C
e mm10.chr6                   2406564 73 - 149736546 I
e micMur3.chr21               3003137 221 +  31815103 I
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I
e dasNov3.JH562883             918723 1580 -   1687904 I

a score=3448571.000000
s hg38.chr12_GL383549v1_alt     75811 356 +    120804 GGCCCTATAAGAGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAACGGTCCCAATATTGCTGCCAACCTGAGAGACCATCTATTGACCATTCATTTCCATCCTGAGGTGACAGAATGGCTACCAAGCCAAAGGGAATGGAGTG-GAAAGAGCAAGTAAATCCATACAATGCCACCTTTTTCTTGTTACCCTCCCACCATCCCTACTTGCTAAAATAGTATCACCAGCACTTCCATTTTACCTATTCCCTTCCCTCAGCTCTACCTTCCCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATGTGGT
s panTro5.chr12              62767398 356 + 137163284 GGCCCTATAAGAGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATATTGCTGCCAACCTGAGAGACCATCTATTGACCATTCATTTCCATCCTGAGGTGACAGGATGGCTACCAAGCCAAAGGGAATGGAGTG-GAAAGAGCAAGTAAATCCATACAATGCCACCTTGTTCTTGCTACCCTCCCACCAACCCTACTTGCTAAAGTAGTATCACCAGCACTTCCATTTTACCTATTCCCTTCCCTCAGCTCTATCTTCCCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAAAAGTTATCATGTATGTGGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891204 356 + 135337776 GGCCCTATAAGAGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATATTGCTGCCAACCTGAGAGACCATCTATTGACCATTCATTTCCATCCTGAGGTGACAGGATGGCTACCAAGCCAAAGGGAATGGAGTG-GAAAGAGCAAGTAAATCCATACAATGCCACCTTGTTCTTGCTACCCTCCCACCAACCCTACTTGCTAAAGTAGTATCACCAGCACTTCCATTTTACCTATTCCCTTCCCTCAGCTCTATCTTCCCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAAAAGTTATCATGTATGTGGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106610 356 -  32808036 GGCCCTATAAGAGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATATTGCTGCCAACCTGAGAGACCATCTATTGACCATTCATTTCCATCCTGAGGTGACAGAATGGCTACCAAGCCAAAGGGAATGGAGTG-GAAAGAGCAAGTAAATCCATACAATGCCACCTTGTTCTTGTTACCCTCCCGCCACCCCTACTTGCTAAAGTAGTATCACCAGCATTTCCATTTTACCTATTCCCTTCCCTCAGCTCTATCTTCCCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAAAAGTTATCATGTATGTGGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296603 356 +  34552619 GGCCCTACAAGAGTTAAAGGAGAACTCAGTC----ACGTTTATAGTCACAAGCAATCCTACCATATGTCACTTCACACAATGGTCCCAATATTGCTCCCAAGCTGAAAGACCATTTATTGACCATTCATTTCCATCCTGAGGTGACAGAATGGCTGCCAAGCCAAAGGGAATGGAGTA-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTCCATTTTACCTATTCCCTTCCCTCAGCTCTGTCTTCCCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATGTGGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602296 356 - 133663169 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCGTTCATTTCCATCTTGAGGTGACAGAATGGCTGCTAAGCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGTACTTGCATTTTACATATTTCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATATGGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109001861 356 - 137757926 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCGTTCATTTCCATCTTGAGGTGACAGAATGGCTGCTAAGCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTGCATTTTACATATTTCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATATGGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1379811 356 -   7948249 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCATTCATTTCCATCTTGAGGTGACAGAATGGCTGCTAAGCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTGCATTTTACATATTTCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATATGGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280351 356 -  10730278 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCATTCATTTCCATCTTGAGGTGACAGAATGGCTGCTAAGCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTGCATTTTACATATTCCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATGTGGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771342 356 - 128539186 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTCATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCATTCATTTCCATCTTGAGGGGACAGAATGGCTGCTAAGCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCCCTTGCATTTTACATATTCCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATGTGGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166577 347 +    435186 GGCCCTATAAGGGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACACAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCATTCATTTCCATCTTGAGGTGACAGAAT---------GCCAAAGGGAATGGAATG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTGCATTTTACATATTCCCTTCCCTCAGCTGTATCTTACCCAGATCATTTTCCACGTCCATCCAGAAATAATCAAGAAAAGTTATCACGTATGTGGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560437 356 +   9309688 GGCCCTATAAGAGTTAAAGGAGAACTCAGTC----GTGTTTATAGTCACAAGCAATCCTACCATGTGTCACTTCACGCAATGGTCCCAATACTGCTGCCAAGCTGAGAGATGATCTATTGACCATTCATTTTCATCCTGAGGTGACAGAACGGCTGCTAAGCCAAAGGGAATGGAACG-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTACCCTCCCACCACCCCTACTTGCTAAAGTAGTATCACCAGCACTTGCATTTTACATATTCCCTTCCCTCAGCTCTATCTTACCCAGATCATTTTCCACTTCCATCCAGAAATAATCAAGAATAGTTATCACGTATGTGGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392300 353 -  29834108 AGCCTTGTAAAAGTTAAAGGAGAACTCAATC----ATGTTTATAGC--CAAGCAATCCTACCACGTGTCACTTTACACGATGGTCCCAATATTGCTGCCAAGTTGAAAGACCATCTATTGGCCATTCACTTCCATCTTGAGGTGACAGAATGGCTGCCAAGCCAAAGGGAATGCAGTA-AAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTTATCCTCCCACCA-CACTACTTGCTAAAGTAGTATCACCAGCACTTGTGTTTTACATATTCCCTTCTCTCAGCTCTATCTTCCCCAGATCATCTTCGACTTGCATCCAGAAATAATCAAGAAAAGTTATCATGGATGTAGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       844881 353 -   1015025 GGCCCTATAAAAGTTAAAGGAGAACTCAATC----ATGTTTATAGC--CAGGCAATCCTACCATGTGTCACTTTACACGATGGTCCCAATATTGCTGCCCAGCTGAAAGACCATCTATTGGCCATTCACTTCCATCTTGAGGTGACAGAATGGCTGCCAAGCCAAAGGGAATGCAGTG-GAAAGAGCAAGTGAACCCATACAATGCCACCTTTTTCCTGTTATCCTCCCACCA-CCCTACTTGCTAAAGTGGTATCACCAGCACTTGCGTTTTACATATTCCCTTCTCTCAGCTCTATCTTCCCCAGATCATCTTCCACTTGCATCCAGAAATAATCAAGAAAGGTTATCATGGATGTAGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865060 353 -   2295209 GGCCCTATAAAAGTTAAAGGAGAACTTAATC----ATGTTTATAGT--CAAGCAATCCTACCACGTGTCACTTTACACAATGGTCCCAATATTGCTGCCAAGCTGAAAGACCATCTATTGGCCATTCACTTCCATCTTGAGGTGACAGAATGGCTGCCAAGCCAAAGGGAATGCAGTA-GAAAGAGCAAGTAAACCCATACAATGCCACCTTGTTCTTGTGATCCTCCCACCA-CCCTACTTGCTAAAGTAGTATCACCAGCACTTGCGTTTTTCATATTCCCTTCTCTCAGCTCTATCTTCCCCAGATCATCTTCCACTTGCATCCAGAGATAATCAAGAAAAGTTATCATGGATATAAT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2406637 295 - 149736546 GGCTCCATAG----TAAAGGAAGACCTAATTTCTAATGTTTTTAGTTACAAGCAATTCTATCATGAA--------------------------GCCTCTAAGTTTGTGGGTCATTTCCGTACCCAAGGTGTCCCTTCTGTGATGGCAGGATGGACACCAAACTAAAGAGG--GGCTGG-GGAAGGACTTGGGAGCCCACCCAAAGCCAGGCTA-------------------------ACTCGCTGCATCAGTAAAGTCAGAGACTCCACCTCACACA------CCTCTCAGCTCCATCTTCCCCA-ACCATTTTACATTTCTATCCAGAAATAGT-AAGAGAAGCCATCCTGTATGTGAT
i mm10.chr6                 I 73 C 0
s canFam3.chr27              19720109 346 +  45876710 AGCCCTCTAAGAGTTGAAGGAAGAACCAATG----GTGTGTCTAGTTACAAGCAATCTTACCGTGTGTCACTTCACATAGTCATCCTATCATGGCTGCCCAGGAGAGGGATCATCGTCTG---------TGTCATCCTATGGGGGTTAGGTAGCTGCCAAAGAGAAAGGAAGAGAGTGAGGAAAGGGGAGTAAACCCCCACCAAGCCACTATATTCTTGTCATCCTCCAGCCA-CCCCACTTGTTAAAGTAATATCACCGACACCTCCATGTTATATACCACTGTCTCCCAACTCTGTCTTCCCCAGATCATTTTCCCTTTCCATCCTGAAATAACCAAGAAAAG-TACCATGCATGTGAC
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4564430   0 -  12054995 C
e micMur3.chr21               3003137 221 +  31815103 I
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I
e dasNov3.JH562883             918723 1580 -   1687904 I

a score=970493.000000
s hg38.chr12_GL383549v1_alt     76167 101 +    120804 AGGTGAATGTCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCGAAAGCAAACCAGGTTG
s panTro5.chr12              62767754 101 + 137163284 AGGTGAATGTCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCGAAAGCAAACCAGGTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891560 101 + 135337776 AGGTGAATGTCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCGAAAGCAAACCAGGTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3106966 101 -  32808036 AGGTGAATGTCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCGAAAGCAAACCAGGTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7296959 126 +  34552619 AGGTGAACGTCTTTCTTCCTTTGTATATACAAAGTCAAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCGAAAGCAAACCAGGTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602652 101 - 133663169 AGGTGAACGGCTTTCTTCGTTTGCATATACAAAGTC-------------------------AAACAAAGGTTTGTAGGGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002217 101 - 137757926 AGGTGAACGGCTTTCTTCCTTTGCATATACAAAGTC-------------------------AAACAAAGGTTTGTAGGGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380167 101 -   7948249 AGGTGAACGGCTTTCTTCCTTTGCATATACAAAGTC-------------------------AAACAAAGGTTTGTAGGGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280707 101 -  10730278 AGGTGAACGGCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACGAAGGTTTGTAGGGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771698 101 - 128539186 AGGTGAACGGCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGCGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       166924 101 +    435186 AGGTGAACGGCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGGGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560793 101 +   9309688 AGGTGAATGGCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGTAGAGAGAAGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392653 102 -  29834108 AGGTGAACGGCTTTCGTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGCAGAGAGAGGCTAAACAAAGTTT----ACCAAACCTTTTCAAAAGCAAACCAGGCTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845234 102 -   1015025 AGGTGAACGGCTTTCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTTCAGAGAGAGGCTAAACAAAGTTT----ACCAAACCTTTTCAAAAGCAAACCAGGCTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865413 101 -   2295209 AGGTGAACGGCTTCCTTCCTTTGTATATACAAAGTC-------------------------AAACAAAGGTTTGCAGAGAGAGGCTAAACAAAGTTT----A-CAAACCTTTTCAAAAGCAAACCAGGCTG
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2406932  77 - 149736546 AGATAAATGACTCAAGGCCTTTGCACACACAGAGAT-------------------------CA--------TTATATC----------------TTT----A-CAAACCTTTCAGAGAAAGAACAAAGGTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19720455  80 +  45876710 AGCTAAATGACTTAACTCCTTTGTGTATATAAAGTC------------------------------------------------CTATGTGTGGCCTCTGCA-CAAACCTTTTCG--AGCAAACCAGATTG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             920303  69 -   1687904 AGGTGGTTGACTTTATCCCTTCGTGTACACGAAGTC-----------------------------------CTGTC------------------TTT----A-CACACCTTTGCA--AGCCTACCAGGT--
i dasNov3.JH562883          I 1580 C 0
e otoGar3.GL873576            4564430   0 -  12054995 C
e micMur3.chr21               3003137 221 +  31815103 I
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I

a score=544594.000000
s hg38.chr12_GL383549v1_alt     76268 51 +    120804 AGAGGATGGTAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
s panTro5.chr12              62767855 51 + 137163284 AGAGGATGGTAGAGGGAAAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891661 51 + 135337776 AGAGGATGGTAGAGGGAAAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107067 51 -  32808036 AGAGGATGGTAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297085 51 +  34552619 AGAGGATGGTAGAGGGAGAGAAAGCACGGCATCTGCTACCCTGAGGGACCG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602753 51 - 133663169 AGAGGATGAGAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002318 51 - 137757926 AGAGGATGAGAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380268 51 -   7948249 AGAGGATGAGAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280808 51 -  10730278 AGAGGATGGGAGAGGGCGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771799 51 - 128539186 AGAGGATGGGAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167025 51 +    435186 AGAGGATGGGAGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560894 51 +   9309688 AGAGGATGGGAGAGGGAGAGAAAGCATGGTATCTGCTACCCAGAGGGACAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392755 51 -  29834108 AGAGGATGGTGGAGGGAAAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845336 51 -   1015025 AGAGGATGGTGGAGGGAGAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865514 51 -   2295209 AGAGGATGGTGGAGGGAAAGAAAGCATGGCATCTGCTACCCAGAGGGACCG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4564430 49 -  12054995 -aGAGATGGCAGAGAGGGAGAAAGGAC-ACATCTGTAGCTCAGAGAGATCA
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2407009 47 - 149736546 -GGGGTTGGCAAAGGAAGAAAAAGT---GGAAGTGGGACCCAGAAGGATCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19720535 48 +  45876710 -GGGGTGGGTAAAGAGACAAAACG-ATGGGAGCTGAGACT-GGAGGGATCA
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             920372 46 -   1687904 ATGGGGTGGCAGATG---ACAAAGGATGGA--CGGAGACCCCAAGGGGTTG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3003137 221 +  31815103 I
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I

a score=176367.000000
s hg38.chr12_GL383549v1_alt     76319 16 +    120804 AGGAGCAAAGTCTTCA
s panTro5.chr12              62767906 16 + 137163284 AGGAgcaaagtcttca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891712 16 + 135337776 AGGAgcaaagtcttca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107118 16 -  32808036 AGGAgcaaagtcttca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297136 16 +  34552619 AGGAGCAAAGTCTTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602804 16 - 133663169 AGGAgcaaagtctttg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002369 16 - 137757926 AGGAGCAAAGTCTTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380319 16 -   7948249 AGGAgcaaagtctttg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280859 16 -  10730278 AGGAgcaaagtctttg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771850 16 - 128539186 AGCAGCAAAGTCTTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167076 16 +    435186 AGGAgcaaagtctttg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560945 16 +   9309688 AGGAgcaaagtctttg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392806 16 -  29834108 AGGCGCAAAGTCTTCG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845387 16 -   1015025 AGGTgcaaagtcttct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865565 14 -   2295209 AGGCGC--agtcttca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3003358 16 +  31815103 AGGAgcagagtcttct
i micMur3.chr21             I 221 C 0
s otoGar3.GL873576            4564480 16 -  12054995 GGGAGCAGAGCCTTCT
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2407056 14 - 149736546 --GGGCACCGTCATCG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19720584 16 +  45876710 GGGAGAGGGGTCATCA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             920418 15 -   1687904 -GGATCGGGGTCTTCG
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5093853 139 +  13104022 I

a score=6399925.000000
s hg38.chr12_GL383549v1_alt     76335 422 +    120804 CTGGCAATTCTGGAGCTGAAACAGGGCAGCTGACATGAGGACAAA---TCATCAAATAAGCTCCCCAATTCACAATGTGGCTCACAGATGGG-TTTCAATAACAAGGCTAAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCTTGGTGACTAAGTGCTAAGCTCTTAAAATTGTTGTTCAA------------TTTTTTTC-------------CCACCATCCCTCTATATTTTAGTTTCCTGGGGTAAATCCCTGCTCTAGTTACTTTTCTGGGGGAAAGTCTGGCTTATCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGTTCTGTAAGTGTTCCAACAAAATACGCTACCATAAACAGCAGAGTTAATTAAGCGCCCACCCCAGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCACTAGCAGTCT
s panTro5.chr12              62767922 422 + 137163284 ctggcaattctgaagctgaaacagggcagctgacatgaggacaaa---tcatcaaataagctccccgattcacaatgtggctcacagatggg-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcttggtgactaagtgctaagctcttaaaattgttgttcaa------------tttttttc-------------ccaccatccctctatattttagtttcctggggtaaatccctgccctagttacttttctgGGGGAAAGTCTGGCTTATCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCtggttctgtaagtgttccaacaaaatacactaccataaacagcagagttaattaagtgcccaccccagaagtctaggggtatggcccaaagcagctc---tcactagcagtct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60891728 422 + 135337776 ctggcaattctgaagctgaaacagggcagctgacatgaggacaaa---tcatcaaataagctccccgattcacaatgtggctcacagatggg-ttttaataacaaggctaagccatctggtggcttcctattttagctaattattcttggtgactaagtgctaagctcttaaaattgttgttcaa------------tttctttc-------------ccaccatccctctatattttagtttcctggggtaaatccctgccctagttacttttctgGGGGAAAGTCTGGCTTATCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCtggttctgtaagtgttccaacaaaatacactaccataaacagcagagttaattaagtgcccaccccagaagtctaggggtatggcccaaagcagctc---tcactagcagtct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107134 422 -  32808036 ctggcaattctggagctgaaacagggcagctgacatgaggacaaa---tcatcaaataagctccccaattcacaatgtggctcacagatggg-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcttggtgactaagtgctaagctcttaaaattgttgttcaa------------tttttttc-------------ccaccgtccctctatattttagtttcctggggtaaatccctgccctagttacttttctgGGGGAAAGTCTGGCTTATCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGTTCTGTAAGCGTTCCAACAAAATACACTACCATAAACagcagagttaattaagcgcccaccccggaagtctaggggtatggcccaaagcagctc---tcactagcaatct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297152 427 +  34552619 CTGGCAATTCTGGAGCTGAAACAGGGCAGCTGACATGAGGACAAATCTTCATCAAATAAGCTCCCCAATTCATAATGTGGCTCACAGATGGT-TTTTAATAACAAGGCTAAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCTTGGTGACTAAGTGCTAAGCTCTTAAAATCGTTGTTCAA------------TTTTTTTT-----------TGCTACCCTCCCTCTATATTTTTGTTTCCTGGGGTAAATCCCTGCCCTAGTTACTTTTCTGGGGGAAAGTCTGGCTTATCTACTATTCTTAGCAGAAGAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGTTCTGTAAGTGTTCCAACAAAATACACTACCATAAACAGCAGAGTTAATTAAGCGCCCACCCCGGAAGTCTAGGGGTATGGCCCAAAGCATCTC---TCACTAGCAGTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104602820 420 - 133663169 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttcctccaatcagctccccaattcgtaatgtggctcacagatgga-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcctggtgactaagtgctaagcttttaaaatcgttgttcaa------------tttttttt------------gcctccctccctctatatttttgtttcctggggtaaatccctgccctagttac------agGGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGCTCTGTAAGTGTTCCAACAAAATACACtaccgtaaacagcagagttcatgaagcgcctaccccggaagtctaggggtatggcccaaagcagctc---tCATTAGCagtct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002385 420 - 137757926 CTGGCAATTCTGGAGCTGAAACAGGGCAGCTGACATGAGGACAAATCTTCCTCCAATCAGCTCCCCAATTCGTAATGTGGCTCACAGATGGA-TTTTAATAACAAGGCTAAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCCTGGTGACTAAGTGCTAAGCTTTTAAAATCGTTGTTCAA------------TTTTTTTT------------GCCTCCCTCCCTCTATATTTTTGTTTCCTGGGGTAAATCCCTGCCCTAGTTAC------AGGGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGCTCTGTAAGTGTTCCAACAAAATACACTACCGTAAACAGCAGAGTTCATGAAGCGCCTACCCCGGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCATTAGCAGTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380335 420 -   7948249 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttcctccaatcagctccccaattcgtaatgtggctcacagatgga-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcctggtgactaagtgctaagcttttaaaatcgttgttcaa------------tttttttt------------gcctccctccctctatatttttgtttcctggggtaaatccctgccctagttac------agGGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGCTCTGTAAGTGTTCCAACAAAATACACTACCGTAGACAGCAGAGTTCATGAAGCGCCTACCCCGGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCATTAGCagtct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8280875 420 -  10730278 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttcctccaatcagctccccaattcgtaatgtggctcacagatgga-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcctggtgactaagtgctaagcttttaaaatcgttgttcaa------------tttttttt------------gcctccctccctctatatttttgtttcctggggtaaatccctgccctagttac------ggGGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGCTCTGTAAGTGTTCCAACAAAATACACtaccgtaaacagcagagttcatgaagcgcctaccccggaagtctaggggtatggcccaaagcagctc---tCATTAGCagtct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100771866 420 - 128539186 CTGGCAATTCTGGAGCTGAAACAGGGCAGCTGACATGAGGACAAATCTTCCTCCAATCAGCTCCCCAATTCGTAATGTGGCTCACAGATGGA-TTTTAATAACAAGGCTAAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCCTGGTGACTAAGTGCTAAGCTTTTAAAATCGTTGTTCAA------------TTTTTTTT------------GCCTCCCTCCCTCTATATTTTTGTTTCCTGGGGTAAATCCCTGCCCTAGTTAC------GGGGGAAAGTCTGGCTTATCTACTATTCTTAGTGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCTGGCTCTGTAAGTGTTCCAACAAAATACACtaccgtaaacagcagagttcatgaagcgcctaccccggaagtttaggggtatggcccaaagcagctc---tcattagcagtct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167092 420 +    435186 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttcctccaatcagctccccaattcgtaatgtggctcacagatgga-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcctggtgactaagtgctaagcttttaaaatcgttgttcaa------------tttttttt------------gcctccctccctctatatttttgtttcctggggtaaatccctgccctagttat------ggGGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTTTGGCTCTGTAAGTGTTCCAACAAAATACACTACCGTAAACAGCAGAGTTCATGAAGCGCCTACCCCGGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCATTAGCagtct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3560961 421 +   9309688 ctggcaattctggagctgaaacaaggcagctgacatgaggacaaatcttcctccagtcagctccccaattcgtaatgtggctcacagatgga-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcctgatgactaaatgctaagcttttaaaatcgttgttcaa----------tttttttttt------------gcctccctccctctatatttttgtttcctggggtaaatccctgccctagttac-------ggGGAAAGTCTGGCTTATCTACTATTCTTAGCGGAAAAGCC-----------CCT-------------CAA---TACTTACTTTAGCACTCCGGCTCTGTAAGTGTTCCAACAAAATACACTACCGTAAACAGCAGAGTTCATGAAGCGCCTACCCCGGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCATTAGCagtct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11392822 426 -  29834108 CTGGCAATTCTGGAGCTGAAACAGGGCAGCTGACATGAGGGCAAATCTCCCTCCAATAAGCTCCCCAATTCCTAATGTGGCTCACAGATGGG-TTTTAATAACAAGGCTAAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCTTGGTGACTAAGTGCTAAGCTTTTAAAATCATTGTTCAA------------CTTTTTTT------------GCCACCCTCCCTCTATATTTTTGTTTCCTGGGGTAAATCCCTGCCCTAGTTACTTTTCTGGGGGAAAGCCTGGCTTATCCACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTGCGTTAGCACTCCTATTCTGTAAGTGTTCCAACAAAACACACTGCCATAAACAGCAGAGTTGATTAAGTGCCTACCCCGGAAGTCTGGGGGTATGGCCCAAAGCAGCTG---TCACTAGCAGTCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845403 417 -   1015025 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttcctccaataagctccccaattcataatgtggctcacagatggg-ttttaataacaaggctaagccatctggtagcttcctattttagctaattattcttggtgactaagtgctaagcttttaaaatcgttgttcaa------------cttttttt------------gccaccctccctctatatttttgtttcctggggtaaatccctgccctagttacttttctgGGGGAAAGCCTGGCTTATCCACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTGCGTTAGCACTCTGGTTCTGTAAGTGTTCCAACAAAATAC---------AACAGCAGAGTTGATTAAGTGCCTACCCCAGAAGTCTAGGGATATGGCCCAAAGTAGCTC---TCACTAGCagtct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1865579 425 -   2295209 ctggcaattctggagctgaaacagggcagctgacatgaggacaaatcttccttcaataagctccccaattcataatgtggctcacagatggg-ttttaataacaaggcgaagccatctggtagcttcctattttagctaattattcttggtgactaagtgctaagcttttaaaatcattgttcaa------------cttttttt------------gccaccctccctctttatttttgtttcctggggtaaatccctgccctagttacttttctgGGGGAAAGCCTGGCTTATCCACTCTTCTTAGCAGAAAAGCC-----------CCT-------------CAA---TACTTGCATTAGCACTCTGATTCCGTAAGTGTTCCAACAAAATACACTGCCATAAACAGCAGAGTTGATTAAGTGCCTACCCCGGAAGTCTAGGGGTATGGCCCAAAGCAGCTC---TCACTA-CAGTCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3003374 438 +  31815103 ctgccaattctggagctggaacagagcagctgacataaggacaaagcttcctccaataagctccccaattcataatgtggctcacagatggacttttaataataaggccgagccatctggtagcttcctattttagctaattattcttggtaagtaagtgctaagcttttaaaatcattgttcaatttttttttttttttttttt------------gccaccttccctccatattttggtttcctggggtaaatccctgccctacttactgttc-tgAGGAACGCCTGGCTTGTCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---AGCTTCCAGTAGCACTCtgattctctaagttttccaccaaaataaactaccctaaacaggagagttaattaaatgtatcccctagtattctagggttgtggtccaaagcagctc---tcatgagcagtct
i micMur3.chr21             C 0 I 434
s proCoq1.NW_012140524v1      5093992 425 +  13104022 ctggcaattctgaagctggaacagagcagctgacataaggacaaagcttcatccaataagctccccaattcataatgtggctcacagatggg-ttttaataataaagctgagccatctggtagcttcctattttagctaattattcttggtaagtaagtgctaagcttttaaaatcatcgttcaa------------tttttttt------------gccaccttccctccatattttggtttcctggggtaaatccctaccctacttactgttc-tgAGGAATGCTTGGCTTGTCTACTATTCTTAGCAGAAAAGCC-----------CCT-------------CAA---AGCTTCCATTAGCATTCtggttctctaagttttccaccaaaatacactaccctaaacaggagagttaagtaagtgcatatcccaggcttctagggttgtgtcccaaagcagctc---tcactagcagtct
i proCoq1.NW_012140524v1    I 139 I 2
s otoGar3.GL873576            4564496 425 -  12054995 CTGGCAATTCTGGAGTTGGAACAGAGCAGCTGACATAAGGACAAAGCTCCCTCCAATAAGCTCCCCAATTCATAATGTGGCTCACAGATGGG-TTTTAATAATAAGGCTCAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCTTGGTAAGTAAGTGCTAAGCTTTTAAAATCATTGTTCGA------------TTTTTTTT------------GCCACCTTCCCTCCATATTTTGGTTTCCTGTGGTAAATccttgccctactttcttttc-tgaggaaagcctggcttgtctactcttcttagcagaaaagcc-----------cct-------------caa---aGCTTCCATTAGCATTCtggttctctaaattttccaccaaaacactctaccctaaacagcagagttaattaagtgcataccccaggattctagggctgttgcccaaaacagctc---tcactagcAGTCT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407070 450 - 149736546 CTGGTCGTTCTGGATTTGGAACAGAGCAGCTGAAGTGA-CACAAAGC-TCCTCAAATAAGCTCTCCGGCTGGAAATGTGGCTCACAGATGGG-TTTTAATAGCAAGCCTGAGCCATCTGGTAGCATCCTATTTTAGCTAATTATTCTTGGTAAGTAAGTGCTAAGCCTTTAAAATCATTGTTCAA------------TTTTGTTTTGCTTTGTTTCTACCACCCTGCCTCTATATTTTGATTTCCTGGGGTAAATCCCTGCCCCCGTTACTTCTC-CAGGGAAAGCCTATCATGCCTTCTATTCTGAGCAGAAAAGCCCCCTCCACAAACCT-------------CAAGACTGCTTCCATTAGCTCTCTGATGCTCTGTGTTTTCCACC--AATGAACTATCCAAAACAACAGAGCTAATTAAGTGCATTCCCTGGTTATCCAGGGCTGCGGTCTTGGGCAGCTCAAAGCTCAAACTGGCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19720600 437 +  45876710 CTGGCACTTCTACAGTTGGAGCAGGGCAGCTGACATGAGGCCAAAGTTCCCTCAAACAA----CCCAATTTATAACGTAGCTCACAGGTGGG-TTTTAATAACAAGGCTGAGCCATCTGGTAGCTTCCTATTTTAGCTAATTATTCATGGTAAGTAAGTGCTAAGCttttaaaattattgtttaa------------tttttttt---------tCTGTCACCCTCCCTCTATATTTTGGTTTCCTGGGGTAAATCCCTGTCCTAGTTACTTTTC-TGGGGAAAGCTGGGCTTGCTTACTATTCTTAGCAGAAAAGCC-----------CCTAAGGAAACCTCAAAAA---TGTTTTTTTTAGCACTCTGATTCTCTAAATTTTCCATCAAAATATACTACCCTAAATAGCAGAGCTAATTAAGCATATATCCCAAGGGCCTAGGGTTGTAGCCTAAAGCAGCTC---TCACTAGCAATCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             920433 404 -   1687904 CTGGCAGCTGTGGGGTAGGAGCAGGGTGG------------------------------------CAGCTCATAGTGTGACTCCCTGCTGGG-TTTTGATAGCCAGGCTGTGCCATCTGGTAGCCTCCCAGTTTAACTAGTTATTCTTGGTAAGTAAGTGCTAAGCTCTTAAAATCATTGtttaa----atttaatttttttttt------------GCCACCCTCCCTCTATATTTTGGTTTTCCAGAGTGATTCCCTGTCCTGCTTATTTTC--TGGGGAAAACCTGGCTGGCCTACTAATCTTAGCAAGAAAGCG-----------CCCAGGGAAACCTCAAAAA---TGCTTCCTTTAACACTCTGCTTCTCTACGTTTTCCACAGAAAAACTCCATCCTAAACCCCAGGGGTT----CGTGCACACCCCAGGA-TCCGGGGCTGTCGCCCAAAGCAGTTC---CCCTTAGCAGGTT
i dasNov3.JH562883          C 0 C 0

a score=731046.000000
s hg38.chr12_GL383549v1_alt     76757 72 +    120804 TGTATGAGACCTTAACATTTCACATCAGGTTtga-ttttt-----gccttcttattatatatgtgccttatttgaata
s panTro5.chr12              62768344 72 + 137163284 tgtattagaccttaacatttcacaccaggtttga-ttttt-----gccttcttattatatatgtgccttatttgaata
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892150 72 + 135337776 tgtattagaccttaacatttcacaccaggtttga-ttttt-----gccttcttattatatatgtgccttatttgaata
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107556 72 -  32808036 tgtattagaccttaacatttcacaccaggtttga-ttttt-----gccttcttattacatatgtgccttatttgaata
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297579 71 +  34552619 TGTATTAGACCTTAACATTTCACACCAGGTTTGC-TTTTT-----GCCTTCTTATT-TATATGTGCCTTATTTGAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603240 72 - 133663169 tgtattagaccttaaaatttcacaccaggtttgc-ttttt-----gccttcttattatatatgtgaattatttgaatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002805 72 - 137757926 TGTATTAGACCTTAAAATTTCACACCAGGTTTGC-TTTTT-----GCCTTCTTATTATATATGTGAATTATTTGAATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380755 72 -   7948249 tgtattagaccttaacatttcacaccaggtttgc-ttttt-----gccttcttattatatatgtgaattatttgaatg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281295 72 -  10730278 tgtattacaccttaaaatttcacaccaggtttgc-ttttt-----gccttcttattatatatgtgaattatttgaatg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772286 72 - 128539186 tgtattagaccttaaaatttcacaccaggtttgc-ttttt-----gccttcttattatatatgtgccttatttgaata
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167512 72 +    435186 tgtattagaccttaaaatttcacaccaggtttgc-ttttt-----gtcttcttattatatatgtgaattatttgaatg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561382 73 +   9309688 tgtattagaccttaaaatttcacaccaggtttgctttttt-----gccttcttattatatatgtgccttatttgaata
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393248 71 -  29834108 TGTATTATACCTTAAAATTTC-CACCAGGTTTGC-CTATT-----GCCTTCTTGTTCTCTATGTGTCTTATTTGAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845820 71 -   1015025 tttattataccttaaaatttc-taccgggtttgc-ctatt-----gccttcttattctatatgtgtcttatttgaata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866004 68 -   2295209 TGTATTATA-CTTAAAATTTC-CACCAGGTTTGC-CTTTT-----GCCTTCTTATTC--TATGTGTCTTATTTGAATA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5094419 72 +  13104022 tgtactataacttaaaattttacaccaagttttc-ttttt-----gccctcttattatatcgatgcctcatttaaatg
i proCoq1.NW_012140524v1    I 2 C 0
s otoGar3.GL873576            4564921 67 -  12054995 TGTACTATGCCTCACAATTTCAC-----GTTTTC-TTTTT-----GTCCCCTTACTATATAGATGCCTCAATTAAATG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407520 63 - 149736546 -------TACACTAAAATGTCTCACCA--TTTGC-TCTGT-----GCTAGCTCACTACATAGGTGTCTTATTAGATGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721037 77 +  45876710 AACACTACACCTTAAAATTTCACACCATGCTTGC-TTCTTTACCCACCCACCCTTTATTTAGATGCCTTTTGGGAATA
i canFam3.chr27             C 0 I 198
s dasNov3.JH562883             920837 67 -   1687904 TGTTCTCTACCGAGAAAGTCCACGCCGAGTCTGC-TTTTC-----TCCTTCCCA---CACCCGGGCCTCCCTTTCA--
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3003812 434 +  31815103 I

a score=624141.000000
s hg38.chr12_GL383549v1_alt     76829 50 +    120804 t----gaaaaatgattcaattatca-------------------------------ttgagtaaaattga--------------------atctccaggaagatg
s panTro5.chr12              62768416 50 + 137163284 t----gaaaaatgattcaattatca-------------------------------ttgagtaaaattga--------------------atctccaggaagatg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892222 50 + 135337776 t----gaaaaatgatTCAATTATCA-------------------------------TTGAGTAAAATTGA--------------------ATCTCCAGGAAGATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107628 50 -  32808036 t----gaaaaatgatTCAATTATCA-------------------------------TTGAGTAAAATTGA--------------------ATCTCCAGGAAGATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297650 50 +  34552619 T----GAAAAATGATTCAATTATCA-------------------------------TTGAGTAAAATTGA--------------------ATCTCCAGGAAGATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603312 50 - 133663169 t----gaaaaatgattcaattatga-------------------------------ttgaggaaaattga--------------------atctccaggaagatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002877 50 - 137757926 T----GAAAAATGATTCAATTATGA-------------------------------TTGAGGAAAATTGA--------------------ATCTCCAGGAAGATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380827 50 -   7948249 t----gaaaaatgattcaattatca-------------------------------ttgaggaaaattga--------------------atctccaggaagatg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281367 50 -  10730278 t----gaaaaatgattcaattatca-------------------------------ttgaggaaaattga--------------------atctccaggaagatg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772358 50 - 128539186 t----gaaaaatgattcaattatca-------------------------------ttgaggaaaattga--------------------atctccaggaagatg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167584 50 +    435186 t----gaaaaatgattccattatca-------------------------------ttgaggaaaattga--------------------atctccaggaagatg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561455 50 +   9309688 t----gaaaaatgattcaattatca-------------------------------ttgaggaaaattga--------------------agctccaggaagatg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393319 50 -  29834108 T----GAAAAATGATTCAACTATCA-------------------------------TTGAGTAAAATTGA--------------------ACCTCCAGGAAGATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845891 50 -   1015025 t----gaaaaatgattcaattatca-------------------------------ttgagtaaaattga--------------------atctgcaggaagatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866072 50 -   2295209 T----GAAAAATGATTCAATTATCA-------------------------------TTGAGTAAAATTGA--------------------ATCTCCAGGAAGATG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5094491 52 +  13104022 taaaaaaaaaaaaattcaattacca-------------------------------ttgagtcaaat--g--------------------gtctccaggaagatg
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4564988 85 -  12054995 TTAAAAAAAAATCATTCAATTATCAAAAAAAAAATCATTCAGTCATTGATTTatcgttgagtaaaaccaa--------------------gtctccaggaagatg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407583 50 - 149736546 A----AATAGAGGGTTCAGCTGTCC-------------------------------TTGAATAAAACTGA--------------------ATATCAATAAAGATG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721312 70 +  45876710 T----AAAAAATGACTCAATTATCA-------------------------------TTGAGTAAAATTGAAGATATTTCTTCCCAGATATATCTCTGGGAAGATA
i canFam3.chr27             I 198 C 0
s dasNov3.JH562883             920904 50 -   1687904 T----GTAACAGGGGTTAGTGACCG-------------------------------CGGAGGAAAAGCGG--------------------ATCTCCAGGGAGGTG
i dasNov3.JH562883          C 0 I 2476
e micMur3.chr21               3003812 434 +  31815103 I

a score=290129.000000
s hg38.chr12_GL383549v1_alt     76879 24 +    120804 catcaAATTATGATGTGTCATTTT
s panTro5.chr12              62768466 24 + 137163284 catcaAATTATGATGTGTCATTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892272 24 + 135337776 CATCAAATTATGATGTGTCATTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107678 24 -  32808036 CATCAAATTATGATGTGTCATTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297700 24 +  34552619 CATCAAATTATGATGTGTCATTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603362 24 - 133663169 catcaAATTATGATGTGTCATTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002927 24 - 137757926 CATCAAATTATGATGTGTCATTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380877 24 -   7948249 cctcaAATTATGATGTGTCATTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281417 24 -  10730278 catcaAATTATGATGTGTCATTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772408 24 - 128539186 catcaAATTATGATGTGTCATTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167634 24 +    435186 catcaAATTATGATGTGTCATTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561505 24 +   9309688 catcaAATTATGATGTGTCATTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393369 24 -  29834108 CATTAAATTATCACATGTCATTCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845941 24 -   1015025 catcaAATTATCACATGTCATTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866122 24 -   2295209 CATCAAATTATCACGTGTCATTCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5094543 24 +  13104022 catcaaattatcatgtgCCATTTT
i proCoq1.NW_012140524v1    C 0 I 208
s otoGar3.GL873576            4565073 24 -  12054995 catcagattatcatgtgCCATTTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407633 24 - 149736546 TACCAAATCATCATGTGCCATTGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721382 24 +  45876710 TATCAAATTGTTCTGTGACATTAT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3003812 434 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=1950798.000000
s hg38.chr12_GL383549v1_alt     76903 188 +    120804 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ACTAAGG-AAAAAGATTTCAGGAATGTAGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGGATCTACGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACTG
s panTro5.chr12              62768490 188 + 137163284 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGATTTCAGGAATGTAGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGGATCTACGAAGCAGCCTAAAACTGAAAAACATCATTGCTAAATTAGACTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892296 188 + 135337776 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGATTTCAGGAATGTAGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGGATCTACGAAGCAGCCTAAAACTGAAAAACATCATTGCTAAATTAGACTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107702 188 -  32808036 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGATTTCAGGAATGTAGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGGATCTACGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTTGACTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297724 188 +  34552619 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGATTTCAGGAATGTAGAGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGCTAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTACGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603386 188 - 133663169 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTCATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109002951 188 - 137757926 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1380901 188 -   7948249 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGTAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281441 188 -  10730278 ATACCATTTG---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGTAGCCTAAAACTGAAAAACATCATTAGTAAATTAGACCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772432 188 - 128539186 ATAGCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTCTGAAGTAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167658 188 +    435186 ATACCATTTG---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCCGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGTAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561529 188 +   9309688 ATACCATTTA---TGAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGAATGTGGGGAATAACAGAAGAGAGCAGCCCTTGTTAGGTGCTGATAA------------GTAGATAAGTGAATTCCTGAAGAAATAATTACTGTATCTATGAAGCAGCCTAAAACTGAAAAACATCATTGATAAATTAGACCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393393 189 -  29834108 ACACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGGAAAAAAGACTTTAGGTATGTAGGGAATAATGGAAGAGAGAGGCCCTTGTTAGGGGCTGATAA------------ACAGTTACATGAATTCCTGAAGAAATAATGACCACATCTATGAAGCAACCTAGAACTGAAAAACATCATTGGTAAATTAGACCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       845965 188 -   1015025 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGGATGTAGGGAATAATGGAAGAGAGAGGCCCTTGTTAGGTGTTTATAA------------ATAGGTACATGAATTCCTGAAGAAATAATGACCGTATCTATGAAGCAACCTAAACCTGAAAAACATCATTGGTAAATTAGACCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866146 188 -   2295209 ATACCATTTA---TAAAGCTGTCACATTGAAAAAGTGGA--------ATTAAGG-AAAAAGACTTTAGGGAAGTAGGGAATAATGGAAGAGAGAGGCCCTTGTTAGGTGCTGATAA------------ACAGATACGTGAATTCCTGAAGAAATAATGACCATATCTATGAAGCAGCCTAAAACTGAAAAACATCATTGGTAAATTAGACCA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565097 198 -  12054995 GGATCGTTCATAGTAACATTGCAACATTGAAAAAGTAGA--------ACTAAAT-TAAAAGACTTTAGGGATGGAGGGAATAA---GAGAGAG-ACCCCTGGTTAGGTGCTGGCAGTGGGAAAAAAATATAGGTAAGTGAATTCCTGCAGAAGTAATGGAGTTATCTAAGAAGCAGCTTAGAGCAGGAAAAC-CCACGAAGAAACAATACTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407657 196 - 149736546 ATATCCTTCA---GAGCATGGTCATGCTAAAAAAAAAAAAAAAGATGATTAAGG-AAATATG-TTTAGGAACATAAGGGGCAGCAGGAGAGAAAGACCCTGGTCAGATGGTAGCAATGGAGAAGA---GCAACAACATGAGTCCAGGAAGAGATGGGTA--------AAGAAGCAACCCAGACCCAAGTCACATGGCTGAGAGATGAGGgca
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721406 197 +  45876710 ACACCATTCG---GAACATTGCCACACTGCAACAGCAC---------ATTATGG-TAAATGAGTTTAAAAACGTAGGGAATAACAGAAGAGAG--GTCTTGGTCAGGTGGTGGCAATGGAAACAGAAAGTAGATATGTGAATCCCTGAAGAAACAATGAAGGTATCTAGAAAACAGCCTAGAACTGAGAAACATCACTGGGAAATTATATCC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3003812 434 +  31815103 I
e proCoq1.NW_012140524v1      5094567 208 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=353783.000000
s hg38.chr12_GL383549v1_alt     77091 28 +    120804 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
s panTro5.chr12              62768678 28 + 137163284 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892484 28 + 135337776 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107890 28 -  32808036 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297912 28 +  34552619 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603574 28 - 133663169 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003139 28 - 137757926 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381089 28 -   7948249 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281629 28 -  10730278 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772620 28 - 128539186 GCCA-GAGGCCTTGGCCCCTAAGACTTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167846 28 +    435186 GCCA-GAGGCCTTGGTCCCTAAGGCTTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561717 28 +   9309688 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393582 28 -  29834108 GACA-GAGGCCTTGGCCCCTAAGGCTTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846153 28 -   1015025 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866334 28 -   2295209 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5094775 28 +  13104022 GCCA-GAGGCCTTGGCCCCTAAGGCTTCA
i proCoq1.NW_012140524v1    I 208 I 40
s otoGar3.GL873576            4565295 28 -  12054995 -CCATGAGCCCTCGATCCCGAGGGCTGCA
i otoGar3.GL873576          C 0 I 24
s mm10.chr6                   2407853 27 - 149736546 gcct-gcagcct-gcagcctgcagcctCA
i mm10.chr6                 C 0 I 12
s canFam3.chr27              19721603 26 +  45876710 ACCT-GAGGTCTTGGCCTC--AGCCCTCG
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3003812 434 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=60944.000000
s hg38.chr12_GL383549v1_alt     77119 14 +    120804 -TTCA---ACCTTAG-GGA
s panTro5.chr12              62768706 14 + 137163284 -TTCA---ACCTTAG-GGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892512 14 + 135337776 -TTCA---ACCTTAG-GGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107918 14 -  32808036 -TTCA---ACCTTAG-GGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297940 14 +  34552619 -TTCA---ACCTTAG-GGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603602 14 - 133663169 -TTCA---ACCTTAG-GGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003167 14 - 137757926 -TTCA---ACCTTAG-GGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381117 14 -   7948249 -TTCA---ACCTTAG-GGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281657 14 -  10730278 -TTCA---ACCTTAG-GGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772648 14 - 128539186 -TTCA---ACCTTAG-GGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167874 14 +    435186 -TTCA---ACCTTAG-GGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561745 14 +   9309688 -TTCA---ACCTTAG-GGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393610 10 -  29834108 -C-------CCTTAG-GGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846181 11 -   1015025 -T-------CCTTAACGGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866362 10 -   2295209 -C-------CCTTAG-GGT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2407892 13 - 149736546 -TCTA---ACTCAAG-AG-
i mm10.chr6                 I 12 C 0
s canFam3.chr27              19721629 15 +  45876710 CTCCATAGATCTTGG----
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4565323 24 -  12054995 I
e micMur3.chr21               3003812 434 +  31815103 I
e proCoq1.NW_012140524v1      5094803 40 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=136299.000000
s hg38.chr12_GL383549v1_alt     77133 14 +    120804 TGACCTTCATCTGC
s panTro5.chr12              62768720 14 + 137163284 TGACCTTCATCCGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892526 14 + 135337776 TGACCTTCATCCGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107932 14 -  32808036 TGACCTTCATCCGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297954 14 +  34552619 TGACCTTCATCCAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603616 14 - 133663169 TGACCTTCATCCAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003181 14 - 137757926 TGACCTTCATCCAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381131 14 -   7948249 TGACCTTCATCCAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281671 14 -  10730278 TGACCTTCATCCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772662 14 - 128539186 TGACCTTCATCCAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167888 14 +    435186 TGACCTTCATCCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561759 14 +   9309688 TGACCTTTATCCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393620 14 -  29834108 TGACCTTTAGCTGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846192 14 -   1015025 TGACCTTTACCTGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866372 14 -   2295209 TGACCTTTATCTGC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565347 14 -  12054995 TGATCCTCATCCAT
i otoGar3.GL873576          I 24 C 0
s mm10.chr6                   2407905 12 - 149736546 --TACTTCACTCTC
i mm10.chr6                 C 0 I 5
s canFam3.chr27              19721644 11 +  45876710 ---CATTCATCCCT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3003812 434 +  31815103 I
e proCoq1.NW_012140524v1      5094803 40 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=15561.000000
s hg38.chr12_GL383549v1_alt     77147 1 +    120804 T
s panTro5.chr12              62768734 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892540 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107946 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297968 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603630 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003195 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381145 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281685 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772676 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167902 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561773 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393634 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846206 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866386 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3004246 1 +  31815103 T
i micMur3.chr21             I 434 C 0
s otoGar3.GL873576            4565361 1 -  12054995 T
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407922 1 - 149736546 T
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19721655 1 +  45876710 T
i canFam3.chr27             C 0 C 0
e proCoq1.NW_012140524v1      5094803 40 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=628251.000000
s hg38.chr12_GL383549v1_alt     77148 55 +    120804 CCCAGCCCCAGACCCT--G-----AGAGCCACCACTTGGGGCCAACCTGTTTCCTCAGTCCA
s panTro5.chr12              62768735 55 + 137163284 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTTGGGGCCAACCTGTTTCCTCAGTCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892541 55 + 135337776 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTTGGGGCCAACCTGTTTCCTCAGTCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3107947 55 -  32808036 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTTGGGGCCAACCTGTTTCCTCAGTCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7297969 55 +  34552619 CCCAGCCCCAGGTCCT--G-----AGAGCCACCACTTGGGGCCAACCTGTTTCCTCAGTCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603631 55 - 133663169 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCCAACCTGTTTCCTCAGTTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003196 55 - 137757926 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCCAACCTGTTTCCTCAGTTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381146 55 -   7948249 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCCAACCTGTTTCCTCAGTTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281686 55 -  10730278 CCCAGCCCCAGGCCCT--G-----AGAGCCCCCACTCGGGGCCAACCTGTTTCCTCAGTCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772677 55 - 128539186 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCCAACCTGTTTCCTCAGTCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167903 55 +    435186 CCCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCCAACCTGTTTCCTCAGTCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561774 55 +   9309688 ACCAGCCCCAGGCCCT--G-----AGAGCCACCACTCGGGGCAAACCTGTTTCCTCAGTCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393635 55 -  29834108 CTCAGCCCTAGCCCCT--G-----AGACCCACCACTCAGGGCCAATCTGTTTCATCAGTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846207 57 -   1015025 CTCAGCCCCAGGCCCTGAG-----AGAGCCACCACTCAGGGCCAACCTGTTTCATCAGTTAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866387 55 -   2295209 CTCAGCCCCAGGCCCT--G-----AGAGCCACCACTCAGGGCCAACCTGTTTCATCAGTCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3004247 55 +  31815103 CCCAGCCTAAGGCCCT--G-----AGAGCCGCCACCTAGGGCCACCCTGTTTCCTCATTCCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5094843 55 +  13104022 CCCAGCCCAAGGCCCT--G-----AGAGCCACCACCTAGGGCCACCCCGTTTCCTCATTCCA
i proCoq1.NW_012140524v1    I 40 I 72
s otoGar3.GL873576            4565362 41 -  12054995 CCCAGCCCAAGGC---------------------CCCAGGACCACCCTGTTTCCTCAGCCCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407923 57 - 149736546 CTCATCCCCAGACTCC--AGCTCCAGAGTCAGCACTGAGAACCACATGGCCTCCTTGGT---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721656 30 +  45876710 -----------------------------CACCACCATAGGCTACCT--TCTCCCTTGTCA-
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=131838.000000
s hg38.chr12_GL383549v1_alt     77203 16 +    120804 GAAGAGAATGAGATAA-
s panTro5.chr12              62768790 16 + 137163284 GAAAAGAATGAGATAA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892596 16 + 135337776 GAAAAGAATGAGATAA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108002 16 -  32808036 GAAAAGAATGAGATAA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298024 16 +  34552619 GAAAAGAATGAGATAA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603686 15 - 133663169 GAAAAAAATGAGAT-A-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003251 15 - 137757926 GAAAAAAATGAGAT-A-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381201 15 -   7948249 GAAAAAAATGAGAT-A-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281741 15 -  10730278 GAAAAGAATGAGAT-A-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772732 15 - 128539186 GAAAAGAATGAGAT-A-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167958 15 +    435186 GAAAAGAATGAGAT-A-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561829 15 +   9309688 GAAAAGAATGAGAT-A-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393690 15 -  29834108 GAAAAAAATGAGAT-A-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846264 15 -   1015025 GAAAAAAATGAGAT-A-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866442 15 -   2295209 GAAAAAAATGAGAC-A-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3004302 15 +  31815103 GAAAAAAAGGAGAT-A-
i micMur3.chr21             C 0 I 636
s otoGar3.GL873576            4565403 14 -  12054995 -GGAAAAAGAATGT-A-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407980 11 - 149736546 ----GGGTTGGGAT-G-
i mm10.chr6                 C 0 I 5
s canFam3.chr27              19721686 15 +  45876710 -GAATAAAGGAGAT-AA
i canFam3.chr27             C 0 C 0
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=358401.000000
s hg38.chr12_GL383549v1_alt     77219 37 +    120804 A-GGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------g
s panTro5.chr12              62768806 37 + 137163284 A-GGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892612 37 + 135337776 A-GGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108018 37 -  32808036 A-GGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298040 37 +  34552619 A-GGGGACATAGGCTCCACATA----CTCCAAACTATAATC-------------g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603701 37 - 133663169 A-GGGGACATAAGCTCCAGATA----CTCCAAACTATAATt-------------g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003266 37 - 137757926 A-GGGGACATAAGCTCCAGATA----CTCCAAACTATAATt-------------g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381216 37 -   7948249 A-GGGGACATAAGCTCCAGATA----CTCCAAACTATAATt-------------g
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281756 37 -  10730278 A-GGGGACATAAGCTCCAGATA----CTTCAAACTATAATt-------------g
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772747 37 - 128539186 A-GGGGACATAAGCTCCAGATA----CTCCAAACTATAATt-------------g
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       167973 37 +    435186 A-GGGGACATAAGCTCCAGATA----CTTCAAACTATAATt-------------g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561844 37 +   9309688 A-GGGGACATAAGCTCCAGATA----CTCCAAACTATAATt-------------g
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393705 37 -  29834108 A-GGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846279 38 -   1015025 AGGGGGATACAGGCTCCAGATA----ATCCAAACTATAATC-------------A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866457 38 -   2295209 AGGGGGACATAGGCTCCAGATA----CTCCAAACTATAATC-------------A
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565417 52 -  12054995 A-GGGAATATGTGTTCCAGATAG--TCTCCAGATTATATCTCTGAATTCTCAGAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2407996 40 - 149736546 -GGAGGGCATGGTTTCTAGATGAATTCTCTAGAAGATG-TT-------------A
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19721701 37 +  45876710 A-GGGAATATGTGATCCAGATA----CTACAAACTGTAACT-------------G
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004317 636 +  31815103 I
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=941095.000000
s hg38.chr12_GL383549v1_alt     77256 121 +    120804 aagtgcagtggcctgatcttggctcactgcaacctccacctctc--------gggct------caagggattctcctgcctcagcctcc-aagtagctggga-------------ttacaggcacgtgcc-----------------------------accacacccag---ctaatttc
s panTro5.chr12              62768843 121 + 137163284 aagtgcagtggcttgatcttggctcactgcaacctccacccctc--------gggct------caagggattctcctgcctcagcctcc-aagtagctggga-------------ttacaggcacgtgcc-----------------------------accacacccag---ctaatttc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892649 121 + 135337776 aagtgcagtggcttgatcttggctcactgcaacctccacccctc--------gggct------caagggattctcctgcctcagcctcc-aagtagctggga-------------ttacaggcacgtgcc-----------------------------accacacccag---ctaatttc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108055 121 -  32808036 aagtgcagtggcctgatctgggctcactgcaacctccacctctc--------gggtt------caagggattctcctgcctcagcctcc-aagtagctggga-------------ttacaggcacgtgcc-----------------------------accacacccag---ctaatttc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298077 121 +  34552619 aagtgcagtggcctgatcttggctcactgcaacctccacctctc--------gagct------caagggattctcctgcctcagcctcc-aagtagctggga-------------ttacagacatgtgcc-----------------------------accatgcccag---ctaatttc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603738 121 - 133663169 aagtgcaatggcctgatcttggctcactgcaatctccatctgtt--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacatgcc-----------------------------accacacccag---ctaatttc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003303 121 - 137757926 aagtgcaatggcctgatcttggctcactgcaatctccatctgtt--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacatgcc-----------------------------accacacccag---ctaatttc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381253 121 -   7948249 aagtgcaatggcctgatcttggctcactgcaatctccatctgtt--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacttgcc-----------------------------accacacccag---ctaatttc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281793 121 -  10730278 aagtgcaatggcctgatcttggctcactgcaatctccacctgtc--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacgtgcc-----------------------------accacacccac---ctaatttc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772784 121 - 128539186 aagtgcaatggcctgatcttggctcactgcaatctccacctgtc--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacatgcc-----------------------------accacacccag---ctaatttc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168010 121 +    435186 aagtgcaatggcctgatcttggctcactgcaatctccacctgtc--------gggct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacatgcc-----------------------------accacacccag---ctaatttc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3561881 121 +   9309688 aaatgcaatggcctgatcttggctcactgcaatctccacctgtc--------gagct------caaaggattctcctgcctcagcctcc-aggtagctggga-------------ttacaggcacatgcc-----------------------------accacacccag---ctaatttc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393742 135 -  29834108 AAAGgcagtggcccgatcttgtctcactgcaacctctgcctctc--------aggct------gtagagagtctcctgcctctgcctgctgagtagctggga-------------ttacaggcatgtgcca----------------ctatgcttggttactatgcttgg---ctaatttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846317 122 -   1015025 gaatgcagtggcccgatcttgtctcactgcaacctctgcctctc--------aggcc------caagagagtctcctgcctctgcctcctgagtagctggga-------------ttacaggcatgtgcc-----------------------------accacgcttgg---ctaatttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866495 122 -   2295209 Aaatgcagtggcccgatcttgtctcactgcaacctctgcctctc--------aggtt------caagagagtctcctgcctctgcctcctgagtagctggga-------------ttacaggcatgtgcc-----------------------------accacgcttgg---ctaatttt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565469 180 -  12054995 AGATTTCATAGCATga-ctaatctcaattcaaatcccagctctccttcacagaagctatgaaactatggacacaattgcttcattttcctcagtggtaaaggtataatatttatcttataggactattccaaaaattgagggtaagcatataataggtgaacacagttggtgccttttttt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2408036  69 - 149736546 AAGCATAA----------CTAACCTGCTTCAAATCTCATCTCCC-----------CT---------------------------------GAGGAGCTGTGA-------------------------AAC-----------------------------TCTGTACATAG---CC-ACCTC
i mm10.chr6                 C 0 C 0
e micMur3.chr21               3004317 636 +  31815103 I
e canFam3.chr27              19721738   0 +  45876710 C
e proCoq1.NW_012140524v1      5094898  72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=149134.000000
s hg38.chr12_GL383549v1_alt     77377 19 +    120804 tgaatttttagtagagacg
s panTro5.chr12              62768964 19 + 137163284 tgtatttttagtagagatg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892770 19 + 135337776 tgtatttttagtagagatg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108176 19 -  32808036 tgtatttttagtagagacg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298198 19 +  34552619 tgtatttttagtagagatg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603859 18 - 133663169 tgtatttttagtagagat-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003424 18 - 137757926 tgtatttttagtagagat-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381374 18 -   7948249 tgtatttttagtagagat-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281914 18 -  10730278 tgtatttttaatagagat-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772905 18 - 128539186 tgtatttttagtagagat-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168131 18 +    435186 tgtatttttaatagagat-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562002 18 +   9309688 tgtatttttagtagagat-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393877 19 -  29834108 tgtatttttagtagagatg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846439 19 -   1015025 tgtatttttagtagagatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866617 19 -   2295209 tgtatttttagcagagatg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565649 19 -  12054995 tttttttttgtctgagaca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2408105 18 - 149736546 TGTCTCCCCAGCAGTAGA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19721738 19 +  45876710 TGAATTCTTTgaaaaaaca
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004317 636 +  31815103 I
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=376318.000000
s hg38.chr12_GL383549v1_alt     77396 45 +    120804 gggttttgccatgttggccaggctgg----------------------------tctcaaactcctgacctca
s panTro5.chr12              62768983 45 + 137163284 gggttttgccatgttggcgaggctgg----------------------------tctcaaactcctgacctca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892789 45 + 135337776 gggttttgccatgttggcgaggctgg----------------------------tctcaaactcctgacctca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108195 45 -  32808036 gggttttgccatgttggccaggctgg----------------------------tctcaaactcctgacctca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298217 45 +  34552619 gggttttgccatgttggccaggctgg----------------------------tctcgaactcttgacctca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603877 45 - 133663169 gggttttgttatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003442 45 - 137757926 gggttttgttatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381392 45 -   7948249 gggttttgttatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281932 45 -  10730278 gggttttgtcatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772923 45 - 128539186 gggttttgtcatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168149 45 +    435186 gggttttgtcatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562020 45 +   9309688 gggttttgtcatgttggtcaggctgg----------------------------tctcgaactcctgacctca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393896 44 -  29834108 gggttttgtcatgttggccaggctgg----------------------------tcttgaacgcctgacctt-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846458 44 -   1015025 gggtttcaccatgttggccatgctgg----------------------------tcttgaactcctgccctc-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866636 44 -   2295209 gggtttcaccatgttggccaggctgg----------------------------tcttgaactcctgacctt-
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565668 73 -  12054995 gcatttcactttgttgctcttggtagagtgccatggtatcatagctcacagcaatcccaaacccttgggctca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2408123 18 - 149736546 ------------------------GG----------------------------TCTT---CTCCTTATCTCA
i mm10.chr6                 C 0 I 250
e micMur3.chr21               3004317 636 +  31815103 I
e canFam3.chr27              19721757  0 +  45876710 C
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=624564.000000
s hg38.chr12_GL383549v1_alt     77441 72 +    120804 agtgatctgcccacctcggcctcccaaagtgctaggattacaggcgtgagccattgcgctcagccCagagcc
s panTro5.chr12              62769028 72 + 137163284 agtgatctgcccgcctcggcctcccaaagtgctaggattacaggcgtgagccattgcgctcagccCagagcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892834 72 + 135337776 agtgatctgcccgcctcggcctcccaaagtgctaggattacaggcgtgagccattgcgctcagccCagagcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108240 72 -  32808036 agtgatctgcccgcctcggcctcccaaagtgctaggattacaggcatgagccattgcgctcagccCAGAGCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298262 72 +  34552619 agtgatccacccgccttggcctcccaaagtgctaggattacaggcgtgagccactgcgctcagccCagagcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603922 71 - 133663169 agtgatccgcccacctccacctcccaaagtgct-ggattacaggcgtgagccactgcgctcagccCAGAGCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003487 71 - 137757926 agtgatccgcccacctccacctcccaaagtgct-ggattacaggcgtgagccactgcgctcagccCAGAGCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381437 71 -   7948249 agtgatccgcccacctccgcctcccaaagtgct-ggattacaggcgtgagccactgcgctcagccCAGAGCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8281977 71 -  10730278 cgtgattcgcccgcctccgcctcccaaagtgct-ggattacaggcgtgagccactgtgctcagccCAGAGCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100772968 71 - 128539186 agtgatccgcccgcctccgcctcccaaagtgct-ggattacaggcgtgagccactgcgctcagccCAGAGCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168194 71 +    435186 agtgatccgcccgcctccgcctcccaaagtgct-ggattacaggcgtgagccactgtgctcagccCAGAGCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562065 71 +   9309688 agtgatccgcccgcctccgcctcccaaagtgct-ggattacagtcgtgagccactgcgctcagccCAGAGCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11393940 71 -  29834108 -gtgatctgcctgccttggcctctcaaaatgctggggttacaggcatgagccactgtgcccagccCaaagcc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846502 71 -   1015025 -gtgatctgcctgcctcagcctcccaaaatgctgggattacaggcatgagccaccgtgcccagccCaaagcc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866680 71 -   2295209 -gtgatctgcctgcctcagcctcacaaaatgctgggattacaggcatgagccaccatgcccagccCAAAGCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4565741 64 -  12054995 agagattctcatgcctcagcctcccaagtagctgagactacaggcgcctgccacaatg------acaggg--
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2408141 250 - 149736546 I
e micMur3.chr21               3004317 636 +  31815103 I
e canFam3.chr27              19721757  0 +  45876710 C
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=-5407.000000
s hg38.chr12_GL383549v1_alt     77513 4 +    120804 tgag
s panTro5.chr12              62769100 4 + 137163284 tgag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892906 4 + 135337776 tgag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108312 4 -  32808036 TAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298334 4 +  34552619 tgag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603993 2 - 133663169 T--G
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003558 2 - 137757926 T--G
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381508 2 -   7948249 T--G
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282048 2 -  10730278 T--G
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773039 2 - 128539186 T--G
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168265 2 +    435186 T--G
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562136 2 +   9309688 T--G
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394011 4 -  29834108 tgag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846573 4 -   1015025 tgag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866751 4 -   2295209 AGAG
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19721757 4 +  45876710 tgaa
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4565805 0 -  12054995 C
e mm10.chr6                   2408141 250 - 149736546 I
e micMur3.chr21               3004317 636 +  31815103 I
e proCoq1.NW_012140524v1      5094898 72 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=2076248.000000
s hg38.chr12_GL383549v1_alt     77517 225 +    120804 tttcacagcatggctaatgttgattcaaatcccagctctttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaagg---tgtaatgcttatctcacaggactc--ttaaagactaactgaggttaaaca-tttaaTAGG--TGCACATAGTTGGTGCTTTCAAAACGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATgatttacaaa
s panTro5.chr12              62769104 225 + 137163284 tttcacagcatggctaatgttgattcaaatcccagctccttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaagg---tgtaatgcttatctcataggactc--ttaaagactaactgaggttaaaca-tttaaTAGG--TGCACATAGTTGGTGCTTTTAAAACGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATgatttacaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60892910 225 + 135337776 tttcacagcatggctaatgttgattcaaatcccagctccttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaagg---tgtaatgcttatctcataggactc--ttaaagactaactgaggttaaaca-tttaaTAGG--TGCACATAGTTGGTGCTTTTAAAACGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATgatttacaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108316 209 -  32808036 TTTCACAGCATGGCTAATGTTGATTCAAATCccag----------------cgatg--taactttgggcacaattgtttcaatttcctcagtgataaagg---tgtaatgcttatctcataggactc--ttaaagactaactgaggttaaaca-tttaaTAGG--TGCACATAGTTGGTGCTTTTAAAACGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATgatttacaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298338 228 +  34552619 tttcacagcatggctaatgttgattcaaatcccagctctttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaagg---tgtaatgcttatctcacaggactcttttaaagactaactgaggttaaaca-tttaaTAGG--TGCACATAGTTGGTGCTTTTAAAATGAT-AAAAAATATTTCTTGATTTAGGAAGTGTACAATGATTTACAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104603995 217 - 133663169 TTTCATAGCATggctaatgttgattcaaatcccagctctttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaaGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTGAACA-TTTAATAGG--TGCACATAGTTGCTGCTTTTAAAATGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATgattcacaaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003560 217 - 137757926 TTTCATAGCATGGCTAATGTTGATTCAAATCCCAGCTCTTTCTTTCAGAAACGATG--TAACTTTGGGCACAATTGTTTCAATTTCCTCAGTGATAAAGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTGAACA-TTTAATAGG--TGCACATAGTTGGTGCTTTTAAAATGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATGATTCAcaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381510 217 -   7948249 TTTCATAGCATggctaatgttgattcaaatcccagctctttctttcagaaacgatg--taactttgggcacaattgtttcaatttcctcagtgataaaGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTGAACA-TTTAATAGG--TGCACATAGTTGGTGCTTTTAAAATGAT-AAAAAG-ATTTATTGATTTAGGAAGTGTACAATgattcacaaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282050 212 -  10730278 TTTCATAGCATGGCTAATGTTgattcaaatcccagctttttctttcagaaacgatg--taactttgggcac-attgtttcaatttccttagtgATAAAGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTAAACA-TTTAATAGG--TGCACAGAG----TGCTTTTAAAATGAT-AAAAAG-ATTTTTTGATTTAGGAAGTGTACAATgattcacaaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773041 219 - 128539186 TTTCATAGCATGGCTAATGTTGATTCAAATCCCAGCTCTTTCTTTCAGAAACGACGTTTAACTTTGGGCACAATTGTTTCAATTTCCTCAGTGATAAAGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTAAACA-TTTAATAGG--TGCACATAGTTGGTGCTTTTAAAATGAT-AAAAAG-ATTTCTTGATTTAGGAAGTGTACAATGATTCAcaaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168267 217 +    435186 TTTCATAGCATGGCTAATGTTGATTCAAATCCCAACTTTTTCTTTCAGAAACGATG--TAACTTTGGGCACAATTGTTTCAATTTCCTTAGTGATAAAGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACTGAGGTTAAACA-TTTAATAGG--TGCACATAGTCGGTGCTTTTAAAATGAT-AAAAAG-ATTTTTTGATTTAGGAAGTGTACAATGATTCAcaaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562138 217 +   9309688 TTTCACAGCGTGGCTAATGTTGATTGAAATCCCAGCTCTTTCTTTCAGAAACGATG--TAACTTTGGGCACAA-TGTTTCAATTTCCTCAGTGATAAAGG---TGTA------ATCTCATAGGACTCCTTTAAAG----ACGGAGGTTAAACA-TTTAATAGG--TGCACATAGTTGGTGTTTTTAAAATGATAAAAAAG-ATTTCTTGATTTAGGAAGTGTACAATGATTCAcaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394015 226 -  29834108 tttcacagcatggctaatgctgattcaaatcccagctgtttctttcagaagcaaag--taactttgggcacgattgtttcaatttcctcaatgataaatg---tgtaatgttcatctcataggacttttttaaagatttactgaggttaaaca-tttaatagg--ggcacatagttggcgctTTTAAAATCAT--ACATG-ATTTGTAGATTCAGGAAGTGTACAATGATTTACTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846577 226 -   1015025 tttcacagcatggctaatgctgattcaaatcgcagctctttctttcagaagcgatg--taactttgggcacaattgtttcaatttcctcaatgataaatg---tgtaatgctcatctcataagactcttttaaagatttactgaggttaaaca-tttaatagg--ggcacatagttggcgctTTTAAAATAAT--ACATG-ATTTGTAGATTTAGGAAGTGTAAAATGATTTACTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866755 226 -   2295209 TTTCACAGCATGGCTAATGCTgattcaaatcccagctctttctttcagaagcgatg--taactttgggcacgattgtttcaatttcctcagtgataaatg---tgtaatgctcagcccataggactcttttaaagatttactgaggttaaaca-tttaatagg--ggcacatagttgacgctTTTAAAATAAT--ACATG-ATTTGTAGATTTAGGAAGTGTACAATGATTTACTAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5094970 226 +  13104022 tttcagagcatgactaatctcgattcaaatcccagctctcattcacagaagctgtg--aaactttgggcacaatggcttcgatttcctcagtggtaaagg---tatgatatttatctcatgagtctcttctaaagattaattgaggttaagca-tatagtagg--tgaacatagttggtgcttttaaaatgat--atatg-ttttatagatgtaCAAAATGGGCAACgatttacaaa
i proCoq1.NW_012140524v1    I 72 C 0
s otoGar3.GL873576            4565805 173 -  12054995 -----------------tctc-------------cctcttgctcaggctggttttg--aacctgtgagctcaagcaatccacccacctcgg----------------------gctcccagagtgct-----aggatta--taggcatgagcactgcacccagccccaacacagttggtgcttttataatgat--aactG-GTTTATAGACTTATGAAATGTGTAATgatttacaaa
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19721761 208 +  45876710 tttcagagcatcgctcatcttgattcaaatcccagctctctccctctgaagctgtg--aaatttggggcacaattgctccaatttcctcagttgtaCAGGCATTGTA------TTCATATAAGACTCTTCTAAAGAGGAGCTGAGGTTAAGCA-CAGAGTAGG----------------GCTTTTCCAATGAT--AAATG-ATTTATAAATTAATTAAAC-TACAAAGATATGAAAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2408141 250 - 149736546 I
e micMur3.chr21               3004317 636 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=3601109.000000
s hg38.chr12_GL383549v1_alt     77742 366 +    120804 gaaaataaagcccttctatttcatataactaatctaatactttaaatgagctcg---ctcccacactgctggaggtagactgaaatgaagagaaATGAAGAGCACACATTTGTCCACTGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGCCTGTTGGTT-----TTAACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACAGTCACACTGGAGTC---------------CACTGAGGGACGACGGCTGCCGAGCCTGCGGTCTGTACC--CTGCTA-AG-TGGGCCTGATCAATGAGCAGCAA-GGCTGTATCTCCTTGCAGCAAGCT-CCCTCTGCATGTGAATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGCACAG
s panTro5.chr12              62769329 366 + 137163284 gaaaataaagcccttctatttcatataactaatctaatactttaaatgagctcg---ctcccacactgctggaggtagactgaaatgaagagaaATGAAGAGCACACATTTGTCCACTGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGCCTGTTGGTT-----TTAACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACAGTCACACTGGAGTC---------------CACTGAGGGACGACGGCTGCTGAGCCTGCGGTCTGTACC--CTGCTA-AG-TGGGCCTGATCAATGAGCAGCAA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCTGCATGTGAATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGCACAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893135 366 + 135337776 gaaaataaagcccttctatttcatataactaatctaatactttaaatgagctcg---ctcccacactgctggaggtagactgaaatgaagagaaatgaaGAGCACACATTTGTCCACCGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGCCTGTTGGTT-----TTAACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACAGTCACACTGGAGTC---------------CACTGAGGGACGACGGCTGCTGAGCCTGCGGTCTGTACC--CTGCTA-AG-TGGGCCTGATCAATGAGCAGCAA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCTGCATGTGAATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGCACAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108525 366 -  32808036 gaaaataaagcccttctatttcatataactaatctaatactttaaatgagctcg---ctcccacactgctggaggtagactgaaatgaagagaaatgaaGAGCACACATTTGTCCACTGACCGTAACGTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGCCTGTTGGTT-----TTAACTGC--TGCCCATTGCAGAACGTCTGATC--AA-----------------GTCC--CTGA--AACAGTCACACTGGAGTC---------------CACTGAGGGACGACGGCTGCCGAGCCTGCGGTCTGTACC--CTGCTA-AG-TGGGCCTGATCAATGAGCAGCAA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCTGCATGTGAATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGCACAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298566 366 +  34552619 GAAAATAAAGCCCATCTATTTCATATAACTAATCTAATACTTTAAATGAGCTCC---CTCCCACACTGCTGGGGGTAGACTGAAATGAAGACAAATAAAGAGCACACATTTGTCCGGTGACCGTAACTTT-TGCCTTTTAGGAGGCTTGGATGTG-TGTTTAGCCTGTTGGTT-----TTAACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--TTGA--AACGGTCACACTGGAGTC---------------CACTGAGGCACGACGGCTGCCGAGCCTGCGGTCTGTACC--CTGCTA-AG-TGGGCCTGATCAGTGAGCAGCAA-GCCTGTGTCTCCTTGCAGCAAGCT-CCTTCTGCATGCGGATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGGACAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604212 363 - 133663169 gaaaataaaacccttctatttcatataactaatctaatacttttaatgagctcc---ctcccacaccgctgggggtagaccgaaatgaagagaaATGAAGAGCACACATTTGTCCAGTGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTATCCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACCGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGCCGAGCCTGCGGTCTGTGCT--CTGCTC-AG-TGGGCATGATCAGTGAGCAGCCA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAG--CAAAATGGACAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109003777 363 - 137757926 gaaaataaaacccttctatttcatataactaatctaatacttttaatgagctcc---ctcccacaccgctgggggtagaccgaaatgaagagaaATGAAGAGCACACATTTGTCCAGTGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTATCCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAAGGTCTGGTC--AA-----------------GTCC--CTGA--AACCGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGCCGAGCCTGCGGTCTGTGCT--CTGCTC-AG-TGGGCATGATCAATGAGCAGCCA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAG--CAAAATGGACAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1381727 363 -   7948249 gaaaataaaacccttctatttcatataactaatctaatacttttaatgagctcc---ctcccacaccgctgggggcagaccgaaatgaagagaaaTGAAGAGCACACATTCGTCCAGTGACCGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTATCCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACCGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGCCGAGCCTGCGGTCTGTGCT--CTGCTC-AG-TGGGCATGATCAATGAGCAGCCA-GGCTGTGTCTCCTTGTAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAG--CAAAATGGACAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282262 365 -  10730278 gaaaataaagcccttctatttcatataactagtctaatacttttaatgagctcc---ctcccacaccgctgggGGTAGACCGAAATGAAGAGAAATGAAAAGCACACATTTGTCCAGTGACCGTAACGTT-TGCCTTTTAGGAGTCTTGCATGTG-TGTTTATTCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACCCTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGCCGAGCCTGCGGTCTGTACT--CTGCTC-AG-TGGGCATGATCAATGAGCAGCCA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAGTTCAAAATGGACAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773260 365 - 128539186 gaaaataaagcccttctatttcatataactaatctaatacttttaatgagctcc---ctcccacaccgctgggGATAGACCGAAATGAAGAGAAATGAAGAGCACACATTTGTCCAGTGACCATAAAGTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTATTCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACCGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGCCGAGCCTGCGGTCTGTACT--CTGCTC-AG-TGGGCATGATCAATGAGCAGCCA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAGTTCAAAATGGACAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168484 365 +    435186 gaaaataaagcccttctatttcatataactagtctaatacttttaatgagctcc---ctcccacaccgctgggggtagaccgaaatgaagagaaATGAAAAGCACACGTTTGTCCAGTGACCGTAACGTT-TGCCTTTTAGGAGTCTTGCATGTG-TGTTTATTCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACCGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGACGAGCCTGCGGTCTGTACT--CTGCTC-AG-TGGGCATGATCAATGAGCAGCCA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTG-ATGTCTCCGTGC-----------------------------------CAGAGTTCAAAATGGACAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562355 366 +   9309688 gaaaataaagcccttctatttcatataactaatctaatacttttaatgagctcc---ctcccacaccgctgggggtggaccgaaatgaagagaaaTGAAGAGCACACATTTGTCCAGTGACCGTAATTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTATCCTGTTGGTT-----TTTACTGC--TGCCCATTGCAGAACGTCTGGTC--AA-----------------GTCC--CTGA--AACTGTCACGCTGGAGTC---------------CACTGAGGGACGACGGCAGTGGAGCCTGCGGGCTGTACT--CTGCTC-AG-TGGGCATGATCAGTGAGCAGCGA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCATGTGAATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGGACAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394241 357 -  29834108 GAAAATAAAGCCCCTCTATTTCATATAACTAATCTAATACTTTAAATGAGCTCC---CTGTCACACTGCTGGGGGTAGACCGAAATGAAGAGCAATGAAGAGCACACATTTGTCCAGTGATAGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGCCT----GTT-----TTTACTGC--TCTCCGTTGCAGACTGTTTGGCC--AA------------------TCC--CTGG--AACCGTCACGCTGGAGTC---------------CA-TGTGG---GACGGCTGCCGAGCCTGCGGTCTGTACT--CTGCTC-AG-TGGGCCTGATCAACGACCAGGGA-GGTTGTGTCTCCTTGCAGCAAGCT-CCCTCCGCGTGTGGATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGGACAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       846803 362 -   1015025 GAAAATAAAGCCCCTCTATTTCATATAACTAATCTAACACTTTAAATGAGCTCC---CTGTCACACTGCTGGGGGTAGACCGAAATGAAGAGCAATGAAGAGCACACATTTGTCCAGTGACAGTAACTTT-TGCCTTATAGGAGTCTTAAATGTG-TGTTTAGCCCGTTGGTT-----TTTACTGC--TGTCCATTGCAGACCGTCTGGCC--AA------------------TCC--CTGG--AACCGTCACGCTAGAGTC---------------CATTGTGG---GGCGGCTGCCGAGCCTGCGGTCTGTACT--CTGCTC-AG-TGGGCCTGATCAATGACCAGGGA-GGCTGTGTCTCCTTGCAGCAAGCT-CCCTCCACGTGTGGATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGGACAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1866981 364 -   2295209 GAAAATAAAGCCCCTCTATTTCATATAACTAATCTAACACTTTAAATGAGCTCC---CTGTCACACTGCTGGTGGTGGACCAAAATGAAGAGCAATGAAGAGCACACATTTGTCCAGTGACAGTAACTTT-TGCCTTTTAGGAGTCTTGGATGTG-TGTTTAGACCGTTGGTT-----TTTACTGCTGTGTCCATTGCAGACTGTCTGGCC--AA------------------TCC--CTGG--AACCGTCATGCTGGAGTC---------------CACTGTGG---GACGGCTGCCGAGCCTGCGGTCTGTACT--CTGCTA-AG-TGGGCCTGATCAATGACCAGGGA-GGCTGTGTCTCCTTGCAGCAAGCT-CCTTCTGCGTGTGGATGTCTCCATGC-----------------------------------CAGAGTTCAAAATGGACAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5095196 345 +  13104022 gaaaataaagctcttttatttcatataactaagtgaatgccccaaatgagctcc---ctcccaccctgcttggggcggggtgaaat-gagagaaaTGAATAGAACAGGTTTGTCCAGTGAC---AACTTTGTGCCTTGCAGGGGTATTGGATCTG-TGTTCGGCCCCTCGGGT-----Gtcactgc--tttccattgcagaacatctggtc--aa-----------------gtcc--ctgg--agctgctaTG-------------------------CTGGAG---GCTGGCTGGCTAGCCTGAGGGCTGTACT--CTGCTG-AG-TGTGCCTGCTCAATGACCAGTGGTGGCTGTCTCTCGTTGCAGCAGGCT-TC-----CATGTGGTGGTCTCCTTGC-----------------------------------CAGAGCTAAAAATCACAA-
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4565978 341 -  12054995 gagaataaagcttctttacttccagtaactaatctaatacctcaaatgaattcaaagcttccattagcttgggggtggggtgaaacaaagaGAAAAGAACAGGACACGTTTGTTCAGTGAC---AACTGTGTGCC-----------TTGGATC---TGTTTAGCCCCTTGGTT-----TTCCCTGC--TCTCCATTGCAGAGTGTCTGGT----------------------------CTGG--AACTGTCTTGCCAG-GCC---------------CCCTGTGG---GAGGACTGGAGAAACTGAGGCCCTGACTGCCTGCTC-AG-TGGGTCTGACCAGTGACCAGCGATGGCTACCTCTCCTTGCGGCAGGCTGCC-----CATGTGGCTGTCTCCTTGC-----------------------------------CAGAGTTAAAAATCACTA-
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2408391 395 - 149736546 GAGAACACAGCTGCCACAGTTCATGTAACTAGT-----ATTGCAAATGAGCACC----------AGTGCTGGTGAGAA---------AAGAGGTATGAAAAG-GCTCCTTTGCCCAGTCACTGTTACTTTGTTTCTTCTAAGGCTCTTGGAGAGGCTCTTTTGCCCAGTCACTGTTACTTTGCTTC--TTCTAGGTGTATTGGATCTATTC--AACCTGTTGGTTTTATGGTGTCCT-CTGAAGAACTATTATGCTGGGG-C---------------CGCT-------GGCAGAGGGCAAGTGTAAGGTCTAT-CT--CTGCTCGAC-TGCACCCAATTAGTGACTGGCCA---CTGCTGCCTCTTATAACTAGGC-CTGACC-TTTATGAATATCTTCTCGCTTAGCCTAAATATGATACCTATAACaaaacaaaaacaacaacaaaaatgaacga
i mm10.chr6                 I 250 I 12
s canFam3.chr27              19721969 349 +  45876710 TAAAATAAATCTCCTTTATTTCACATACCTAATTTAACAT-----------------CCCCAGTGTTGCTGGGAGTGGGGCACAGTAGCGAGAAATAAATCCCACACATTTGAGAAGTGACAGTCCCTGT-GCATGTTCTGGGGGCTTGGATCTC-TGTCCAGGGCCTTAGTT-----TGCACTGT--TCTCCACAGTGGAGTGTCTGGGCCTGA-----------------GCCCTGCGGG--GACA--CACGCCGGGGACACATGCCGGGAACAACGCTGAAG---GCCAACTGGTGAGCACCAGGCCTGTACTCTCTGCTT-AGCTGGGCCTGATCAA-GGGCATTGA-GGCAGG-------------------CCATCC-TGTGTGGTTGTCTCCTTGC-----------------------------------CAGAGTTCAAAATGGCGCC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004317 636 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=492670.000000
s hg38.chr12_GL383549v1_alt     78108 39 +    120804 TGAAATGAAGCAGCTTCTCTTATTTTGACCTTTCCTTGA-
s panTro5.chr12              62769695 39 + 137163284 TGAAATGAAGCAGCTTCTCTTATTTTGACCTTTCCTTGA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893501 39 + 135337776 TGAAATGAAGCAGCTTCTCTTATTTTGACCTTTCCTTGA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108891 39 -  32808036 TGAAATGAAGCAGCTTCTCTTATTTTGACCTTTCCTTGA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298932 39 +  34552619 TGAAACGAAGCAGCTTCTCTTATTTCGACCTTTCCTTGA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604575 39 - 133663169 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004140 39 - 137757926 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382090 39 -   7948249 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282627 39 -  10730278 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773625 39 - 128539186 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168849 39 +    435186 TGAAATGAAGCCGCTTCTCTTATTTTGACCTTTCCTTGC-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562721 39 +   9309688 TGAAATGAAGCAGCTTCTCTTATTTTGACCTTTCCTTGC-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394598 39 -  29834108 TGAAATGAAGCAGCCTCCCTTACTTTGACTTTTGCTTGA-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       847165 39 -   1015025 TGAAATGAAGCAGCCTCCCTTATTTTGACTTTTGCTTGA-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867345 39 -   2295209 TGAAATGAAGCAGCCTCCCTTATTTTGACTTTTGCTTGA-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3004953 39 +  31815103 TGAAATGAGGCAGCTCCCCTTATTTTGACTTTTCCTTGA-
i micMur3.chr21             I 636 I 147
s proCoq1.NW_012140524v1      5095542 39 +  13104022 TGAAATGAAGCAGCTTCCCTTGTTTTGACTTTTCCTTGA-
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4566320 37 -  12054995 TAAAATGAAATAG--TCCCTTGTTTTGACTTTTCCTTGA-
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2408798 39 - 149736546 acaaaaaACCCAAACTTCCTCTTAGTCACCTTTCCCTCT-
i mm10.chr6                 I 12 I 1
s canFam3.chr27              19722318 40 +  45876710 TGGAATGAAACAGCCTCCCTTCTTCTGGTTTTTTCCTTTA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=539943.000000
s hg38.chr12_GL383549v1_alt     78147 46 +    120804 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGGCTTG---CTTT-------
s panTro5.chr12              62769734 46 + 137163284 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893540 46 + 135337776 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108930 46 -  32808036 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7298971 46 +  34552619 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGGCTTG---CTTT-------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604614 46 - 133663169 AACTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004179 46 - 137757926 AACTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382129 46 -   7948249 AACTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282666 46 -  10730278 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773664 46 - 128539186 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168888 46 +    435186 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562760 46 +   9309688 ATCTCTCTAAATGCATCCTTGATCGTT-AACATTC-------AAGACTTG---CTTT-------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394637 46 -  29834108 CTCTCTCTAAATCCATCCTTCATCTTT-AACATCC-------AAAACTTG---CTTT-------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       847204 46 -   1015025 ATCTCTCTAAATCCATCCTTCATCTTT-AACATCC-------AAAACTTG---CTTT-------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867384 46 -   2295209 ATCTCTCTAAATCCATCCTTCATCTTT-AACATCC-------AAAACTTG---CTTT-------
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5095581 46 +  13104022 ATCCCTCTAAATCCCTCCTTGGTCTTT-AACATCC-------AAGACTTG---CTTT-------
i proCoq1.NW_012140524v1    C 0 I 93
s otoGar3.GL873576            4566357 46 -  12054995 ATACCTCTAAGTCCCTccttggttttt-aacatcc-------gagacttg---cttt-------
i otoGar3.GL873576          C 0 I 3
s mm10.chr6                   2408838 50 - 149736546 ATCCTTCCAATTCCCTCCTTGGTCTTTAAACTCTT-------AAGTCTTGAACCCTT-------
i mm10.chr6                 I 1 I 2
s canFam3.chr27              19722358 60 +  45876710 ATCCCTCTAAATCCCTCCTTGGTCTTT-TACCTTTGGGTCTAAGAACTCA---CTTGccacctt
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004992 147 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=850952.000000
s hg38.chr12_GL383549v1_alt     78193 90 +    120804 TCCAAGT---TGTCtctcc---ttccctccac------ac----ccatcagggctgaatggggaggctcccatccactttcctgt-----ggcctcttccatgaggctctt
s panTro5.chr12              62769780 90 + 137163284 TCCAAGT---TGTCtctcc---ttccctccac------ac----ccatcagggctgaatggggagggtcccacccactttcctgt-----ggcctcttccgtgaggctctt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893586 90 + 135337776 TCCAAGT---TGTCtctcc---ttccctccac------ac----ccatcagggctgaatggggaggctcccacccactttcctgt-----ggcctcttccgtgaggctctt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3108976 90 -  32808036 TCCAAGT---TGTCTCTCC---TTCCCTCCAC------AC----CCATCAGGGCTGAATGGGGAGGCTCCCACCCACTTTCCTGT-----GGCCTCTTCCATGAGGCTCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299017 86 +  34552619 TCCAAGT---TGTCTC-------TCCCTCCAC------AC----CCATCAGGGCTGAATGGGGAGGCTCCCACCCACTTTCCTGT-----GGCCTCTTCCATGATGCTCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604660 90 - 133663169 TCCAAGT---TGTCtctcc---ttccctccac------gc----ccatcagggctgaatggggaggctcccacccactttcctgt-----ggcctcttccatgaggctctt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004225 90 - 137757926 TCCAAGT---TGTCTCTCC---TTCCCTCCAC------GC----CCATCAGGGCTGAATGGGGAGGCTCCCACCCACTTTCCTGT-----GGGCTCTTCCATGAGGCTCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382175 90 -   7948249 TCCAAGT---TGTCtctcc---ttccctccac------gc----ccatcagggctgaatggggaggctcccacccactttcccgt-----ggcctcttccatgaggctctt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282712 90 -  10730278 TCCAAGT---TGTCtctcc---ttccctccac------ac----ccatcagggctgaatggggaggctcccacccactttcctgt-----ggcctcttccatgaggctctt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773710 90 - 128539186 TCCAAGT---TGTCTCTCC---TTCCCTCCAC------AC----CCATCAGGGCTGAATGGGGAGGTTCCCACCCACTTTCCTGT-----AGCCTCTTCCATGAGGCTCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       168934 90 +    435186 TCCAAGT---TGTCtctcc---ttccctccac------ac----ccatcagggctgaatggggaggctcccacccactttcctgt-----ggcctcttccatgaggctctt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562806 90 +   9309688 TCCAAGT---TGTCTGTCC---TTCCCTCCAC------AC----CCATCAGGGCAGAATGGGGAGGTTCCCACCCACTTTCCTGT-----GGCCTCTTCCATGAGGCTCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394683 95 -  29834108 TCCAAGTC--TGTCTCTCC---TTCTCACCAC------ACGGGTGCATCAGGACTGAATGGGGAGCCCCCCACCCACTTTCCTGT-----GGCCCCTTCCATGAGGCTCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       847250 91 -   1015025 TCCAAGTC--TGTCtctcc---ttcccaccac------ac----ccatcaggactgaatgcggaggcgcccgcccactttcctgt-----ggcctcttccatgaggctctt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867430 91 -   2295209 TCCAAGTC--TGTCtctcc---ttcccaccac------ac----ccatcaggactgaatggggaggctcccgcccactttcctgt-----ggcctcttccatgaggctctt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4566406 87 -  12054995 tcccgtc---tgtttctcc---t---ctccat------ac---cccactgtggttgactggggaggctctcacccactttcaggt-----ggctggttctgtggtacaca-
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2408890 98 - 149736546 CCCCATA---GGTCCACCCCAGTTCCACCCACTGGTCAAA----TCATCAGAGCTGACTGGATAGGGCTCTGTCTACTTTTCCCT-----GAACTCTTCTGAAGAACTCT-
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19722418 71 +  45876710 -------ccctgtctcagt---ctcccactcc------ac-----------------------aggcactccccccttctgctgcaggaggacctctttcctggaactct-
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004992 147 +  31815103 I
e proCoq1.NW_012140524v1      5095627 93 +  13104022 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=84058.000000
s hg38.chr12_GL383549v1_alt     78283 8 +    120804 gagcgcta
s panTro5.chr12              62769870 8 + 137163284 gagcgcta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893676 8 + 135337776 gagcgcta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109066 8 -  32808036 GAGCGCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299103 8 +  34552619 GAGTGCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604750 8 - 133663169 gagttcta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004315 8 - 137757926 GAGTTCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382265 8 -   7948249 gagttcta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282802 8 -  10730278 gagttcta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773800 8 - 128539186 GAGTTCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169024 8 +    435186 gagttcta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562896 8 +   9309688 GAGTTCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394778 8 -  29834108 GAGCTTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       847341 8 -   1015025 gagctcta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867521 8 -   2295209 gagctcta
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5095720 8 +  13104022 GAGCCCTC
i proCoq1.NW_012140524v1    I 93 C 0
s otoGar3.GL873576            4566493 8 -  12054995 gagctctc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2408988 8 - 149736546 GAGCTTTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722489 8 +  45876710 gggctctc
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3004992 147 +  31815103 I
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=154506.000000
s hg38.chr12_GL383549v1_alt     78291 10 +    120804 tccagtcctg
s panTro5.chr12              62769878 10 + 137163284 tccagccctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893684 10 + 135337776 tccagccctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109074 10 -  32808036 TCCAGCCCTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299111 10 +  34552619 TCCAGCCCTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604758 10 - 133663169 tccagccctg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004323 10 - 137757926 TCCAGCCCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382273 10 -   7948249 tccagccctg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282810 10 -  10730278 tccagccctg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773808 10 - 128539186 TCCAGCCCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169032 10 +    435186 tccagccctg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562904 10 +   9309688 TCCAGCCCTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394786 10 -  29834108 TCCAGCCCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       847349 10 -   1015025 tccagcccag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867529 10 -   2295209 tccagcccag
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3005139 10 +  31815103 TCCAGCCCTG
i micMur3.chr21             I 147 C 0
s proCoq1.NW_012140524v1      5095728 10 +  13104022 TCCAGCCCTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4566501 10 -  12054995 tccagccctg
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2408996 10 - 149736546 TCCACTCCTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722497 10 +  45876710 acaggccctg
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             920954 2476 -   1687904 I

a score=771707.000000
s hg38.chr12_GL383549v1_alt     78301 69 +    120804 gcttatagtaccttaaaagtcaacctctatgtagat-atgtagctacatcatgg-atgtttaggaaatttg
s panTro5.chr12              62769888 69 + 137163284 gcttatagtacctaaaatgtcaacctctatgtagat-atgtagctacatcatgg-atgtttaggaaatttg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893694 69 + 135337776 gcttatagtaccttaaatgtcaacctctatgtagat-atgtagctacatcatgg-atgtttaggaaatttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109084 69 -  32808036 GCTTATAGTACCTTAAAAGTCAAACTCTATGTAGAT-ATGTAGCTACATCatgg-atgtttaggaaatttg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299121 69 +  34552619 GCTTATAGTACCTTAAAAGTCAAACTGTATGTAGAT-ACGGAGCTACATCatgg-gtgtttaggaaattta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604768 69 - 133663169 gctgatagtaccttcaaagtcaaactccatgtagat-atgtagctatgtcatgc-gtgtttaggaaattta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004333 69 - 137757926 GCTGATAGTACCTTCAAAGTCAAACTCCATGTAGAT-ATGTAGCtatgtcatgc-gtgtttaggaaattta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382283 69 -   7948249 gctgatagtaccttcaaagtcaaactccatgtagat-aggtagctatgtcatgc-gtgtttaggaaattta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282820 69 -  10730278 gctgatagtaccttcaaagtcaaactccatgtagat-atgtagctatgtcatgc-gtgtttaggaaattta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773818 69 - 128539186 GCTGATAGTACCTTCAAAGTCAAACTCCATGTAGAT-ATGCAGCTGTGTCATGC-GTGTTTAGGAaattta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169042 69 +    435186 gctgatagtaccttcaaagtcaaactccatgtagat-atgtagctatgtcatgc-gtgtttaggaaattta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562914 69 +   9309688 GCTGACAGTACCTTAAAAATCAAACTCCATGTAGAT-ATGTAGCTATGCCatgg-gtgtttaggaaattta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11394796 69 -  29834108 GCTTATGGTACCTTAAAAATCAAACTCTTAGTAGAT-GTGTAGCTACGTCATGG-GTGTTGAGGAAATTTA
i saiBol1.JH378123          C 0 I 368
s cebCap1.NW_016107911v1       847359 69 -   1015025 gcttatagtacgttaaaagtcaaactctttgtagat-gtgtagctacgtcatgg-gtgttgaggaaattta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867539 69 -   2295209 gcttatagtaccttaaaagtcaaactctttgtagat-gtgtagctacgtcatgg-gtgttaaggaaattta
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3005149 69 +  31815103 GCTTATGGTACCTTACAGGTCAAATTCAGTGTAGAT-ATGTAGCTACGtaatag-atgcttaagaaattta
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5095738 60 +  13104022 ACCTGTGGTACCTTAAAAGTCAAACTCA-----------CTAGCTACAtaatagaatgcttaagaaattta
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4566511 67 -  12054995 gcttatagtaccttcaaagtcaaactgtctgtagataatgtagctacgtaataa-atgctt---aaatctt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2409006 69 - 149736546 GCTAAAAAGATCTTACAGATCTAACTCTTTATAGAC-ATGAAGCTGGATTGTGA-GAGTCTCGGGAGTCTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722507 68 +  45876710 gcc-atagtgctttcagggtctaactctttgtccac-atgtggctatgcaggga-ctggttaagaaactaa
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             923430 61 -   1687904 GCTCGCAGGCCCTCCGTGGTGCAGCTCTTGGTGGAC-GTGTAGTTACA-----G-GTGCACGggaaat---
i dasNov3.JH562883          I 2476 C 0

a score=4255150.000000
s hg38.chr12_GL383549v1_alt     78370 288 +    120804 aaaacatttcctctgtagataaattctagatttcaagactattgtcttgctgcggtctcaaaaattctgttccacttgtcaaacgctggatatagac--tccgcattcttgtggtaataatcccaaacctccctaatataaatggacgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatata--ttattct-----catG-CGTTATTTCTTAtttccagaaaggcagtgttttattcggtaaggaggtttcatagcactatattatca
s panTro5.chr12              62769957 287 + 137163284 agaacatttcctctgtagataaattctagatttcaagactattgtcttgctgtgatctcaaaaattctgttccacttgtcaaacgctggatatagac--tctgcattcttgtggtaataatcccaaacctccctaatataaatggacgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatata--ttattct-----catG-CATTATTTCtt-tttccagaaaggcagtgttttattcggtaaggaggtttcatagcactatattatca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60893763 287 + 135337776 agaacatttcctctgtagataaattctagatttcaagactattgtcttgctgtgatctcaaaaattctgttccacttgtcaaacgctggatatagac--tctgcattcttgtggtaataatcccaaacctccctaatataaatggacgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatata--ttattct-----catG-CATTATTTCtt-tttccagaaaggcagtgttttattcggtaaggaggtttcatagcactatattatca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109153 286 -  32808036 aaaacatttcctctgtagataaattctagatttcaagactattgtcttgctgtggtctcaaaaattctgttccacttgtcaaacgctggatatagac--tctgcattcttgtggtaataatcccaaacctccctaatataaatggacgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatata--ttattct-----catG-CGTT-TTTCtt-tttccagaaaggcagtgttttattcggtaaggaggtttcatagcactatattatca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299190 285 +  34552619 aaaacatttcctctctagataaactctagatttca--tctattgtcttgctgtggtctcaaaaattctgttccacttgtcaaacgctggctatagac--tctgcattcttgcggtaataatcccaaacctccctaatataaatggacgtctctggcaaaacagagagaaatacaaacaagagaaGCACACTGATAGATTTTAAAATATATA--TTATTCT-----CATG-CATTATTTCtt-tttccagaaaggcagtgttttattcggtaaggaggtttcatagcactatattatca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104604837 287 - 133663169 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tccgcattcttgcggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattatga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004402 287 - 137757926 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacaggc--tccgcattcttgcggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattatga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382352 287 -   7948249 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tccgcattcttgcggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattatga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8282889 287 -  10730278 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tccgcattcttgtggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattgtga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100773887 287 - 128539186 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tctgcattcttgcggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattatga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169111 287 +    435186 aaaacatttcctctctagataaattctagatttcaagactattgtcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tccgcattcttgcggtaataatcctaaacctccctaatacaaatgaatgtctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-TGTTATTTCtt-tttccagcaagacagtgttgtattcggtaaggaggtttcatagcactgtattatgg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3562983 287 +   9309688 aaaacatttcctctctagataaattctagatttcaagactattatcttgctgtgctctcaaaaattctgtcccacttgtcaaacactggatacagac--tacgcattcttgcggtaataatcctaaacctccctaatataaatgaatgtctctggcaaaacagagagaaatataaacaagaaaagcacactgatagattttaaaatatgta--ttattct-----catG-CGTTATTTCtt-tttccagcaaggcagtgttttattcggtaaggaggtttcatagcactgtattatga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11395233 290 -  29834108 aaaacatttcctctctagataaattctagatttcaagactattgtcttgatgtggtttcagaaattctgttccacttgtcaaactctggatatagactgtttgcattcctgcagtactgattctaaacctccctcatgtaaatggatgtctctggcacaacagagagaaacataaacaagaaaagcatactgatagattttaaaatatatattttattct-----catG-CATTATTTCtt-tctccagaaaggcagtgttttatttggtaaggaggtttcatagcactatagtatc-
i saiBol1.JH378123          I 368 C 0
s cebCap1.NW_016107911v1       847428 289 -   1015025 aaaacatttcctctctagataaattctagatttcaagactattgtcttgatatggtttcagaagttctgttccacttgtcaaacactggatgcagaccgtttgcattcctgcagtactaatcctaagcctccctaatgtgaatggatgtctctggcaaaacagagagaaacataaacaagaaaagcatactgatagattttaaaatatata--ttattct-----catG-CATTATTTCtt-tctccagaaaggcagtgttttatttggtaaggaggtttcatagcactatactatca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1867608 289 -   2295209 aaaacatttcctctctagataaattctagatttcaagactattgtcttgatatggtttcagaaattctgttccacttgtcaaacactggatacagactgtttgcattcctgcagtactaatcctaaacctccctaatgtaaatggatgtctctggctaaacagagagaaatataaataagaaaagcatactgatagattttaaaatatata--ttattct-----catA-TATTATTTCtt-tctccagaaaggcagtgttttatttggtaaagaggtttcatagcactatactatca
i aotNan1.NW_018488218v1    C 0 I 6
s micMur3.chr21               3005218 290 +  31815103 aaaacctttcctctctagataaattctagatgtgaagactactgtcttgctgtggtctcaaaaattctattcctgttgtcaaacactgaatacggactctttgcattcccgaggtaataatcctaaacctctctgatacaaatggatgcctctggcaaaacagagagaaatacaaacaagaacagctcactgatagatttaaaaatatata--ttatcct-----catgacaCTATTTCtt-tttccataaaggcagtgttttagttggtaaggagttttcgtagcactgcactatca
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5095798 290 +  13104022 aaaacctttcctctctagataaattctagatttgaagactattgtcttgctgtggtctcaaaaattctattcctgttgtcaaacactgaatacagactctttgcattcttgcggtaataatcctaaacctctctgatacaaatggatgcctctggcaaaacagagagaaatacaaacaagaaaagcacactgatagatttaaaaatatata--ttatcct-----catgacaCTATTTCtt-tttccataaaggcagtgttttagttggtacggagttttcatagcactacactatct
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4566578 285 -  12054995 aaaacctttcctctctagaaaaattctagattttaagacta-----ttgctgtggtctcagaaattttatttcagttgtcaaacactgaatacagactctttgcattcctgcggtaataatcctaaacctctctgataccaatggatgcttctggcaaaacagagagaaatacaaataagaaaagcatactgataggtttaaaaatatata--ttatcct-----catgacaCTATTTCtt-tttccataaaggcagtgttttagttgggaaggagctttcctagcattacactatca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2409075 283 - 149736546 Cagattcttcctctctagatatactctagatttaaagacagttgtctggctgtcatctccaaggttctagcccagttgtcaagagttcaatacagac--tccaaattcctgtggccacaatctccaacctccttgttacaaat----gCCAAAGGCAAAACAGAGAGCAATACAAATGAGCAAAGCATGCTGACTTACTTAAGATCATTTA--TCACATT-----CATGACATTGTTTCTC-TTTCCACAAAGCCAGTATCCTGGT-GGTAAGGAGGCCTCAGAACACTCtactatca
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722575 275 +  45876710 gaaactctttctctc--gataaattttagattttaagacta-----------tagtctcaaaacttcgattccagttgtcaaaagctgaatacagac--ttcgcattcctgcggtaacaagcccaaacccccctgacaccaacggatgcctctggcaaatcagagagaaatacagacaagaaaagcatgctgatagatttaaaaatatata--ttatcct-----catgacaCTATTTCtt-tttccatcaaggcagtattttagttggtaaggaggtctcagagcactatactatca
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             923491 267 -   1687904 ----cccttcctctcggggta-------------aagcctattgtctcgctgtggtctcagaacttctattccagttgtcaaaagctgaacacagactctcggcatttctgcggtaacaatcccaagccgccctgatacaaacggatgcctctgggaaaacaga----aatacaaacaagaaaaGCATACTGCTAGCTTCAAAAATATACA--TTACCCCCCCCACACA-TGCTATTTCtt-tttccagaaaggtggtgttttagttggtaagtc-tttccatagcactgtct-----
i dasNov3.JH562883          C 0 C 0

a score=92140.000000
s hg38.chr12_GL383549v1_alt     78658 9 +    120804 atactgtgt
s panTro5.chr12              62770244 9 + 137163284 atactgtgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894050 9 + 135337776 atactgtgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109439 9 -  32808036 atactgtgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299475 9 +  34552619 ataccgtgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605124 9 - 133663169 ataccatgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004689 9 - 137757926 ataccatgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382639 9 -   7948249 ataccatgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283176 9 -  10730278 ataccatgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774174 9 - 128539186 ataccatgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169398 9 +    435186 ataccatgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3563270 9 +   9309688 ataccatgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11395523 4 -  29834108 -----atgt
i saiBol1.JH378123          C 0 I 3
s cebCap1.NW_016107911v1       847717 4 -   1015025 -----atat
i cebCap1.NW_016107911v1    C 0 I 3
s micMur3.chr21               3005508 9 +  31815103 atactgtat
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5096088 9 +  13104022 atactgtat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4566863 9 -  12054995 acactgtat
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2409358 9 - 149736546 atacaatat
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722850 9 +  45876710 ataccgtac
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             923758 9 -   1687904 ataccacac
i dasNov3.JH562883          C 0 C 0
e aotNan1.NW_018488218v1      1867897 6 -   2295209 I

a score=9564880.000000
s hg38.chr12_GL383549v1_alt     78667 536 +    120804  
s panTro5.chr12              62770253 536 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894059 536 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109448 536 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7299484 536 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605133 536 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109004698 536 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1382648 536 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283185 536 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774183 536 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169407 536 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3563279 536 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11395530 536 -  29834108  
i saiBol1.JH378123          I 3 C 0
s cebCap1.NW_016107911v1       847724 536 -   1015025  
i cebCap1.NW_016107911v1    I 3 C 0
s aotNan1.NW_018488218v1      1867903 536 -   2295209  
i aotNan1.NW_018488218v1    I 6 C 0
s micMur3.chr21               3005517 536 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5096097 535 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4566872 537 -  12054995  
i otoGar3.GL873576          C 0 M 117
s mm10.chr6                   2409367 525 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19722859 535 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             923767 534 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=1501992.000000
s hg38.chr12_GL383549v1_alt     79203 112 +    120804 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAG-TTTTTTTTCTTAAAATGTCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
s panTro5.chr12              62770789 113 + 137163284 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAGTTTTTTTTTCTTAAAATGTCCAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894595 113 + 135337776 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAGTTTTTTTTTCTTAAAATGTCCAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAAAATATGTGACACATAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3109984 112 -  32808036 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAG-TTTTTTTTCTTAAAATGTCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300020 113 +  34552619 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAGTTTTCTTTTCTTAAAATGTCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605669 113 - 133663169 AAAGGTGAAGTCATTCCAGGACCCCCC-CAAAACAT-TTTTTTTTCTTAAAATGCTAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005234 111 - 137757926 AAAGGTGAAGTCATTCCAGGA-CCCCC-CAAAACA--TTTTTTTTCTTAAAATGCCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383184 112 -   7948249 AAAGGTGAAGTCATTCCAGGA-CCCCC-CAAAACAT-TTTTTTTTCTTAAAATGCCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283721 112 -  10730278 AAAGGTAAAGTCATGCCAGAA-CCCCC-CAAAACAT-TTTTTTTTCTTAAAACGCCAAATGATTCTTTGAAGGTATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774719 112 - 128539186 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACAT-TTTTTTTTCTTAAAATGCCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       169943 112 +    435186 AAAGGTAAAGTCATTCCAGAA-CCCCC-CAAAACAT-TTTTTTTTCTTAAAATGCCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3563815 111 +   9309688 AAAGGTGAAGTCATTCCAGAA-CCCCC-CAAAACA--GTTTTTTTCTTAAAATGCCAAATGATTCTTTGAAGATATTTAACAATTTAATATGAGTGCAGAATATGTGACACATAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396066 111 -  29834108 AAAGGTGAAGTCATTCCAGAA-AACCC-CAAAACA--GTTTTTTTCTTAAAATGTCATATGATTATTTGAAAATATTTAACAATTTAATATGAGTGCAGGATATATGACACATCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848260 111 -   1015025 AAAGGTGAAGTCATTCCAGAA-AACCC-CAAAACA--GTTTTTTTCTTAAAATGTCATATAATTCTTTGAAGATATTTAACAATTTAATGTTAGTGCAGGTTATATGACACATCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868439 111 -   2295209 AAAGGTGAAGTCATTCCAGAA-AACCC-CAAAACA--GTTTTTTTCTTAAAATGTCAAATGAATCTTTGAAGATATTTAACAATTTAATATGAGTGCAGGATATATGACACATCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3006053 110 +  31815103 AAAGGTGAAATCATTCCAGAA-CCCCC-C-AAACA--GTTTTTTTCATAAAATGTCAAATGATTCTTTCAAGACATTTAACAATTTTGTATGAGCGCAGAATATGTGGCACATAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5096632 110 +  13104022 AAAGGTGAAGTCATTCCAGAG-CCCCC-C-AAACA--GTTTTTTTCATAAAATGTCAAATGATTCTTTAAAGACATTTAACAATTTTGTATGAGTGCAGAATATGTGGCACATAA
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                   2409892 109 - 149736546 AAAGGTGGAATCCTTCCACAA-CCCCCACCAGACA--GTTTTCCTCTGAACATGTCAA--GATTCTTCAAAGACACTGAACAACTTTGTAT-AGTACAGAATTCATGATACACAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19723394 112 +  45876710 AAAGGTGAAGTCATTCCAGAA--CCCC-CAAAACAGTTTTTTTCCCTTAAAATGTCACATGATTCTTTAGAAACATTTAAAAATTTTGTATGAGTGCAGAATAAGTGATGCATCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924301 111 -   1687904 AAAGGTGAAGTCATTCCAGAA--CTCT-CAAAACAGTTTTTTTCCCTTAAAATATCAAATATTTCTTTACAGAC-TTTAACAATCCTGTGTGAGTGCAGAGTAAGTGATGCACAA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4567409 117 -  12054995 M

a score=692728.000000
s hg38.chr12_GL383549v1_alt     79315 65 +    120804 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACATAAATACATAACTAACTAAAGATTGAGA
s panTro5.chr12              62770902 65 + 137163284 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACATAAATACATAACTAACTAAAGATTGAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894708 65 + 135337776 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACATAAATACATAACTAACTAAAGATTGAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110096 65 -  32808036 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACATAAATACATAACTAAATAAAGATTGAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300133 65 +  34552619 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACATAAATACATAACTAAATAAAGATTGAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605782 55 - 133663169 ----A------TACAT------TTATTTCTATAACTG----TATTGACACATAAATATATAAC----TAAAGATTGAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005345 55 - 137757926 ----A------TACAT------TTATTTCTATAACTG----TATCTACACGTAAATATATAAC----TAAAGATTGAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383296 55 -   7948249 ----A------TACAT------TTATTTCTATAACTG----TATCTACACATAAATATATAAC----TAAAGATTGAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283833 55 -  10730278 ----A------TACAT------TTATTTCTATAAATG----TATCTACACATAAATATATAAC----TAAAGATTGAGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774831 55 - 128539186 ----A------TACAT------TTATTTCTATAAATG----TATCTACACATAAATATATAAC----TAAAGATTGAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170055 55 +    435186 ----A------TACAT------TTATTTCTATAAATG----TATCTACACATAAATATATAAC----TAAAGATTGAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3563926 55 +   9309688 ----A------TACAT------TTATTTCTATAAATG----TATCTACACATAAATATATAAC----TAAAGATTGAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396177 65 -  29834108 ----ATACATTTACAT------TTATTTCTATAAGTG----TGTCTACACAGAAATACATAGCTGAATAAAGATTGAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848371 65 -   1015025 ----ATACATTTACAT------TTATTTCTATAAATG----TGTCTACACAGAAATACATAGCTAAATAAAGACTGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868550 65 -   2295209 ----ATACATTTACTT------TTATTTCTATAAATG----TGTCTACACAGAAATACACAGCTAAATAAAGATTAGAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3006163 65 +  31815103 ----ATACATTTACAT------TTATTTCTACAGATA----TGTCTATATACAAATACCTAATTAAATAAAAATTGAGA
i micMur3.chr21             C 0 I 568
s proCoq1.NW_012140524v1      5096742 65 +  13104022 ----ATACATTTGCAT------TTATTTCTATAGATA----TGTCTataaataaatacataattaaataaaAATTGGGA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567527 65 -  12054995 ----ATACATTTACGT------CTGTTTCTATTGCTA----TGTCTCTCTTTAGATACGTAACTAAATAAAAATTGAGA
i otoGar3.GL873576          M 117 C 0
s mm10.chr6                   2410001 61 - 149736546 --------ATGTACCTAACATCTTTCTTCTAGAAATC----TATCTACACATA------TAAGTAGATAAAACTTAAGT
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19723506 70 +  45876710 ----ACACATGGACCT-----TTTACTTCTATAAATGTGTCTGTCTATACACAAACACGTAACTAAATAAAAATTGAGA
i canFam3.chr27             C 0 I 7
s dasNov3.JH562883             924412 70 -   1687904 ATACATCTATTTACAT-----TTTGTTTCTACAAGAA----TGTCTATGCACAGATATATAACAAAATACAAATTAAGA
i dasNov3.JH562883          C 0 I 7

a score=328320.000000
s hg38.chr12_GL383549v1_alt     79380 26 +    120804 TATT-TCTTTCTAT-AAAAGAAAGATGT
s panTro5.chr12              62770967 26 + 137163284 TATT-TCTTTCTAT-AAAAGAAAGATGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894773 26 + 135337776 TATT-TCTTTCTAT-AAAAGAAAGATGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110161 26 -  32808036 TATT-TCTTTCTAT-AAAAGAAAGATGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300198 26 +  34552619 TATT-TCTTTCTAT-AAAAGAAAGATGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605837 26 - 133663169 TATT-TCTTTCTAT-AAAAGGAAGATGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005400 26 - 137757926 TATT-TCTTTCTAT-AAAAGGAAGATGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383351 26 -   7948249 TATT-TCTTTCTAT-AAAAGGAAGATGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283888 26 -  10730278 TATT-TCTTTCTAT-AAAAGGAAGACGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774886 26 - 128539186 TATT-TCTTTCTAT-AAAAGGAAGATGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170110 26 +    435186 TATT-TCTTTCTAT-AAAAGGAAGATGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3563981 26 +   9309688 TATT-TCTTTCTAT-AAAAGGAAGATGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396242 26 -  29834108 CGTT-CCTTTCTAT-AAAAGGAAGATGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848436 26 -   1015025 TGTT-CCTTTCTAT-AAAAGGAAAATGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868615 26 -   2295209 CATT-CCTTTCTAT-AAAAGGAAGATGT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5096807 26 +  13104022 AGTT-TCTTTCTGT-AAAAGGAAGAAAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567592 26 -  12054995 AGTT-CCTTACTGC-ACAAGGTAGAAAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410066 28 - 149736546 TATTGTTTTTCTGTAAAAAGGAAGATTC
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19723583 26 +  45876710 TATG-GCTTTCTGC-GGAGGGAAGAAGT
i canFam3.chr27             I 7 C 0
s dasNov3.JH562883             924489 26 -   1687904 TATT-GCTTTCTGT-GAAGGGAAGAAGT
i dasNov3.JH562883          I 7 C 0
e micMur3.chr21               3006228 568 +  31815103 I

a score=560812.000000
s hg38.chr12_GL383549v1_alt     79406 36 +    120804 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
s panTro5.chr12              62770993 36 + 137163284 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894799 36 + 135337776 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110187 36 -  32808036 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300224 36 +  34552619 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605863 36 - 133663169 TTCTTTA--ACAAGGATATAGAAAATGAT-GA-AATTCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005426 36 - 137757926 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383377 36 -   7948249 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283914 36 -  10730278 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774912 36 - 128539186 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170136 36 +    435186 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564007 36 +   9309688 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AATTCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396268 36 -  29834108 TTCTTTA--ACAAGGATATAGAAAATTAT-AA-AACTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848462 36 -   1015025 TTCTTTA--ACAAGGGTATAGAAAATTAT-AA-AACTCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868641 36 -   2295209 TTCTTTA--ACAAGGATATAGAAAATTAT-AA-AACTCCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3006796 36 +  31815103 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AACTCTA
i micMur3.chr21             I 568 C 0
s proCoq1.NW_012140524v1      5096833 34 +  13104022 TTCTTTA--ACAAGGATATAGAAAATTAT-GA-AACTC--
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567618 36 -  12054995 GTCTTTA--GCCAGGTTACAGAAAATTAG-GA-AACTCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410094 39 - 149736546 TTCTTTAAGAAAAAAATGTAAAGAATTATGGA-AATTCCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19723609 37 +  45876710 TTCTTTA--ACAAGGATATAGAAAATCAG-GAGAATTCTG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924515 36 -   1687904 TCCTTAA--ACATGGATAGAGAAAATTAG-CA-AACTCCA
i dasNov3.JH562883          C 0 I 1

a score=3092952.000000
s hg38.chr12_GL383549v1_alt     79442 246 +    120804 tgttatgagatgaattgtcttcttc-caaaattcatatattaaagtcctaacccagcgtacttc------ataataagaccacatttggaaatagggtc-ttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgactggtgctcttacatgaagaggaagtcttgacacagccacatgtacagaggg-aagaccacatgaagacaaaggaagaagacaaccatctacaagcca
s panTro5.chr12              62771029 246 + 137163284 tgttatgagctgaattgtcttcttc-caaaattcatatattaaagtcctaacccagcgtacttc------ataataagaccacatttggaaatagggtc-ttaaagaggtaattaatttaaaatgaggtcatta--------------------aaatgggccctaattcaatatgactggtgctcttacatgaagaggaagtcttgacacagccacatgtacagaggg-aagaccacatgaagacaaaggaagaagacaaccatctacaagcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60894835 246 + 135337776 tgttatgagctgaattgtcttcttc-caaaattcatatattaaagtcctaacccagcgtacttc------ataataagaccacatttggaaatagggtc-ttaaagaggtaattaatttaaaatgaggtcatta--------------------aaatgggccctaattcaatatgactggtgctcttacatgaagaggaagtcttgacacagccacatgtacagaggg-aagaccacatgaagacaaaggaagaagacaaccatctacaagcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110223 246 -  32808036 tgttatgagctgaattgtcttcttc-caaaattcatatattaaagtcctaacccagcgtacttc------ataacgagaccacatttggaaatagggtc-ttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgactggtgctcttacatgaagaggaagtcttgacacagccacatgtacagaggg-aagaccacatgaagacaaaggaagaagacaaccatctacaagcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300260 246 +  34552619 tgttatgagctgaattgtcttcttc-caaaattcatatgtgaaagtcctaaccctgcgtactcc------ataatgagaccacatttggaaatagggtc-ttaaagaggcaattaatttgaaatgaggtcatta--------------------agatgggccctagttcaacatgactggtgctcttacacgaaaaggaagtctagacacagacacatgtacagaggg-aagaccacaggaagacaaaggaagaagacaaccatctacgagcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104605899 247 - 133663169 tgctatgagctgaattgtcttcttc-caaaattcatgtgttaaagtcctaacccagcgtacttc------ataataagaccacatttcgaaatagggtctttaaagaggtaaataatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggccacatgtacagaggg-aagaccacatgaagacacagggagaagacaacgatctgcaagcca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005462 247 - 137757926 tgctatgagctgaattgtcttcttc-caaaattcatgtgttaaagtcctaacccagcgtacttc------ataaggagaccacatttcgaaatagggtctttaaagaggtaaataatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggccacatgtacagaggg-aagaccacatgaagacacagggagaagacaacgatctgcaagcca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383413 247 -   7948249 tgctatgagctgaattgtcttcttc-caaaattcatgtgttaaagtcctaacccagcgtacttc------ataatgagaccacatttcgaaatagggtctttaaagaggtaaataatttaaaatgaggtcgtta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggccacatgtacagaggg-aagaccacatgaagacacagggagaagacaacgatctgcaagcca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8283950 247 -  10730278 tgttatgagctgaattgtcttcttc-caaaattcatgtgttaaagtcctaacccagcgtacttc------ataatgagaccacatttggaaatagggtctttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggccacatgtacagaggg-aagaccacatgaagacacagggagaagataacgatctgcaagcca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100774948 247 - 128539186 tgttatgagctgaattgtcttcttc-caaaattcatgtgttaaagtcctaacccagcgtacttc------ataatgagatcacatttggaaatagggtctttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggctacatgtacagaggg-aagaccacatgaagacacagggagaagacaacgatctgcaagcca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170172 247 +    435186 tgttatgagctgaattgtcttcttc-caaaattcatgtgttgaagtcctaacccagcgtacttc------ataatgagaccacatttcgaaatagggtctttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgattggtgctcttacatgaagaggaagtctagacacggccacatgtacagaggg-aagaccacatgaagacacagggagaagacaacgatctgcaagcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564043 247 +   9309688 TCttatgagctgaattgtcttcttc-caaaattcgtatgttaaagtcctaacccagagtacttc------ataatgagaccacctttggaaatagggtctttaaagaggtaattaatttaaaatgaggtcatta--------------------agatgggccctaattcaatatgactggtgctcttacatgacgaggaagtctagacacagccacatgtagagaggg-aagaccacaggaagacacagggagaagacaacgatctgcaagcca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396304 246 -  29834108 tgtgatgggctgaattgccttcttc-caaaattcatatcttaaagtcctaacccagcgtacttc------ataatgagaccacatttggtaatagggtctttaaaaaggtaattaatttaaaatgaggtcatta--------------------atatgggtcc-aattcaatatgactggtgctcttacatgaagaggaagtctggacacaggcagatatgcagaggg-aaggccatgcgaagacacaggaagaagacatccatccccaagcca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848498 246 -   1015025 tgtgatgggctgaattgccttcttc-caaaattcatatcttaaagtcctaacccagtgtacttc------ataatgagaccacatttggtaagagggtctttaaaaaggtaattaatttaaaatgaggtcatta--------------------atatgggccc-aattcaatatgactggtgctcttacatgaagaggaagtctggacacaggcagatatacagaggg-aaagccatgtgaagaagcaggaagaaaacaaccatccacaagcca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868677 246 -   2295209 tgtgatgggctgaattgccttcttc-taaaattcatatcttaaagtcctaacccagtgtacttc------ataatgagaccacatttggtaatagggtctttaaaaaggtaattaatttaaaatgaggtcatta--------------------atatgggccc-aattcaatatgactggtgctcttacatgaagaggaagtctggacacagacaaatatacagaggg-aagcccatgtgaagacgcaggaaggagacaaccatccacaagcca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3006832 251 +  31815103 tgttatgggttgaattgtgtcccct-aaaaattcatatgttgaagtcctaaccctcaatacctc--tttcttactctgaccatatttggagacagcgtctttaaggaggtaattaatttaaaatgaggtcagta--------------------gggtgcaccctaattcaatatgcctggtgttcttacaagaagaggaaggttggacacagacacagatacagaggg-aagaccaggcggagacacaggaagaaaacagtcacctacaagcca
i micMur3.chr21             C 0 I 202
s proCoq1.NW_012140524v1      5096867 253 +  13104022 tgctatgggctgaattgtgtccgcc-agaaattcgtatgttgaagtcctaaccctcaatacttcaataccttaatgtgaccatatttggagatagggtctttaaagaggtaattaatttaaaatgaggtcagaa--------------------gggtggaccctaattcaatatgcctggtgttcttacaagaagaggaaggttggacacagacacatatacagaggg-aagaccaggcggagacacaggaagaagacagccacctacaagcca
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567654 236 -  12054995 TATGatgggctaaattgtgtccccc-agaaattcatatgttgaagtcctaaccctcaatccctc------ttaatgttaccgtatttggagatagggtctttaaaaaggtaattaattt-aaatgagatcatca--------------------gggtgggccctaatgccgtatgac--atgttcttacaagaagaggaagtcaggacagagacgcgtgtgcagcgggaaagaccatacgaggactcaa---------agccatctacaagcca
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410133 238 - 149736546 tgctatgggcttaattatgtcattt-caaaactcatatgttaaaggcctaattctcagtgtctc------tgagtgggac---atttagagataggatctttaaagaggcaattaactgaaaatgaggtcgtta--------------------gga--gagccagcttcagtgtgactgctgtccttgcaagaagaacaagtttggacacagatacagtgtgagagag-aagaccacac--agacacaggaa--aaacagccacctgcagacaa
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19723646 253 +  45876710 CAATGtgggctacatcatgttccccacaaaattcatatgatgaggtcccaaatctcagtacttc------agactgtaaccatatttggagatagaggctttaaagaggtaattaagt-aaagtgagatcatggcgtgggtggggggggggggtggagggttcctaattcagtatga-tgatgtccttgtcagaagaggacatttggatacagacgcatgaacaaaggg--agacc-tttgaagatgcagggagaaggtggcca-----------
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             924551   1 -   1687904 I

a score=910052.000000
s hg38.chr12_GL383549v1_alt     79688 88 +    120804 aggagagcagcctcagatgaaaccagccctgacgataccttgatctccgacttctcacctccaacattctgagacaatcaactgctat
s panTro5.chr12              62771275 88 + 137163284 aggagagcagcctcagatgaaaccagccctgacgataccttgatctccgacttctcacctccaacattctgagacaatcaactgctat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895081 88 + 135337776 aggagagcagcctcagatgaaaccagccctgacgataccttgatctccgacttctcacctccaacattctgagacaatcaactgctat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110469 88 -  32808036 aggagagcagcctcagatgaaaccagccctgacgataccttgatctccgacttctcacctccaacattctgagacaatcaactgctgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300506 88 +  34552619 aggagagcagcctcagatgaaaccagccctgatgataccttgatctccgacttctcacctccagcatcctgagacaataagctgctgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606146 87 - 133663169 aggagagcagcctcagatgaaaccagccctgatgataccttgatctctgacttctcacctctgacat-ctgagacaataaactgctgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005709 87 - 137757926 aggagagcagcctcagatgaaaccagccctgatgataccttgatctctgacttctcacctctgacat-ctgagacaataaactgctgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383660 87 -   7948249 aggagagcagcctcagatgaaaccagccctgatgataccttgatctctgacttctcacctctgacat-ctgagacaataaactgctgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284197 87 -  10730278 aggagagcagcctcagatgacaccagccctgatgataccttgatctctgacttctcacctctgacat-ctgagacaataaaccgctgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775195 86 - 128539186 aggagagcagcctcagatgaaaccagccctgatg-taccttgatctctgacttctcacctctgacat-ctgagacaataaactgctgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170419 87 +    435186 aggagagcagcctcagatgaaaccagccctgatgataccttgatctctgacttctcacctctgacat-ctgagacaataaactgctgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564290 87 +   9309688 aggagagcagcctcagatgaaaccagcactgatgataccttgatctctgacttctcacctctgacat-ctgagacagtaaactgctgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396550 88 -  29834108 aggagagcagcctcagatgaaaccagctctgatgataccttaatctcacacttctcacctccaacatttggagacaataaattgctgt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848744 88 -   1015025 aggagagcagcctcagataaaactagctctgatgataccttaatctcggacttctcacctccaacttttggagacaataaattgctgt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1868923 88 -   2295209 aggagagcagcctcagatgaaaccagctctgatgataccttaatctcagacttctcacctccaacatttggagacaataaattgctgt
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097120 87 +  13104022 cagagagaggcctcagaagaaaccaatctac-cgacaccttaatgtcagacttccagcctccagaattttgagaaaataaatttctgt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567890 87 -  12054995 aagagagaggcatcagaggaagccagccctg-ctacatctcagggtcagccctccagccttcagagctgtgagaaaataaatttctgt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410371 82 - 149736546 aggagagg---cactgaggaaatcatactcaatggctccttcatccccaactcctagcctcctagatcatgaggatataaatttc---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19723899 77 +  45876710 aggagagaggcctcaggagaaacctac-----tgacaccttaat------cttctagcctccagaactgtgagaaaatgaattcctgt
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3007083 202 +  31815103 I
e dasNov3.JH562883             924551  1 -   1687904 I

a score=746230.000000
s hg38.chr12_GL383549v1_alt     79776 69 +    120804 ggcataagcccctcagactaaggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
s panTro5.chr12              62771363 69 + 137163284 ggcataagcccctcagactatggtactttgttacagcagccctagcaaatcaaCATGCTCCATAACCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895169 69 + 135337776 ggcataagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110557 68 -  32808036 ggcataagcccctcagactatggtactttgttatggcag-cctagcaaatcaaCATGCTCCATAACCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300594 69 +  34552619 ggcgtaagcccctcagactatggaactttgttacagcagccctagcaaatcaacacGCTCCATAACCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606233 69 - 133663169 ggcgtaagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005796 69 - 137757926 ggcgtaagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383747 69 -   7948249 ggcgtaagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284284 69 -  10730278 ggcgtaagcccctccgactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775281 69 - 128539186 ggcgtaagcctctcagactatggtcctttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170506 69 +    435186 ggcataagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564377 69 +   9309688 ggcataagcccctcagactatggtactttgttacggcagccctagcaaatcaaCATGCTCCATAACCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396638 69 -  29834108 ggcttaagccactcagactgtggtactttgttatggcagccctagcaaatcaataTGCTCCATAACCTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848832 69 -   1015025 ggcttaagccactcagactgtggtactttgttatggcagccctagcaaatcaaCATGCTCCATAACCTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869011 69 -   2295209 ggcttaagccactcagaccatggtactttgttatggcagccctagcaaaTCGACATGCTCCATAACCTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097207 69 +  13104022 tgtttaagccattcagtctgtgggactttgttatggcagccctagcaaatcaatataCTCCACAACCTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4567977 53 -  12054995 tctttgagccactcaatatgtggggctttgttatggcaac----------------actCCACAATCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410453 67 - 149736546 --cacagacctgcccagctgcagcagtttattaagatgcccacagcaaaggaatacTCTCTCTAATCTA
i mm10.chr6                 C 0 C 0
e micMur3.chr21               3007083 202 +  31815103 I
e canFam3.chr27              19723976  0 +  45876710 C
e dasNov3.JH562883             924551  1 -   1687904 I

a score=612733.000000
s hg38.chr12_GL383549v1_alt     79845 69 +    120804 AAATTATGCCAAGAGGTACAAAACACAATTAAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAC
s panTro5.chr12              62771432 69 + 137163284 AAATTATGCCAAGAGGTATAAAACACAATTAAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895238 69 + 135337776 AAATTATGCCAAGAGGTATAAAACACAATTAAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110625 69 -  32808036 AAATTATGCCAAGAGGTATAAAACAAAATTAAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300663 69 +  34552619 AAATTATGCCAAGAGATATAAAATACAATTAAGGTTATTTGTTCTGCAGATATTGAACAAAATCTGCAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606302 69 - 133663169 AAATAATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005865 69 - 137757926 AAATAATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383816 69 -   7948249 AAATAATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284353 69 -  10730278 AAATAATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775350 69 - 128539186 AAATTATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170575 69 +    435186 AAATAATCCCAAGAGGTATAAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTGCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564446 69 +   9309688 AAATAATACCAAGAGGTATGAAATGCAATTTAGGTTATTTGTTCTGCAGATGTTGAACAAAATCTACAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396707 69 -  29834108 AAATTATGCCAAGAGGTATAAAATACAATTTAGGTTATTTGTTCTGGAGATGATGAGCAAAATCTGCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848901 69 -   1015025 AAATTATGCCAAGATGTATAAAATACAATTCAGGTTATTTGTTCTGGAGATGATGAGCAAAATCTGCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869080 69 -   2295209 AAATTATGCCAAGAGGTATAAAATACAATTTAGGTTATTTGTTCTGGAGGTGATGAGCAAAATCTGCAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097276 45 +  13104022 AAATTATGTCTAGAGATATAAAATGTAATTTAGGTTATTT--------GATGG----------------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568030 45 -  12054995 AACTTATGACTAGAGATAGAAAATATAATTTAGGTTATGT--------GATGG----------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410520 43 - 149736546 AG--TGTAGCTGGGGATGTAAAGTTTACATTGCATTATT---------------GAATAC---------
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             924552 46 -   1687904 AAACTGTGTCTCGAGGTATAAAATATAATTTAGTTTACTTTTTGGG-----------------------
i dasNov3.JH562883          I 1 C 0
e micMur3.chr21               3007083 202 +  31815103 I
e canFam3.chr27              19723976  0 +  45876710 C

a score=9786.000000
s hg38.chr12_GL383549v1_alt     79914 1 +    120804 A
s panTro5.chr12              62771501 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895307 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110694 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300732 1 +  34552619 C
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606371 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005934 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383885 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284422 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775419 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170644 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564515 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396776 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848970 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869149 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007285 1 +  31815103 A
i micMur3.chr21             I 202 C 0
s proCoq1.NW_012140524v1      5097321 1 +  13104022 A
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568075 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410563 1 - 149736546 G
i mm10.chr6                 C 0 C 0
e canFam3.chr27              19723976 0 +  45876710 C
e dasNov3.JH562883             924598 0 -   1687904 C

a score=531612.000000
s hg38.chr12_GL383549v1_alt     79915 39 +    120804 ATAGATATTTTATACTATATTAATAGAT----TGTAGGTTTTC
s panTro5.chr12              62771502 39 + 137163284 ATAGATATTTTATACTATATTAATAGAT----TGTAGGTTTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895308 39 + 135337776 ATAGATATTTTATACTATATTAATAGAT----TGTAGGTTTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110695 39 -  32808036 ATAGATATTTTATACTATATTAATAGAT----TGTAGGTTTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300733 39 +  34552619 ATAGATATTTTATACTATATTAATAGAT----CATAGGTTTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606372 39 - 133663169 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005935 39 - 137757926 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383886 39 -   7948249 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284423 39 -  10730278 GTAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775420 39 - 128539186 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170645 39 +    435186 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564516 39 +   9309688 ATAGATATTTTATACTAGATTAATAGAT----CATAGGTTTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396777 39 -  29834108 ACAGATATTTTATACTATATTAATAGAT----AGTGGGTTTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       848971 39 -   1015025 ATAGATATTTTACACTATATTAATAGAT----CATGGGTTTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869150 39 -   2295209 ATAGATATTTTATACTATATTAATAGAT----CATAGGTTTTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007286 43 +  31815103 ATAGATATTTTATACTATATTAAAAGACCATGCATGGGCTTTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5097322 39 +  13104022 ATAGATATTTTATACTATACTAACAGAT----CATGGGTTTTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568076 39 -  12054995 ACAGACATTTTATACTGTATTGACAGAT----TACGTGTTTTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2410564 39 - 149736546 TTAAATATTTTACATTGCATTGCAAGTT----TGCCACTTTTC
i mm10.chr6                 C 0 I 558
s canFam3.chr27              19723976 21 +  45876710 ------------------ATGGACATAT----CATGGGTTTTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924598 39 -   1687904 AGAGATATTTTACTTTGTATTGAGAGAT----AATGGGTTTTC
i dasNov3.JH562883          C 0 C 0

a score=691369.000000
s hg38.chr12_GL383549v1_alt     79954 59 +    120804 AAATTAggttacatagtgatattttggagttctgcaaatgccttaatttaaattttact
s panTro5.chr12              62771541 59 + 137163284 AAATTAggttacatagtgatattttggagttctgcaaatgccttaatttaaattttact
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895347 59 + 135337776 AAATTAggttacatagtgatattttggagttctgcaaatgccttaatttaaattttact
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110734 59 -  32808036 AAATTAggttacatagtgatattttggagttctgcaaatgccttaatttaaattttact
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300772 59 +  34552619 AAATTAggttctatagtgatattttggagttctgcaaatgcctgaatttaaatttgact
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606411 59 - 133663169 AAATTACGTTATGTAGTGATATTTTGTAGTTCTGCAAATGCCTTAATTTAAATCTTACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109005974 59 - 137757926 AAATTACGTTATGTAGTGATATTTTGTAgttctgcaaatgccttaatttaaatcttact
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383925 59 -   7948249 AAATTACGTTATGTAGTGATATTTTGTAGTTCTGCAAATGCCTTAATTTAAATCTTACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284462 59 -  10730278 AAATTACGTTATGTAGTGATATTTTGTAGTTCTGCAAATGCCTTAATTTAAATCTTACT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775459 59 - 128539186 AAATTATGTTACGTAGTGATAATTTATAgttctgcaaatgccttaatttaaatcttact
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170684 59 +    435186 AAATTACGTTATGTAGTGATATTTTGTAGTTCTACAAATGCCTTAATTTAAATCTTACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564555 59 +   9309688 AAATTACATTACGTAGTGATATTTTGTAgttctgcaaatgccttaatttaaatcttact
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396816 51 -  29834108 AAATTCAGTTGC--------ATTTTGGAGCTCTGTAAATGCCTTAATTTAAATTTTGCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849010 51 -   1015025 AAATTAGGTTGC--------ATTTTGGAGTTCTGTAAATGCCCTAATTTAAATTTTGCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869189 51 -   2295209 AAATTAGGTGGC--------ATTTTGGAGTTCTACAAATGCCCTAATTTAAATTTTGCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007329 58 +  31815103 AAATTAGGTTATATCATGATAATTTggagttctgcaaatg-cttaatttgaattttact
i micMur3.chr21             C 0 I 230
s proCoq1.NW_012140524v1      5097361 58 +  13104022 AAATTAGGTTATATAGTAATAGTTTggagttctgcaaatg-cttaatttgaattttact
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568115 58 -  12054995 AAATTAGATTACATAGTGATATTCTGGAGATCTACATGTG-TTTAGTTTGaatttaact
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19723997 58 +  45876710 AAAATAGGTTATAGGGTGATATTTTggagttttgcaaatg-ctcaatttgaattttact
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924637 47 -   1687904 AAATTAGATTATATGGTAA-----------Cctgtaaatg-cctggtttgaattttact
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I

a score=2404517.000000
s hg38.chr12_GL383549v1_alt     80013 222 +    120804 ctaggctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcaaatatattggatatcaaaattcagtccattgcaggctt----------------tcatttcactaacttgcactgccctgttat----accatcattgtgtagatctc----agaacaatgcttctcctaatatcactgtgtgtatattttaattatctgaaaatat-catcagaactactgcagttttgcaatagta-ttttt
s panTro5.chr12              62771600 222 + 137163284 ctaggctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcaaatatattggatatcaaaattcagtccattgcaggctt----------------tcatttcactaacttgcactgccctgttat----accatcattgtgtagatctc----agaacaatgcttctcctaatatcactgtgtgtatattttaattatctgaaaatat-catcagaactactgcagttttgcaatagta-ttttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895406 222 + 135337776 ctaggctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcaaatatattggatatcaaaattcagtccattgcaggctt----------------tcatttcactaacttgcactgccctgttat----accatcattgtgtagatctc----agaacaatgcttctcctaatatcactgtgtgtatattttaattatctgaaaatat-catcagaactactgcagttttgcaatagta-ttttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3110793 222 -  32808036 ctaggctacatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcaaatatattgggtatcaaaattcagtccattgcaggctt----------------tcatttcactaacttgcactgccctgttat----accatcattgtgtagatctc----agaacaatgcttctcctaatatcactgtgtgtatattttaattatctgaaaatat-catcagaactactgcagttttgcaatagta-ttttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7300831 223 +  34552619 ctaagctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcaaatatattaggtatcaagattcagtccattgcaggctt----------------tcattttactaacttgcactgccctgtcat----accatcattgtgtagctctc----agaacaatgcttctcctgacatcactgtgtgtatattttaattatctgaaaatataaatcagaactactgcagttttgcaatagta-ttttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606470 222 - 133663169 CTAAGCTATATT---------------------------------------------------------------------------------------------TTAAATGTTTTAAAAATAT-ATGTAAACATTCAGATATATTAAGTATCAAAATTCAGTCCATTGCAGGCTT----------------TCATTTCACTTACTTGCACTGCCCTGTTAT----ATGATCATTGTGTAGCTCTC----AGAAAATTACTTCTCCTAACATCACTGTGTGTATATTTTAATTATTTGAAAATAT-CATCAGAACTACTGCAGTTTTGTAATAGTA-TTTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006033 222 - 137757926 ctaagctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcagatatattaagtatcaaaattcagtccattgcaggctt----------------tcatttcacttacttgcactgccctgttat----atgatcattgtgtagctctc----agaaaattacttctcctaacatcactgtgtgtatattttaattatttgaaaatat-catcagaactactgcagttttgtaatagta-ttttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1383984 222 -   7948249 CTAAGCTATATT---------------------------------------------------------------------------------------------TTAAATGTTTTAAAAATAT-ATGTAAACATTCAGATATATTAAGTATCAAAATTCAGTCCATTGCAGGCTT----------------TCATTTCACTTACTTGCACTGCCCTGTTAT----ATGATCATTGTGTAGTTCTC----AGAAAATTACTTCTCCTAACATCACTGTGTGTATATTTTAATTATTTGAAAATAT-CATCAGAACTACTGCAGTTTTGTAATAGTA-TTTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284521 222 -  10730278 CTAAGCTATATT---------------------------------------------------------------------------------------------TTAAATGTTTTAAAAATAT-ATGTAAACATTCAGATATATTAAGTATCAAAATTCAGTCCATTGCAGGCTT----------------TCATTTCACTTACTTGCACTGCCCTGTTAT----ATGATCATTGTGTAGCTCTC----AGAAAATTACTTCTCCTAACATCACTGTGTGTATATTTTAATTATTTGAAAATAT-CATCAGAACTACTGCAGTTTTGTAATCGTA-TTTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775518 222 - 128539186 ctaagctatatt---------------------------------------------------------------------------------------------ttaaatgttttaaaaatat-atgtaaacattcagatattttaggtatcaaaattcagtccattgcaggctt----------------tcatttcacttacttgcactgccctgttat----atgatcattgtgtagctctc----agaaaattacttctcctaacatcactgtgtgtatattttaattatttgaaaatat-catcagaactactgcagttttgtaatagta-ttttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170743 203 +    435186 CTAAGCTATATT---------------------------------------------------------------------------------------------TTAAATGTTTTAAAAATAT-ATGTAAACATTCAGATATATTAAGTATCAAAATTCAGTCCATTGCAGGCTT----------------TCATTTCACTTACTTGCACTGCCCTGTTAT----ATGATCATTGTGTAGCTCTC----AGAAAATTACTTCTCCTAACATCACTATGTAT-------------------GTAA-CATCAGAACTACTGCAGTTTTGTAATAGTA-TTTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564614 222 +   9309688 ctaagctacatt---------------------------------------------------------------------------------------------ttaaatgtttgaaaaatat-atgtaaacattcagatatattaggtatcaaaattcagtccattacaggctt----------------tcatttcactgacttgcactgccctgttat----atgatcattgtgtagctctc----agaaaaatgcttctcctaacatcactgtgtgtctattttaattatttgaaaatat-catcggaactactgcagttttgtaatagta-ttttt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11396867 223 -  29834108 CTAGGttatatt---------------------------------------------------------------------------------------------ttaaatgtttaaaaaatat-atGTAAACATTCATATATATTGGGTATCAAAATTCGGTCCACTGCAGGCTT----------------TTATTTCACTGACTTGCACTGCCCTGTTAT----AGCATCATCATGTAGCTCTC----AGAACAACGCTTTGTCTAACATCACTGTGTGTACATTTTAATTATCTGTAAATAT-CATCAGAACTACTGCAGTTTTACAATAGTATTTTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849061 223 -   1015025 CTAGGCTATATT---------------------------------------------------------------------------------------------TTAAATGTTTAAAAAATAT-ATGTAAACATTCATATATATTGAGTATCAAAATTCAGTCCACTGTAGGCTT----------------TTATTTCACTGACTTGCACTGCCCTGTTAT----AGCATTATTGTGTAGCTCTC----AGAACAATGCTTTTCCTAACATCACTGTGTGTAAATTTTAATTATCTGTAAATAC-CATCAGAACTACTGCAGTTTTACAATAGTATTTTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869240 220 -   2295209 CTAGGTTATATT---------------------------------------------------------------------------------------------TTAAATGTTTAAAAAATAT-TTATAAACATTCATATATATTGGGTATCAAAATTCCGTCCACTGCAGGCTT----------------TTATTTCACTGACTTGCACTGCCCTGTTAT----AGC---ATTGTGTAGCTCTC----AGAACAACGCTTTTCCTAACATCACTATGTGTACATTTTAATTATCTGTAAATAT-CATCAGAACTACTGCAGTTTTACAATAGTATTTTTT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097419 221 +  13104022 gtaaattacatt---------------------------------------------------------------------------------------------ttaaatattttaaaactat-aataaaaaattcaaatgtattaggtattgatatttggcccattttaggcct----------------ggattccattaatttgcactgccacattgt----gccattattgtgtagctctc----agaacaatgcttctcctgacatccctgtgcatatattttaattacttgca-atat-catcggaaatgctgcagctttgcactagcc-ttttt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568173 331 -  12054995 ataaattaaattgtaaaaacaattttttttttttttttttttgcagtttctggccagggctgggtttgaacccgccacctccagcatatggggtcagtgcTGCCCTGAAATATTTTTTaa--at-aaccaaaaattcaaatgtactatgtattaacatttggcccattttaggccttcattccattaacttggaatgccattaacttgcactgccgcattaca-cggccatcattgtgtagctctg----agaacaatgcttctcctgacaatactggccagatatgttaaatacttaca-atat-tatcagaaatgctataggtttgcgctaatc-tattt
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724055 226 +  45876710 ttaagttatatt--------------------------------------------------------------------------------------------tttaagtattttaaaactataataaaaatattcaaacatagtaggtatcaagattggatccattggagacct----------------tcattt-atggagttgcactgccaggttac----atgatcactgcgtagtactctgaatgaatgaagcttttcctcacatcaccctgtatgtcttttaatttcctgcaaatat-tatcagaaatgctgcagctttgaaccagt--ttttt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924684 221 -   1687904 ---cattttatt---------------------------------------------------------------------------------------------ttaaatatttttacactat-a-ataaaaagtcaaatatttgaggtatcaacatttgacccattgcagaact----------------gcattccattaacttgcactgccacgctagctcaatcattatcacgtagctctt-----gaacagaacttctcctgacattgctgggcacgtattttaattcttagtaaatat-tatcaggaatagtgcagctttgtactagga-ttttt
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007387 230 +  31815103 I

a score=32449.000000
s hg38.chr12_GL383549v1_alt     80235 4 +    120804 aaaa
s panTro5.chr12              62771822 4 + 137163284 aaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895628 4 + 135337776 aaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111015 4 -  32808036 aaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301054 4 +  34552619 aaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606692 4 - 133663169 AAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006255 4 - 137757926 aaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384206 4 -   7948249 AAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284743 4 -  10730278 AAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775740 4 - 128539186 aaaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170946 4 +    435186 AAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564836 4 +   9309688 aaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397090 4 -  29834108 AAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849284 4 -   1015025 AAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869460 4 -   2295209 AAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097640 4 +  13104022 TTAA
i proCoq1.NW_012140524v1    C 0 I 17
s otoGar3.GL873576            4568504 4 -  12054995 taaa
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              19724281 1 +  45876710 a---
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007387 230 +  31815103 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=33769.000000
s hg38.chr12_GL383549v1_alt     80239 6 +    120804 --atAGCA
s panTro5.chr12              62771826 6 + 137163284 --atAGCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895632 6 + 135337776 --atGGCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111019 6 -  32808036 --atAGCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301058 6 +  34552619 --atAGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606696 6 - 133663169 --ATAGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006259 6 - 137757926 --atAGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384210 6 -   7948249 --ATAGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284747 6 -  10730278 --ATAGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775744 6 - 128539186 --atAGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170950 6 +    435186 --ATAGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564840 6 +   9309688 --atAGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397094 6 -  29834108 --ATAGAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849288 6 -   1015025 --ATAGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869464 6 -   2295209 --ATAGAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4568510 4 -  12054995 --gcag--
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19724282 6 +  45876710 atgtag--
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007387 230 +  31815103 I
e proCoq1.NW_012140524v1      5097644 17 +  13104022 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=91051.000000
s hg38.chr12_GL383549v1_alt     80245 7 +    120804 TCCTGCC
s panTro5.chr12              62771832 7 + 137163284 TCCTGCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895638 7 + 135337776 TCCTGCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111025 7 -  32808036 TCCTGCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301064 7 +  34552619 TCCTGCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606702 7 - 133663169 TCCTGCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006265 7 - 137757926 TCCTGCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384216 7 -   7948249 TCCTGCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284753 7 -  10730278 TCCTGCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775750 7 - 128539186 TCCTGCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170956 7 +    435186 TCCTGCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564846 7 +   9309688 TCCTGCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397100 7 -  29834108 TCCTgcc
i saiBol1.JH378123          C 0 I 317
s cebCap1.NW_016107911v1       849294 7 -   1015025 TCCTGCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869470 7 -   2295209 TCCTGCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007617 7 +  31815103 tcctgcC
i micMur3.chr21             I 230 C 0
s otoGar3.GL873576            4568514 7 -  12054995 tcctgcC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724288 7 +  45876710 tcctgAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e proCoq1.NW_012140524v1      5097644 17 +  13104022 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=30855.000000
s hg38.chr12_GL383549v1_alt     80252 3 +    120804 TAA
s panTro5.chr12              62771839 1 + 137163284 T--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895645 3 + 135337776 TAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111032 3 -  32808036 TAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301071 3 +  34552619 TAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606709 3 - 133663169 TAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006272 3 - 137757926 TAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384223 3 -   7948249 TAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284760 3 -  10730278 TAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775757 3 - 128539186 TAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170963 3 +    435186 TAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564853 3 +   9309688 TAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397424 3 -  29834108 TAA
i saiBol1.JH378123          I 317 C 0
s cebCap1.NW_016107911v1       849301 3 -   1015025 TAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869477 3 -   2295209 TAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007624 3 +  31815103 TAA
i micMur3.chr21             C 0 I 2
s otoGar3.GL873576            4568521 3 -  12054995 TAA
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              19724295 3 +  45876710 TAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e proCoq1.NW_012140524v1      5097644 17 +  13104022 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=979910.000000
s hg38.chr12_GL383549v1_alt     80255 79 +    120804 AATGTCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AAAATAAATTACATAT
s panTro5.chr12              62771840 79 + 137163284 AATGTCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AAAATAAATTACATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895648 79 + 135337776 AATGTCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AAAATAAATTACATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111035 79 -  32808036 AATGTCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATAGATTATC----AAAATAAATCACATAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301074 79 +  34552619 AATGTCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AAAATAAATCACATAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606712 79 - 133663169 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AACATAAATCACATAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006275 79 - 137757926 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AACATAAATCACATAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384226 79 -   7948249 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AACATAAATCACATAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284763 79 -  10730278 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AACATAAATCACATAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775760 79 - 128539186 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AACATAAATCACATAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       170966 75 +    435186 AATGTCTATGTTTGGCAGTAATTCTCTAACTTTATCCCAT----TAAAGATTAATGGATTATC----AACATAAATCACATAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564856 79 +   9309688 AATGTCTATGTTTGGCAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATTATC----AAAATAAATCACATAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397427 79 -  29834108 AATATCTATGTTCGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATCATC----AAAATATATTACATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849304 79 -   1015025 AATATCTATGTTTGGTAATAGTTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATCATC----AAAATATATTACATAT
i cebCap1.NW_016107911v1    C 0 I 486
s aotNan1.NW_018488218v1      1869480 79 -   2295209 AATATCTATGTTTGGTAGTAATTCTTTAACTTTATCCCATTAAATAAAGATTAATGGATCATC----AAAATATATTACATAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007629 83 +  31815103 AATGTCTACATTTGGTAGTAATTCTTTAGTTTTATCCCATTGAATAAAAATTAGTGAATCATCAAAAAAAATACATTACATAT
i micMur3.chr21             I 2 C 0
s proCoq1.NW_012140524v1      5097661 81 +  13104022 AATGTCTACATTTGATAGTAATTCTTTAATGTTATCCCATTAAATAAAAATTACTGAATCATC--AAAAAATATATTACATAT
i proCoq1.NW_012140524v1    I 17 C 0
s otoGar3.GL873576            4568526 72 -  12054995 AGTGTCTATGTTTGGCAGGAATTCTTTAATTTTA--------AATACAAATTAGTCAATCATCAAAAAAAAT---TTGCATAG
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19724298 77 +  45876710 AATGTCTATGCTCAGTAGTAATTCTTTAATTTTGCCACATTAAATAAAAATTAGAGAACTGTC----AAAA--AATGACATAT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=48628.000000
s hg38.chr12_GL383549v1_alt     80334 5 +    120804 CTTTA
s panTro5.chr12              62771919 5 + 137163284 CTTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895727 5 + 135337776 CTTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111114 5 -  32808036 CTTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301153 5 +  34552619 CTTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606791 5 - 133663169 CTTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006354 5 - 137757926 CTTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384305 5 -   7948249 CTTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284842 5 -  10730278 CTTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775839 5 - 128539186 CTTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171041 5 +    435186 CTTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564935 5 +   9309688 CTTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397506 5 -  29834108 TCTTA
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1869559 5 -   2295209 TCTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007712 5 +  31815103 TCTTG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5097742 5 +  13104022 TCTTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568598 5 -  12054995 TCTTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724375 5 +  45876710 TCCTA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e dasNov3.JH562883             924905 0 -   1687904 C
e cebCap1.NW_016107911v1       849383 486 -   1015025 I

a score=11422.000000
s hg38.chr12_GL383549v1_alt     80339 1 +    120804 T
s panTro5.chr12              62771924 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895732 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111119 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301158 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606796 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006359 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384310 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284847 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775844 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171046 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3564940 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 I 307
s saiBol1.JH378123           11397511 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849869 1 -   1015025 T
i cebCap1.NW_016107911v1    I 486 C 0
s aotNan1.NW_018488218v1      1869564 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007717 1 +  31815103 C
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5097747 1 +  13104022 C
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4568603 1 -  12054995 T
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724380 1 +  45876710 T
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=561200.000000
s hg38.chr12_GL383549v1_alt     80340 41 +    120804 AAGAAAACCTGGAAAAGCAGTAGGAAGAAACATTCCCATAA
s panTro5.chr12              62771925 41 + 137163284 AAGAAAACCTGGAAAAGCAGTAGGAAGAAACATTCCCATAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895733 41 + 135337776 AAGAAAACCTGGAAAAGCAGTAGGAAGAAACATTCCCATAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111120 41 -  32808036 AAGAAAACCTGGAAAAGCAGTAGGAAGAAACATTCCCATAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301159 41 +  34552619 AAGAAAACCTGGAAAAGCAGTAGGAAGCAACATTCCCATAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606797 41 - 133663169 AAGAAAACCTGGAAAAGCAGTAGGGAGAAACATTCCCACAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006360 41 - 137757926 AAGAAAACCTGGAAAAGCAGTAGGGAGAAACATTCCCACAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384311 41 -   7948249 AAGAAAACCTGGAAAAGCAGTAGGGAGAAACATTCCCACAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284848 41 -  10730278 AAGAAAACCTGGAAAAGCAGTAGGGAGAAACATTCCCACAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775845 41 - 128539186 AAGAAAACCTGGAAAAGCAGTAGGAAGAAACATTCCCACAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171047 41 +    435186 AAGAAAACCTGGAAAAGCAGTAGGGAGATACATTCCCACAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565248 41 +   9309688 aagaaaaCCTGGAAAAGCAGTAGGAAGAAACATTCCCACAA
i colAng1.NW_012114364v1    I 307 C 0
s saiBol1.JH378123           11397512 41 -  29834108 AAGAAAACCCGGAAAACCAGTAGGAAGAAACATCCCCATAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849870 41 -   1015025 AAGAAAACCTGGAAAACCAGTAGGAAGAAACATCCCCATAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869565 41 -   2295209 AAGAAAACCTAGAAAAACAGTAGGAAGACACATTCCCATAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007718 41 +  31815103 AAGAAAACCTGGAAAAACAGTAGGAAGAAACATTCTCATAA
i micMur3.chr21             C 0 I 56
s proCoq1.NW_012140524v1      5097748 41 +  13104022 AAGAAAACCTGGAAAGGCAGTAGAAAGAAATATTCCCATAA
i proCoq1.NW_012140524v1    C 0 I 32
s otoGar3.GL873576            4568604 41 -  12054995 AAGAAAATCTAGAAAAGCAGTAGGAAGAAACTTTCCCATAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724381 40 +  45876710 AAGAGAACCTA-AAGTGTAATAGGGAAAAACATTCCCAGAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=176748.000000
s hg38.chr12_GL383549v1_alt     80381 24 +    120804 CCTTGCCTATAAGTGATATTAGTG
s panTro5.chr12              62771966 24 + 137163284 CCTTGCCTATAAGTGATATTAGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895774 24 + 135337776 CCTTGCCTATAAGTGATATTAGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111161 23 -  32808036 TCTT-CCTATAAGTGATATTAGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301200 24 +  34552619 TCTTGCCTCTTAGTGATATTAGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606838 24 - 133663169 TCTCTTCTCTTAGTTATATTGGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006401 24 - 137757926 TCTCTTCTCTTAGTTATATTGGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384352 24 -   7948249 TCTCTTCTCTTAGTTATATTGGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284889 24 -  10730278 TCTCTTCTCTTAGTTATATTGGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775886 24 - 128539186 TCTCTTCTCTTAGTTATATTGGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171088 24 +    435186 TCTCTTCTCTTAGTTATATTGGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565289 24 +   9309688 TCTTGCCTCTTAGTTATATTAGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397553 23 -  29834108 TCTCATCT-TTAGTTATATTAATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849911 24 -   1015025 TCTCACCTCTTAGTTAAATTAGGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869606 24 -   2295209 TCTCACCTCTTAGTTATATTAGTG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4568645 24 -  12054995 GCTCATCTCTCAGTTATATCCGTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724421 24 +  45876710 TCTCACTCTGTAATTATATTAGCG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759 56 +  31815103 I
e proCoq1.NW_012140524v1      5097789 32 +  13104022 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=275171.000000
s hg38.chr12_GL383549v1_alt     80405 22 +    120804 ATTTTCTCTGTAATTTCTTGTT
s panTro5.chr12              62771990 22 + 137163284 ATTTTCTCTGTAATTTCTTGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895798 22 + 135337776 ATTTTCTCTGTAATTTCTTGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111184 22 -  32808036 ATTTTCTCTGTAACTTCTTGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301224 22 +  34552619 ATTTTCTCTGTAATTTCTTGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606862 22 - 133663169 ATTTTCTCTGTATTTTCTTGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006425 22 - 137757926 ATTTTCTCTGTATTTTCTTGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384376 22 -   7948249 ATTTTCTCTGTATTTTCTTGTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284913 22 -  10730278 ATTTTCTCTGTAATTTCTTGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775910 22 - 128539186 ATTTTCTCTGTAATTTCTTGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171112 22 +    435186 ATTTTCTCTGTAATCTCTTGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565313 22 +   9309688 ATTTTCTCTGTAATTTGTTGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397576 22 -  29834108 ATTTTCTCTGTAATTTCTTGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849935 22 -   1015025 ATTTTCTCTGTAATTTCTTGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869630 22 -   2295209 ATTTTCTCTGTAATTTCTTGTT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097821 22 +  13104022 ATTTTCTCTGTAATTTCTTGTT
i proCoq1.NW_012140524v1    I 32 C 0
s otoGar3.GL873576            4568669 22 -  12054995 ATTTTCTTTGTAATTTCTTGTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724445 20 +  45876710 -ATATCTCTG-AATTTCTTGTT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759 56 +  31815103 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=80278.000000
s hg38.chr12_GL383549v1_alt     80427 8 +    120804 TGACAAtt
s panTro5.chr12              62772012 8 + 137163284 TGACAAtt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895820 8 + 135337776 TGACAAtt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111206 8 -  32808036 TGACAAtt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301246 8 +  34552619 TGACAAtt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606884 8 - 133663169 TGACAAtt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006447 8 - 137757926 TGACAAtt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384398 8 -   7948249 TGACAAtt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284935 8 -  10730278 TGACAAtt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775932 8 - 128539186 TGACAAtt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171134 8 +    435186 TGACAAtt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565335 8 +   9309688 TGACAAtt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397598 8 -  29834108 TGACAATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849957 8 -   1015025 TGACAATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869652 8 -   2295209 TGACAATG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5097843 8 +  13104022 CAACAATT
i proCoq1.NW_012140524v1    C 0 I 14
s canFam3.chr27              19724465 8 +  45876710 ATGCAATT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4568691 0 -  12054995 C
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759 56 +  31815103 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=1304945.000000
s hg38.chr12_GL383549v1_alt     80435 161 +    120804 ttgtttttgttttgagacagagtctcactctgtcgcccaggctggagtgcagtggcacaacctcggctcattgcaacctccgcctctcgggttcaagtgagtctcctgcctcagcctccctagtagctgggattacaggtgcatgccaccatgctcggcca
s panTro5.chr12              62772020 161 + 137163284 ttgtttttgttttgagacagagtctcactctgtcgcccaggctggagtgcagtggcacaacctcggctcattgcaacctccacctctcgggttcaagtgagtctcctgcctcagcctccctagtagctgggattacaggtgcatgccaccatgctcggcca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895828 161 + 135337776 ttgtttttgttttgagacagagtctcactctgtcgcccaggctggagtgcagtggcacaacctcggctcattgcaacctccgcctctcgggttcaagtgagtctcctgcctcagcctccctagtagctgggattacaggtgcatgccaccatgctcggcca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111214 160 -  32808036 ttgtttttgttttgagacagagtctcactctgtcgcccaggctggagtgc-gtggcacaacctcggctcattgcaacctccgcctctcgggttcaagtgagtctcctgcctcagcctccctagtagctgggattacaggtgcatgccaccatgctcggcca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301254 161 +  34552619 ttgtttttgttttgagacagagtctcactctgtcacccaggctggagtgcagtggcacaacctcggctcattgcaacctctgcctcttgggttcaagtgagtctcctgcctcagccttcctagtagctgggattacaggtgcatgccaccatgcccggcca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104606892 158 - 133663169 ttgttcttgttttgagacagggtctcactctgtcgcccaggctggagtgcagtggcataatcttggctcacttcaacctctgcttc---agttcaagtgagtctcctgcctcagcctccctagtagttgggattataggtgcatgccaccatgcccggcta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006455 158 - 137757926 ttgttcttgttttgagacagggtctcactctgtcgcccaggctggagtgcagtggcataatcttggctcacttcaacctctgcttc---agttcaagtgagtctcctgcctcagcctccctagtagttgggattataggtgcatgccaccatgcccggcta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384406 158 -   7948249 ttgttcttgttttgagacagggtctcactctgtcgcccaggctggagtgcagtggcataatcttggctcacttcaacctctgcttc---agttcaagtgagtctcctgcctcagcctccctagtagctgggattataggtgcatgccaccatgcccggcta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8284943 158 -  10730278 ttgttcttgttttgagacagggtctcactctgtcgcccagactggagtgcagtggcataatcttggctcacttcaacctctgcttc---agttcaagtgagtctcctgcctcagcctccctagtagttgggattataggtgcatgccaccatgcccggcta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100775940 161 - 128539186 ttgttcttgttttgagacagggtctcactctgtcgcccaggctggagtgcagtggcataatcttggctcatttcaacctctgcttcctgggttcaagcaagtctcctgcctcagcctccctagtagttgggattataggtgcgtgccaccatgcccggcta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171142 158 +    435186 ttgttcttggtttgagacagggtctcactctgtcgcccagactggagtgcagtggcataatcttggctcacttcaacctctgcttc---agttcaagtgagtctcctgcctcagcctccctagtagttgggattataggtgcatgccaccatgcccggcta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565343 161 +   9309688 ttgttttcgttttcagacagaatctcactctgtcgcccaggctggagtgcagtggcatgatcttggctcacttcaacctctgcctcctgggttcaagcgagtatcctgccttagcctccctagtagttgggattataggtgcatgccaccatgcccggcta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397606 159 -  29834108 t--tttctgttttgagacagagtcccactctgtcatccaggctggagtgcagtggcacaatctcggctcattgcaaccttcatctccccagttcaagcgattctcctgcgcaagcctccctagtagctgagattacaggtatgtgccaccatatctggcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       849965 159 -   1015025 t--tttttgttttgagacagagtctcactctatcgcccatgctggagtgcagtggcacagtctcggctcattgcaaccttcatctccccagttcaagcaattctcctgcgtgagcctccctagtagctgggattacaggtatgtgccaccatacctggcta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869660 157 -   2295209 t--tttttgtcttgagac--agtctcactctgtcgcccaggctggagtgcagtggcacaatcttggctcattgcaaccttcatctccccagttcaagcgattctcctgtgtgagcctgcctagtagctgggatgacaggtatgtgccaccatacctggcta
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4568691   0 -  12054995 C
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759  56 +  31815103 I
e canFam3.chr27              19724473   0 +  45876710 C
e proCoq1.NW_012140524v1      5097851  14 +  13104022 I
e dasNov3.JH562883             924905   0 -   1687904 C

a score=97698.000000
s hg38.chr12_GL383549v1_alt     80596 11 +    120804 atttttgta-tt
s panTro5.chr12              62772181 11 + 137163284 atttttgta-tt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60895989 11 + 135337776 atttttgta-tt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111374 11 -  32808036 atttttgta-tt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301415 11 +  34552619 atttttgta-tt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607050 11 - 133663169 atttttgta-tt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006613 11 - 137757926 atttttgta-tt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384564 11 -   7948249 atttttgta-tt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285101 11 -  10730278 atttttgta-tt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776101 11 - 128539186 atttttgta-tt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171300 11 +    435186 atttttgta-tt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565504 11 +   9309688 atttttgta-tt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397765 12 -  29834108 atttttgtattt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850124 12 -   1015025 atttttgtattt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869817 12 -   2295209 atatttgtattt
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19724473 11 +  45876710 ATTTTTACA-TT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4568691  0 -  12054995 C
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759 56 +  31815103 I
e proCoq1.NW_012140524v1      5097851 14 +  13104022 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=862617.000000
s hg38.chr12_GL383549v1_alt     80607  97 +    120804 ttagtagagatggggtttcactatgttggccaggctgatcttgaactcctgacctcaagtgatctgcctgcctcagcctcccaaagtgctggaatt---a
s panTro5.chr12              62772192  97 + 137163284 ttagtagagatggggtttcactatgttggccaggctgatcttgaactcctgacctcaagtgatctgcctgcctcggcctcccaaagtgctggaatt---a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896000  97 + 135337776 ttagtagagatggggtttcactatgttggccaggctgatcttgaactcctgacctcaagtgatctgcctgcctcagcctcccaaagtgctggaatt---a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111385  97 -  32808036 ttagtagagatggggtttcactatgttggccaggctgatcttgaactcctgacctcaagtgatctgcccgcctcagcctcccaaactgctggaatt---a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301426  97 +  34552619 ttagtagagatggggtttcactatgttggcgaggctgatcttgaactcctgacctcaagtgatctgcctgcctcagcctcccaaagtgctggaatt---a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607061  97 - 133663169 ttagtagagatgcggtttcactacgttggccaggctgatcttgaactcctgacgtcaagtgatctgcccgcctcggcctcccaaagtgctgggatt---a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006624  97 - 137757926 ttagtagagatgcggtttcactacgttggccaggctgatcttgaactcctgacgtcaagtgatctgcccgccttggcctcccaaagtgctgggatt---a
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384575  97 -   7948249 ttagtagagatgcggtttcactacgttggccaggctgatcttgaactcctgacgtcaagtgatctgcccgcctcggcctcccaaagtgctgggatt---a
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285112  97 -  10730278 ttagtagagatgcggtttcactacgttggccaggctgatcttgaactcctgatgtcaagtgatctgcccgcctcggcctcccaaagtgctgggatt---a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776112  97 - 128539186 ttagtagagatgcggtttcactacgttggccaggctgatcttgaactcctgacgtcaagtgatctgcccacctcggcctcccaaagtgctgggatt---a
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171311  97 +    435186 ttagtagagatgcagtttcactacgttggccaggctgatcttgaactcctgacgtcaagtgatctgcccgcctcggcctcccaaagtgctgggatt---a
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565515 100 +   9309688 ttagtagagatggggtttcactacgttggccaggctgatcttgaactcctgacttcaagtgatctgccggcctcggcctcccaaagtgctgggattacaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397777  97 -  29834108 ttagtagagatggggttttaccatgttggccaggctgatcttgaactcccgacctcaagagatctgtccaccttggcctcccaaagtgttgggatt---a
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850136  97 -   1015025 ttagtagagatggggttttaccatgttggccaggctgaccttgagctcccgacctcaagtgatctgtccaccttggactcccaaagtgctgggatt---a
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869829  97 -   2295209 ttagtagagatggggttttaccatgttggccaggctgatcttgaactcccgacctcaagtgatctgtccaccttggcctcccaaagcgctgggatt---a
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4568691   0 -  12054995 C
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759  56 +  31815103 I
e canFam3.chr27              19724484   0 +  45876710 C
e proCoq1.NW_012140524v1      5097851  14 +  13104022 I
e dasNov3.JH562883             924905   0 -   1687904 C

a score=196622.000000
s hg38.chr12_GL383549v1_alt     80704 31 +    120804 caagcatgagccacgacacccagcGACAA---TT
s panTro5.chr12              62772289 31 + 137163284 caagcatgagccacgacacccagcGACAA---TT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896097 31 + 135337776 caagcatgagccacgacacccagcGACAA---TT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111482 30 -  32808036 caggcatgagccatgacacccagcGACAA----T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301523 30 +  34552619 caggcatgagccacgacacccagcAAAAA----T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607158 33 - 133663169 caggtatgagccacaacacccagcGATAA-TTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006721 31 - 137757926 caggtatgagccacaacacccagcGATAA---TT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384672 33 -   7948249 caggtatgagccacaacacccagcGATAA-TTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285209 31 -  10730278 caggtatgagccacaacacccagcGATAA---TT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776209 34 - 128539186 caagtatgagccacaacacccagcGATAATTTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171408 31 +    435186 caggtataagccacaacacccagcAATAA---TT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565615 31 +   9309688 cagatatgagccacaacacccagcGATAA---CT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397874 29 -  29834108 caggtgtgagccaccatatccagTGACAA-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850233 31 -   1015025 caggtgtgagccaccatatccagTGACAA---TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869926 31 -   2295209 caggtgtgagacaccatatccagTGACAA---TT
i aotNan1.NW_018488218v1    C 0 I 2
s otoGar3.GL873576            4568691  9 -  12054995 CAAATATAA-------------------------
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3007759 56 +  31815103 I
e canFam3.chr27              19724484  0 +  45876710 C
e proCoq1.NW_012140524v1      5097851 14 +  13104022 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=96704.000000
s hg38.chr12_GL383549v1_alt     80735 10 +    120804 TTTTTTTATC
s panTro5.chr12              62772320 10 + 137163284 TTTTTTTATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896128 10 + 135337776 TTTTTTTATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111512 10 -  32808036 TTTTTTTATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301553 10 +  34552619 TTTTTTTAAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607191 10 - 133663169 TTTTTTTATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006752 10 - 137757926 TTTTTTTATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384705 10 -   7948249 TTTTTTTATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285240 10 -  10730278 TTTTTTTATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776243 10 - 128539186 TTTTTTTATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171439 10 +    435186 TTTTTTTATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565646 10 +   9309688 TTTTTTTATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397903 10 -  29834108 CTTTTTTATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850264 10 -   1015025 TTTTTTTATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869959 10 -   2295209 TTTTTTTATA
i aotNan1.NW_018488218v1    I 2 C 0
s micMur3.chr21               3007815 10 +  31815103 TTTTTATATT
i micMur3.chr21             I 56 C 0
s otoGar3.GL873576            4568700 10 -  12054995 TTTTCACATT
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e canFam3.chr27              19724484  0 +  45876710 C
e proCoq1.NW_012140524v1      5097851 14 +  13104022 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=38845.000000
s hg38.chr12_GL383549v1_alt     80745 3 +    120804 GTT
s panTro5.chr12              62772330 3 + 137163284 GTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896138 3 + 135337776 GTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111522 3 -  32808036 GTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301563 3 +  34552619 GTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607201 3 - 133663169 GTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006762 3 - 137757926 GTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384715 3 -   7948249 GTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285250 3 -  10730278 GTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776253 3 - 128539186 GTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171449 3 +    435186 GTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565656 3 +   9309688 GTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397913 3 -  29834108 GTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850274 3 -   1015025 GTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869969 3 -   2295209 GTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007825 3 +  31815103 GTT
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4568710 3 -  12054995 GTC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724484 3 +  45876710 ATT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e proCoq1.NW_012140524v1      5097851 14 +  13104022 I
e dasNov3.JH562883             924905 0 -   1687904 C

a score=1543789.000000
s hg38.chr12_GL383549v1_alt     80748 135 +    120804 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATATATAATT--TCTGGGAGTAAAGTTAATATGTAATATGCTTATTAAGAAACATTCTGAAAATGTAGAAAGTAGCAAAGGAGAGAATAAAAATAA
s panTro5.chr12              62772333 135 + 137163284 AGAGTATCAAGACATGCATATACTGATACTTAAAACT-AAAAATATATAATT--TCTGGGAGTAAAGTTAATATGTAATATGCTTATTAAGAAACATTCTGAAAATGTAGAAAGTAGCAAAGAAGAGAATAAAAATAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896141 135 + 135337776 AGAGTATCAAGACATGCATATACTGATAATTAAAACT-AAAAATATATAATT--TCTGGGAGTAAAGTTAATATGTAATATGCTTATTAAGAAACATTCTGAAAATGTAGAAAGTAGCAAAGAAGAGAATAAAAATAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111525 135 -  32808036 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATATATAATT--TCTGGGAGTAAAGTTAATATGTAATATGCTTATTAAGAAACATTCTGAAAATGTAGAAAGTAGCAAAGAGGAGAATAAAAATAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301566 135 +  34552619 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATATATAATT--TCTGAGAGTAAAGTTAATGTGTAATATGCTTATTAAGAAACATTCTGAAAATGTAGAAAGTAGCAAAGAAGAGAATAAAAATAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607204 135 - 133663169 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006765 135 - 137757926 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384718 135 -   7948249 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285253 135 -  10730278 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATACAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776256 134 - 128539186 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTG-TAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171452 135 +    435186 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTTAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAATAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565659 135 +   9309688 AGAGTATTAAGACATGCATATACTGATAATTAAAATT-AAATATATATAATT--TCTGGGAGTAAAGTGAATATGTAACATGCTTATTAAGAAACATTCTGATAATGTAGACAGTAACAAAGAAGAGAATAAAAGTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11397916 130 -  29834108 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATACATAATT--TCTGAGAGTA-----AATATGTAATATGCCTATTGAGAATCATTCTGAAAATGTGGAAAATAATAAAGAAGAAAATAATAATAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850277 130 -   1015025 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATACATAATT--TCTGAGAGTA-----AATATGTAATATGCTTATTGAGAATCATTCTGAAAATGTGGAAaataataaagaagaaaataataataa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1869972 127 -   2295209 AGAGTATTAAGACATGCATATACTGATAATTAAAACT-AAAAATACATAATT--TCTGAGAGTA-----AATATGTAATGTGCTTATTGAGAATCATTCTGAAAATGTGGAAAATAATAAAGAAGAA---AATAATAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007828 133 +  31815103 AGAGTATTAAGAAATGCGTGTACTGATAATTAAAAAT-CAAAA---ACAATTTCTTTGAGAGTAAAGTTAATATGTAATCTGCTTACTGAGAAACATTCTGAAAATAGAGAAAATAATAAAGAAGAGAA-AAAAATAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5097865 129 +  13104022 AGAGTATTAAGAAATGCATGTACTGATAATTGAAAAT-CAAAA---ACAATT--TTTGAGAGTAAAGTTAATATGCAATATGCTTACTGAGAAACATTCTGAAAATATAGAAAATAATAAAGAGAAT---AAAAATAA
i proCoq1.NW_012140524v1    I 14 I 17
s otoGar3.GL873576            4568713 127 -  12054995 AAAGTAGTAAGACATGCATATGCCGATAATTAAAAAT-AGAAA---ACAATT--TCTAAGGGTA-----AATACGAAACATACTTTTTGAGAGAAAATCTGAAAATTTAGAAAATAATGAAGAAGAGGATAAAAGTAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19724487 115 +  45876710 AAAGC----AGACATGC--GTAATAAGAATTAAAAATGAAAAAAATATAATT--TCCAAAAGT------------TGATAAGCTCACTCTAAGACATTCTGAAAATGCAGAAAATAATAAAAGGGA---TAAAACTCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e dasNov3.JH562883             924905   0 -   1687904 C

a score=165377.000000
s hg38.chr12_GL383549v1_alt     80883 24 +    120804 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAT----G
s panTro5.chr12              62772468 24 + 137163284 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAT----G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896276 24 + 135337776 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAT----G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111660 24 -  32808036 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAT----G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301701 24 +  34552619 CTTAGAA--TTAT----------------------------AGAC--A---CCCACAT----G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607339 24 - 133663169 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006900 24 - 137757926 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384853 24 -   7948249 CTTAGAA--TCAT----------------------------AAAC--A---CCCACAC----A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285388 24 -  10730278 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776390 24 - 128539186 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171587 24 +    435186 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565794 24 +   9309688 CTTAGAA--TTAT----------------------------AAAC--A---CCCACAC----A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398046 30 -  29834108 CTTAGAA--TTAT----------------------------AAAC--ATA-CACACACACATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850407 26 -   1015025 cttagaa--ttat----------------------------aaAC--ATA-CACACAC----A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870099 27 -   2295209 CTTAGAA--TTAT----------------------------AAAC--TTCTCACACAC----A
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007961 18 +  31815103 ------------------------------------CTCTAAATC--A---CACACAC----A
i micMur3.chr21             C 0 I 2
s otoGar3.GL873576            4568840 52 -  12054995 CTCAGAA--TTActccctccctctctctctctctctctctcACAC--A---CACACAC----A
i otoGar3.GL873576          C 0 I 2
s canFam3.chr27              19724602 26 +  45876710 CTCAGAACCTTCC----------------------------AGATTGA---CCCACa------
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e proCoq1.NW_012140524v1      5097994 17 +  13104022 I
e dasNov3.JH562883             924905  0 -   1687904 C

a score=2722962.000000
s hg38.chr12_GL383549v1_alt     80907 228 +    120804 TAAATGCAGTCCTGCATGTATATTTGCTTATTACATAAAGTTATGGGCATGCTCTTTCTGTGCAGATTGTTGAGGAGatgtatgccacacacaaataaatctcaaataaggctctggtgtgtgtgttcagtgcatgccct----------------------tacat------ataataatcaattata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
s panTro5.chr12              62772492 228 + 137163284 Taaatgcagtcctgcatgtatatctgcttattacataaagttatgggcatgctctttctgtgcagattgttgaggagacgtatgccacactcaaataaatctcaaataaggctctggtgtgtgtgttcagtgcatgccct----------------------tacat------ataataatcaattata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896300 228 + 135337776 TAAATGCAGTCCTGCATGTATATCTGCTTATTACATAAAGTTATGCGCATGCTCTTTCTGTGCAGATTGTTGAGGAGacgtatgccacactcaaataaatctcaaataaggctctggtgtgtgtgttcagtgcatgccct----------------------tacat------ataataatcaattata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111684 228 -  32808036 TAAATGCAGTCCTGCATGTATATCTGCTTATTACATAAAGTTATGGGCATGCTCTTTCTGTGCAGATTGTTGAGGAGatgtatgccacactcaaataaatctcaaataaggctctggtgtgtgtgttcagtgcatgccct----------------------tacgt------atagtaatcaattaca--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcgtgttaaagacagctttggcaca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301725 228 +  34552619 CAAATGCAGTCCTGCATGTATATCTGCTTATTACATAAAGTTATGGGCATGCTCTTTCTGTGCAGATTGTTGagtatacgtataccacactcaaataaatgtcaaataaggctctggtgtgtgtgttcagtgcatgccct----------------------tacat------agaataatcaattata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607363 225 - 133663169 CAAATGCAGTCCTGCATGTCTATCTGC---TTACATGAAGTTATGGACATTCTCCTTCTGTGCAGATTGTCGagtagacgtatgccacactcaaagaaatgtcaaataaggctctggcgtgtgtgttcagtgcatgccct----------------------tacat------ataataatctgttata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109006924 225 - 137757926 CAAATGCAGTCCTGCATGTCTATCTGC---TTACATGAAGTTATGGACATTCTCCTTCTGTGCAGATTGTCGagtagacgtatgccacactcaaagaaatgtcaaataaggctctggcgtgtgtgttcagtgcatgccct----------------------tacat------ataataatctgttata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1384877 225 -   7948249 CAAATGCAGTCCTGCGTGTCTATCTGC---TTACATGAAGTTATGGACATTCTCCTTCTGTGCAGATTGTCGagtagacgtatgccacactcaaagaaatgtcaaataaggctctggcgtgtgtgttcagtgcatgccct----------------------tacat------agaataatctgttata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctgtggcaca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285412 225 -  10730278 CAAATGCAGTCCTGCATGTCTATCTGC---TTACATAAAGTTATGGGCATTCTCTTTCTGTGCAGATTGTCGagtagacgtatgccacactcaaataaatgtcaaataaggctctggcgtgtgtattcagtgcatgccct----------------------tacat------ataataatctgttaaa--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggtaca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776414 225 - 128539186 CAAATGCAGTCCTGCATGTCTATCTGC---TTACATAAAGTCATGGGCATTCTCTTTCTGTGCAGATTGTCGagtagacgtatgccatactcaaataaatgtcaaataaggctctggcgtgtgtgttcagtgcatgccct----------------------tacat------ataataatctgttata--t-aaaaagaagacactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171611 220 +    435186 CAAATGCAGTCCTGCATGTCTATCTGC---TTACATAAAGTTATGGGCATTCTCTTT-----CAGATTGTCGagtagacgtatgccacactcaaataaatgtcaaataaggctctggcgtgtgtgttcagtgcatgccct----------------------tacat------ataataatctgttata--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3565818 225 +   9309688 CAAATGCAGTCCTGCATGTCTATCCGC---TTACATAAAGTTATGGGCATTCTCTTCCTGTGCAGATTGTTGagtagacgtatgccacactcaaataaatgtcaaataaggctctggcgtgtgtgttcagtgcatgcctt----------------------tacat------ataataatcagttaca--t-aaaaagaagagactaccatgacatgctgagtcatggtgacatcatgttaaagacagctttggcaca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398076 226 -  29834108 CAAATGCAGTCCTGCATATATATCTAC---TCACATAAAGCTACGTGCTTGCTCTTTCTGTGTAGATTGTTGAGTAGAGGTATGCctcactc----aaatgtcaagtaaggctctggtgtgtgtgttcagtgcctgcccttgccatgg--------------tacat------ataacaatcagttata--t-t---tttaaaaaataccatgacatgctgagtcatggtgacatcatattaaagacagttttggctca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850433 228 -   1015025 Caaatgcagtcctgcatgtatttctgc---tcacataaagctatgtgcttgctctttctgtgcaaattgttgagtagaggtatgccgcactc----aaatgtcaagtaagactctagtgtgtgtgttcagtgcatgcccttgccatgg--------------tacat------ataacaatcagttatattt-t---tttaaaaaataccatgacatgctgagtcatggtgacatcatgttaaagacagttttggcaca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870126 229 -   2295209 Caaatgcagtcctgcatgtatatctgc---tcacataaagctatgtgcttgctctttctgtgcagattgttgagtagaagtatgctgcactc----aaatgtcaagtaaggctctagtgtgtgtgttcagtgcatgtccttaccatgg--------------tacat------ataacaatcagttata--t-taaaaaaaaaaaataccatgacatgctgagtcatagtgacatcatgttaaagacagttttggcaca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3007981 233 +  31815103 TAGatgcagttctgcatctatatctac---ttacataaaattataagtatactacttttgtgcaaagagttgagtataggtatgccatactcaaataaatgttaggtaaggctctggcacttacattcagtgcatgcccttgtcatgg--------------tgtat------atcataatcgggtata--t-aaaaagaagagaccaccatgacatgtacagtcatggtgacaccatgttaaagacagtttgggcaca
i micMur3.chr21             I 2 I 1177
s proCoq1.NW_012140524v1      5098011 233 +  13104022 Caaatgcagttctgcatctacatctac---ttacataaaactataagtatactacttttgtgcagagagttgagtataggtatgccacactcaaagaaatgtcaggtaaggctctggcacgtacattcggtgcatgtcctcatcatgg--------------tacat------atcataatcaggtgta--t-aaaaagaagacaccaccatgacatgtgcagtcacggtgacatcatgttaaagacagtttgggcaca
i proCoq1.NW_012140524v1    I 17 C 0
s otoGar3.GL873576            4568894 239 -  12054995 Caaatgcagtccttcatctatatcaac---ttatgtaaaattgtaagtatacga-gtttgtgcagagagttgagtaaagttacaccacattcaaataagtgtcaggtaaggctctggcaaatatattcagtgcccgccttcatcatgg--------------aatatacgtgcattataatcagttgta--taaaaaagaagagaccaccgtggcatgttgagtcatggtgacatcatgttaaggacagtctgggcaca
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19724628 239 +  45876710 aaaatccagttctgctcatatat--gc---ttgtataaaattatgagtatattacttttctccaga--gtcgagtacagatatgccacattcaaatgaaggtcaagtaaggcttcattaagtttgttcagcacatgcctttagcatgatgtataatatgtattatat------ataataatgaattgta--c-aaaaagaagagatgaccaagacctgttgagtcatagtgacaaaatgtgaaag--agctttggca--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             924905 208 -   1687904 taaaggcagtcctgtacatacat--gc---ttgcgtaaagttctgagcatactaactttgtacaga--gttgagtaaaggtaagctgcaatcaaataagagtcccaggaggctccggcacatctctccagtggctgccct--------------------------t------gtcgtgat------tt--g-aaaaagaagaggctaccgtgacatgctgagtcatggtgata---tgctggagaaagtttgggaaca
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I

a score=1000317.000000
s hg38.chr12_GL383549v1_alt     81135 86 +    120804 taatgtaagctccctgtgtgatttatgtatgtagcataagaaaagtaagcag-ttgatac------------gtattattagcagttaaattttcaaac
s panTro5.chr12              62772720 86 + 137163284 tactgtaagctcccggtatgatttatgtatgtagcataagaaaagcaagcag-ttgatac------------gtattattagcagttaaattttcaaac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896528 86 + 135337776 tactgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatac------------gtattattagtagttaaattttcaaac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111912 86 -  32808036 tactataagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatac------------gtattattagcagttaaattttcaaac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7301953 86 +  34552619 tactgtaagctcgctgtatgatttatgtatgtagcataggaaaagcaagcag-ttgatac------------atattattagcagttaaattttcaaac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607588 86 - 133663169 tattgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttcaaac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007149 86 - 137757926 tattgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttcaaac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385102 86 -   7948249 tattgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttccaac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285637 86 -  10730278 tattgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttcaaac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776639 86 - 128539186 tattgtaagctccctgtatgatttatgtacgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttcaaac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171831 86 +    435186 tattgtaagctccctgtatgatttatgtatgtagcataagaaaagcaagcag-ttgatat------------gtattattagcagttaaattttcaaac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566043 86 +   9309688 cagtgtaagctccctgcatgatttatgtatatagcataagaaaagcaagcag-ttgatac------------gtattattagcagttaaattttcaaac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398302 84 -  29834108 tactgtaagtttactgtatga-ttatgcatgcagcataag-aaagcaagcag-ttgatgt------------gtattattagcagttaaattgtgaaac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850661 85 -   1015025 tactgtaagtttactgtgtga-ttattcatgcagcataagaaaagcaagcag-ttgatgt------------gtattattagcagttaaattttgaaac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870355 85 -   2295209 tactataagtttactgtgtga-ttatgtatgcggcataagaaaagcaagcag-ttgatgt------------gtattattagcagttaaattttgaaac
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5098244 98 +  13104022 tactgtgagctgtctatatgacttatgtatgtgtcttaagaaaagcaagcag-ttggttggtattattattaatattaagagtagttaaattttgaaac
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4569133 86 -  12054995 tactgtatgctttccatacgacttatatatgtaccatgagaaaagccataag-ttggtag------------atattagtagtagttaaattttgaaac
i otoGar3.GL873576          C 0 I 173
s canFam3.chr27              19724867 85 +  45876710 tactgtgagcttcctatgtgacttat-tatgcattgtaaaaaaagtaagcaa-ttgacag------------atattattggcagtgaaattttgaaac
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925113 87 -   1687904 ttttgtaagctctttatctgacttatgtgggtatcacaaggaaagtaagcagtttggtcg------------atactgccagtaattctattttaaaac
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3008214 1177 +  31815103 I

a score=1921031.000000
s hg38.chr12_GL383549v1_alt     81221 166 +    120804 aaaaatgtcctagtaatcctctt---------tcaaatgttta-tatc-----------------------------agtttaattaaagacaaccttaaggttgcaagggaagctgc-tttaaaaa-aactgacactatttgcatctcaagatttcctcaatacAAACAATAACCGGATGTTGATGC-----AAATTTGCAGTAATTATCT
s panTro5.chr12              62772806 166 + 137163284 aaaaatgtcctagtaatcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagacaaccttaaggttgcaagggaagctgc-tttaaaaa-aactgacactatttgcatctcaagatttcctcaatacAAACAATAACCGGATGTTGATGC-----AAATTTGCAGTAATTATCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896614 166 + 135337776 aaaaatgtcctagtaatcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagacaaccttaaggttgcaagggaagctgc-tttaaaaa-aactgacactatttgcatctcaagatttcctcaatacAAACAATAACCGGATGTTGATGC-----AAATTTGCAGTAATTATCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3111998 166 -  32808036 aaaaatgtcctagtaatcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagacaaccttaaggttgcaagggaagctgc-tttaaaaa-aactaacactatttgcatctcaagatttcctcaatacaaaaaataactggatgttgatgc-----aaatttgcagtaatcatct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302039 166 +  34552619 aaaaatgtcctagtaatcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaaggttgcaagggaagctgc-tttaaaaa-aactgatactatttgcatctCAAGATTTCCTCAGTACAAATGATAACTGGATGTTGATGC-----AACTTTGCAGTAATTATCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607674 163 - 133663169 aaaaatgtcctagtagtcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactcaagatttcctcaatacAAACGATAACTGGATGTTGATGC-----AAATTTGCAGTAAT----T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007235 163 - 137757926 aaaaatgtcctagtagtcctctt---------tcaaacgtttc-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactCAAGATTTCCTCAATACAAACGATAACTGGATGTTGATGC-----AAATTTGCAGTAAT----T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385188 167 -   7948249 aaaaatgtcctagtagtcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactcaagatttcctcaatacAAACGATAACTGGATGTTGTTGC-----AAATTTGCAGTAATTATCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285723 167 -  10730278 aaaaatgtcctagtagtcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactcaagatttcctcaatacAAACAATAACTGGATGTTGATGC-----AAATTTGCAGTAATTATCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776725 167 - 128539186 aaaaatgtcctagtagtcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactCAAGATTTCCTCAATACAAACGATAACTGGGTGTTGATGC-----AAATTTGCAGTAATTATCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       171917 167 +    435186 aaaaatgtcctagtagtcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaaccttaagagtgcaagggaagctgcttttaaaaa-aactaatactatttgcaactcaagatttcctcaatacAAACAATAACTGGATGTTGATGC-----AAATTTGCAGTAATTATCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566129 167 +   9309688 aaaaatgtcccagtagtcctctt---------tcaaacatttagtatc-----------------------------agtttaattaaagagaaccttaagattgcaagggaagctgc-tttaaaaa-aactaatactatttgcaactcaagatttcctcaatacAAACGATAACTGGATGTTGATGC-----AAATTTGCAGTAATTATCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398386 167 -  29834108 aaaaatgtcttagtaatcctctt---------tcaaacgttta-tatc-----------------------------agtttaattaaagagaattctaagattgcaagggaagctgc-tttaaaaatagctattactatttgcaactCAAGATTTCCTCAGTACAAAAGGTAACTGGATGTTGATGC-----AAATTTGCAGTAATCATCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850746 166 -   1015025 aaaaatgtcctagtaatcctctt---------tcaaacgttta-tacc-----------------------------agtttaattaaagagaattctaagattgcaagagaagctgc-tttaaaaa-aactaatactatttgcaactCAAGATTTCCTCAGTACAAAAGATAACTGGATGTTGATGC-----AAATTTGCAGTAATCATCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870440 166 -   2295209 aaaaatgtcctagtaatcctctt---------tcaaacgatta-tatc-----------------------------agtttaattaaagagaattctaagattgcaagggaagctgc-tttaaaaa-aactaatactatttgcaactCAAGATTTCCTCAGTACAAAAGATAACTGGATGTTGATGC-----AAATTTGCAGTAATCATCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5098342 161 +  13104022 aaaaatgtcctactaaacatctt---------tca---gttta--att-----------------------------agtttaattaaagagaatcctaagattgcaaggaaaactgc-tttaa-ga-aaggaatactattagcaactcaagatttcctcaatatgaaagataactggatgctgatgc-----aaatttgaagcaatcatct
i proCoq1.NW_012140524v1    C 0 I 399
s otoGar3.GL873576            4569392 202 -  12054995 aaaaatgtcctactaatcttctttgaggttagtca---gttta--attattgagaatcctgagtttgATTAGAATtcagtttaattaatgagaatcctaagactgcaaggaaaatggc-tttaa--a-aagcaataatatttgtaacCCGCGATTTCCTCAACACCAAAAGTACCTGGATGCTGGTGCTTTGATGATTTGTGG-AATCATTT
i otoGar3.GL873576          I 173 C 0
s canFam3.chr27              19724952 163 +  45876710 aaaagtgtcctgttaattctctt---------tcaatcatttg-catc-----------------------------aatttaattaaagagaatcttcagattgcaacgaacattgc-tttag-aa-aactaatactatttgcaaatcaggatctcctcagtacagaagataactgggtgctgatgc-----aattttgcagcaagtct--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925200 146 -   1687904 aaaagtgtcctattacttctctt---------tcaagtctttg-catc-----------------------------aaatgatttaaagagaattctgagactgcaaggggacctgc-ttgaaaaa-aataca---tagtttcaactcagggtttcctcaacac-----------------tgatgc-----aagtccacagcactcagct
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3008214 1177 +  31815103 I

a score=399967.000000
s hg38.chr12_GL383549v1_alt     81387 45 +    120804 ACAAG-CTTTGTGTCAGTGTTTTTG--TTCTTAATGTATAGTCCCATG
s panTro5.chr12              62772972 45 + 137163284 ACAAG-CTTTGTGTCAGTGTTTTTG--TTCTTAATGTATAGTCCCATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896780 45 + 135337776 ACAAG-CTTTGTGTCAGTGTTTTTG--TTCTTAATGTATAGTCCCATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112164 46 -  32808036 ataagcctttgtgtcaatgtttttg--ttcttaatgtatagtcccatg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302205 46 +  34552619 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAATGTATAGTACCGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607837 46 - 133663169 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAATGTATCATCCCATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007398 46 - 137757926 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAATGTATCATCCCATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385355 46 -   7948249 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAATGTATCATCCCATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285890 46 -  10730278 ATAAGCCTTTGTGTCAGTGTTTTTG--TTCTTAATGTATCGTCCCATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776892 46 - 128539186 ATAAGCCTTTGTGTCGATGTTTTTG--TTCTTAATGTATCGTCCCATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172084 46 +    435186 ATAAGCCTTTGTGTCAGTGTTTTTG--TTCTTAATGTATCGTCCCATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566296 46 +   9309688 ATAAGCCTTTGTGTCAGTGTTTTTG--TTCTTAATGTATCGTCCCATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398553 46 -  29834108 CTAAGCCTTTGTGTCAATGTTTTTG--TTCTTAGTGTACAGTCCCATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850912 46 -   1015025 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAGTGTATAGTCCCATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870606 46 -   2295209 ATAAGCCTTTGTGTCAATGTTTTTG--TTCTTAGTGTATAGTCCCATG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4569594 23 -  12054995 ------CTAAGTCCCA-------CA--TTACTAAAGTC----------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19725115 47 +  45876710 ataag-ctccatttcgattgttttagttttttaatatacagtcccatt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925346 40 -   1687904 -ggaacccttg-------atttttggttttttgatacatagtctcatt
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5098503 399 +  13104022 I

a score=871432.000000
s hg38.chr12_GL383549v1_alt     81432  86 +    120804 ACTATCCTTAACTGACTTTATAGTAAGGAAATATTTTAC----------------------------ACTAGTTAAACACTGGTTTCAT---------------------CCTATCATTTCAACCTAAGATTTAA
s panTro5.chr12              62773017  86 + 137163284 ACTATCCTTAACTGACTTTATAGTAAGGAAATATTTTAC----------------------------ACTAGTTAAACACTGGTTTCAT---------------------CCTATCATTTCAACCTAAGATTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896825  86 + 135337776 ACTATCCTTAACTGACTTTATAGTAAGGAAATATTTTAC----------------------------ACTAGTTAAACACTGGTTTCAT---------------------CCTATCATTTCAACCTAAGATTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112210  86 -  32808036 actatccttaattgactttatagtaaggaaatattTTAC----------------------------ACTAGTTAAACACTGGTTTCGT---------------------CCTATCATTTCGACCTAAGATTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302251  86 +  34552619 ACTATCCTTAATTGACTTTATAGTAAGGAAATATTTTAC----------------------------ACTAGTTAAACACTGGTTTCGT---------------------CCTATCATTTCAACGTAAGATTTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607883  85 - 133663169 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAAATACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007444  85 - 137757926 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAAATACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385401  85 -   7948249 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAAATACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8285936  85 -  10730278 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAGACACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100776938  85 - 128539186 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAAACACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172130  85 +    435186 ACTATGCTCAATTGACTTGATCGTAAGGAAATATTTTAC-----------------------------CTTGTTAAACACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566342  85 +   9309688 ACTATGCTCAATTGACTTTATCATAAGGAAATATTTTAC-----------------------------CTTGTTAAACACTGGTTTCCT---------------------CCTGTCATTTCAACCTAAGATTTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398599  81 -  29834108 ACTATCCTTAATTGACTTTACAGTAAGGACATATTTTAC--------------------------------ACTAAACGCTGGTTTTGT---------------------CCTGTCATTTCAACCTAAG-TTTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       850958  81 -   1015025 ACTATCCTTAACTGACTTTACAGTAAGGACATATTTTAC--------------------------------ACTAAACATTGGTTTTGT---------------------CCTGTCATTTCAACCTAAG-TTTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870652  81 -   2295209 ACTATCCTTAATTGGCTTTACAGTAAGGACATATTTTAC--------------------------------ACTAAACACTGGTTTTGT---------------------CCTGTCATTTCAACCTAAG-TTTAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5098902  86 +  13104022 actatctttaattgactttatagtcaggaaatattaGAC----------------------------GCTAATTAAACACTGGCTTCAT---------------------CCCCTCATTTCAACATAAGATTTCA
i proCoq1.NW_012140524v1    I 399 I 34
s otoGar3.GL873576            4569617  85 -  12054995 ACTATCATTCATTGACTTGATAGTCATGAGATATTATGC----------------------------ACTAATTAAACACCGACTT-GT---------------------CCCCTCATTTCAAAATAAAATTTCA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19725162 132 +  45876710 actgtccttaactgactttataataaggaaatattataa-atgtaaac-ttataaaataac-tatacactaattaaacattgatttcaccttttcaccttttttttttcaccttttatttcaatgtaaggtttcc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925386 113 -   1687904 agtgtccttaattgactttataataaggaaatattgtacaatataaatattacaaagtaatacgtacactaatccaacactggtttca----------------------cctcccatttcagcttaagatttca
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3008214 1177 +  31815103 I

a score=-1983.000000
s hg38.chr12_GL383549v1_alt     81518 7 +    120804 TTTTTTA
s panTro5.chr12              62773103 7 + 137163284 TTTTTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896911 7 + 135337776 TTTTAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112296 6 -  32808036 TTTT-AA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302337 7 +  34552619 TTTAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607968 6 - 133663169 TTTT-TA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007529 6 - 137757926 TTTT-TA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385486 6 -   7948249 TTTT-TA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286021 6 -  10730278 TTTT-TT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777023 6 - 128539186 TTTT-TT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172215 6 +    435186 TTTT-TT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566427 6 +   9309688 TTTT-TT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398680 6 -  29834108 TTTT-ta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851039 6 -   1015025 TTTT-TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870733 6 -   2295209 TTTA-AA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4569702 6 -  12054995 CATG-AA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19725294 6 +  45876710 tttg-ga
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             925499 3 -   1687904 ttt----
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2410603 558 - 149736546 I
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5098988 34 +  13104022 I

a score=311844.000000
s hg38.chr12_GL383549v1_alt     81525 29 +    120804 AAaaaaatgtgaaaac-----------------cactgatgtagag
s panTro5.chr12              62773110 29 + 137163284 AAAAATATGTGAAAAC-----------------CACTGATGTAgag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896918 29 + 135337776 AAAAATATGtgaaaac-----------------cactgatgtagag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112302 29 -  32808036 AAaaaaatgtgaaaac-----------------cactgacgtagag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302344 29 +  34552619 AAAAATATGtgaaaac-----------------cactgacataggg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104607974 29 - 133663169 AAAAATATGtgaaaac-----------------cactgacgtagag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007535 29 - 137757926 AAAAATATGtgaaaac-----------------cactgacgtagag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385492 29 -   7948249 AAAAATATGtgaaaac-----------------cactgacgtagag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286027 29 -  10730278 taaaatatgtgaaaac-----------------cactgacgtagag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777029 29 - 128539186 AAAAATATGtgaaaac-----------------cactgacgtagag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172221 29 +    435186 AAAAATATGtgaaaac-----------------cactgacgtagag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566433 29 +   9309688 AAAAATATGtgaaaac-----------------cactgacgtagag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398686 27 -  29834108 aaaaat--gtgaaaac-----------------cagtaatatagag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851045 27 -   1015025 aaaaat--gtgaaaac-----------------cacgaatgtagag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870739 28 -   2295209 aaaaat-cgtgaaaac-----------------cactaatgtagag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4569708 29 -  12054995 AAAGATATGTGAAAGC-----------------CACTGACATAGAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2411161 46 - 149736546 aaaTAAATGTAAAACCGATTAAGGGGGGGGGAGCACCAGCATAGAG
i mm10.chr6                 I 558 C 0
s canFam3.chr27              19725301 29 +  45876710 aaaaatatgtggaaac-----------------cactgATacggag
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             925502 21 -   1687904 --------gtaaaTAC-----------------CACTAATGTGGAA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5098988 34 +  13104022 I

a score=711118.000000
s hg38.chr12_GL383549v1_alt     81554 51 +    120804 gaacaagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
s panTro5.chr12              62773139 51 + 137163284 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896947 51 + 135337776 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112331 52 -  32808036 gaataagtaaaggaactaggatgtttagtctagagaagaaaaagttaaaagg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302373 51 +  34552619 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608003 51 - 133663169 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007564 51 - 137757926 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385521 51 -   7948249 gaataagtaaaggaactaggatctttagtctagagaagagaaagtt-aaagg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286056 51 -  10730278 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777058 51 - 128539186 gaataagtaaaggaactaggctctttagtctagagaagaaaaagtt-aaagg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172250 51 +    435186 gaataagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566462 51 +   9309688 gaacaagtaaaggaactaggatctttagtctagagaagaaaaagtt-aaagg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398713 51 -  29834108 gaataagtaaaggaactaggatctttagtctaaagaggaaaaagtt-aaagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851072 51 -   1015025 gaataagtaaaggaactaggatctttagtctaaagaggaaaaagtt-aaagg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870767 51 -   2295209 gaataagtaaaggaactaggatctttagtctaaagaggaaaaagtt-aaagg
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5099022 51 +  13104022 gaataagtaaaggaaccaaaatctttaatctagagaaacaaaagtt-aaagg
i proCoq1.NW_012140524v1    I 34 C 0
s otoGar3.GL873576            4569737 51 -  12054995 GAATAAGTAAAGGAACCAAGATCTTTAGTTAAAAAGAAAAAAAGTT-AAAAG
i otoGar3.GL873576          C 0 I 157
s mm10.chr6                   2411207 49 - 149736546 AAATAAGTAAAGAAAC-ACAATCTTTAGTCTGAAGAGGAAACA-TT-AGGGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725330 43 +  45876710 --------gggggacctggggtctttagtctggagaagaaaaagtt-gaagg
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925523 46 -   1687904 GAAT-----GAAGAACCAGGATCTTTAATCTGGGGAAGTGAACGTT-AAAGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3008214 1177 +  31815103 I

a score=176233.000000
s hg38.chr12_GL383549v1_alt     81605 20 +    120804 ggaacatgtaagcggccttc
s panTro5.chr12              62773190 20 + 137163284 ggaacatgtaagcggccttc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60896998 20 + 135337776 ggaacatgtaagcggccttc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112383 19 -  32808036 ggaacatgtaagc-gccttc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302424 20 +  34552619 ggaacatgtaagcagccttc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608054 20 - 133663169 ggaacacataagcggccttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007615 20 - 137757926 ggaacacataagcggccttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385572 20 -   7948249 ggaatacataagcagccttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286107 20 -  10730278 ggaacacataagcggccttc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777109 20 - 128539186 ggaacacgtaagcggccttc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172301 20 +    435186 ggaacacataagcggccttc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566513 20 +   9309688 ggaacacgtaagcggccttc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398764 20 -  29834108 agaacatgtaagctgctttc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851123 20 -   1015025 agaacatgtaagctgccttc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870818 20 -   2295209 agaacatgtaagctgccttc
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5099073 20 +  13104022 gaaacattcaagctaacttt
i proCoq1.NW_012140524v1    C 0 C 0
s mm10.chr6                   2411256 20 - 149736546 GAGGCATTCACGAAGATTTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725373 20 +  45876710 gagacattcaagctaccttc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925569  9 -   1687904 ----CAGGTACTC-------
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4569788 157 -  12054995 I
e micMur3.chr21               3008214 1177 +  31815103 I

a score=853272.000000
s hg38.chr12_GL383549v1_alt     81625 82 +    120804 atatatctgaaag---agaagt---------ttgcttcagaaagtaggagagtgaattgatgacggtgcagagggacaaatcttagcacaatac
s panTro5.chr12              62773210 82 + 137163284 atatatctgaaag---AGAAGT---------TTgcttcagaaagtaggagagtgaattgatgacggtgcagagggacaaatcttagcacaatac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897018 82 + 135337776 atatatctgaaag---agaagt---------ttgcttcagaaagtaggagagtgaattgatgacggtgcagagggacaaatcttagcacaatac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112402 82 -  32808036 atatatctgaaag---agaagt---------ttgcttcagaaagtaggagagtgaattgatgacggtgcagagggacaaatcttagcacaatac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302444 82 +  34552619 atatatctgaaag---agaggt---------ttgcttcagaaagtaggagagtgaattgatgacgttgcagagggacaaatcttagcacaatac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608074 85 - 133663169 gtctatctgaaagaaaagaagt---------ttgcttcagaaagtaggagagtgaattgatgaggttgcagagggacacatcttagcataacac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007635 85 - 137757926 gtctatctgaaagaaaagaagt---------ttgcttcagaaagtaggagagtgaattgatgaggttgcagagggacacatcttagcataacac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385592 85 -   7948249 gtctatctgaaagaaaagaagt---------ttgcttcagaaagtaggagagtgaattgatgaggttgcagagggacacatcttagcataacac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286127 85 -  10730278 gtctatctgaaagaaaagaagt---------ttgcttcagaaagtaggagagtgaattgatgaggttgcagagggacacatcttagcataacac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777129 85 - 128539186 gtctatctgaaagaaaagcagt---------ttgcttcagaaagtaggagagtgaattgatgacgttgcagagggacacatcttagcataacac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172321 85 +    435186 gtctatctgaaagaaaagaagt---------tttcttcagaaagtaggagagtgaattgatgaggttgcagagggacacatcttagcataacac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566533 85 +   9309688 gtctatctgaaagaaaagaagt---------ttgcttcagaaagtaggagagtgaattgatgacgttgcagagggacatatctcagcacaatac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398784 82 -  29834108 atgcatctgaaagagaagaagt---------ttgcttcagacagtaggagagtgaat---cgaagttgcagagggacaaatcttagcacaatac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851143 82 -   1015025 atacatctgaaagagaagaagt---------ttgcttcagacagtaggagagtgaat---cgaagttgcagaagcacaaatcttagcacaatac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870838 82 -   2295209 atacatctgaaagagaagaagt---------ttgcttcagacagtaggagagtgaat---cgaagttgcagagggacaaatcttagcacaatac
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5099093 94 +  13104022 gtctaactgaaagagaagttgtttattctggttgcttcagacagtaggagagtgaattaatgaaatcgcagagggacaaatcttagcacaatac
i proCoq1.NW_012140524v1    C 0 I 173
s otoGar3.GL873576            4569945 82 -  12054995 GTCTAACTGAAAG---AGTTGTttattctggttgcttcagacagtaggagagtgaatt---------gcagagggacaaatctcagcacaatac
i otoGar3.GL873576          I 157 C 0
s mm10.chr6                   2411276 83 - 149736546 GTGTATCTGAGTA---AGAAATGTATTCTGGTTGCTTCAAGAAAGAGGAGCATG-------GAACTTGAAGGTGGAGAAATTTCAGCACAATA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725393 93 +  45876710 gtatgtcttaaagagaagtagttcatgctatttgcttcagaaaacaggagagtgaacggataatgttaaaaaccgacaaatctcagcacatta-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925578 22 -   1687904 ------------------AACT---------CTGCCTCTGAGCTCAGGA---------------------------------------------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3008214 1177 +  31815103 I

a score=208025.000000
s hg38.chr12_GL383549v1_alt     81707 19 +    120804 aatctaaggaagaactttg
s panTro5.chr12              62773292 19 + 137163284 aatctaaggaagaacttta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897100 19 + 135337776 aatctaaggaagaacttta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112484 19 -  32808036 aatctaaggaagaactttg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302526 19 +  34552619 aatctaaggaagaacgttg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608159 19 - 133663169 agtctaaggaagaactttg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007720 19 - 137757926 agtctaaggaagaactttg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385677 19 -   7948249 agtctaaggaagaactttg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286212 19 -  10730278 agtctaaggaagaactttg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777214 19 - 128539186 agtctaagaaagaattttg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172406 19 +    435186 agtctaaggaagaactttg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566618 19 +   9309688 agtctaaggaagaactttg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398866 19 -  29834108 agtctaaggaggaacattg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851225 19 -   1015025 agcctaaggaagaactttg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870920 19 -   2295209 agtctaaggaagaactttg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4570027 19 -  12054995 cgtcaaagaaagaactttc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2411359 14 - 149736546 ----TACAGAATAACTTT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725486 15 +  45876710 ----taaaaaagaactttg
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             925600 17 -   1687904 --CCCAAGGAGGAACAATG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5099187 173 +  13104022 I

a score=69422.000000
s hg38.chr12_GL383549v1_alt     81726 9 +    120804 tcatgatta
s panTro5.chr12              62773311 9 + 137163284 tcatgatta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897119 9 + 135337776 tcatgatta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112503 9 -  32808036 ccatgatta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302545 9 +  34552619 ccatgatta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608178 9 - 133663169 acatgatta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007739 9 - 137757926 acatgatta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385696 9 -   7948249 acatgatta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286231 9 -  10730278 acttgatta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777233 9 - 128539186 acatgatta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172425 9 +    435186 acatgatta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566637 9 +   9309688 acatgatta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398885 9 -  29834108 ttatggcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851244 9 -   1015025 ctatgacta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870939 9 -   2295209 ctatgacta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4570046 9 -  12054995 ctgtaatta
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2411373 9 - 149736546 TGGTGGCCG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725501 9 +  45876710 ccacaatta
i canFam3.chr27             C 0 I 118
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5099187 173 +  13104022 I
e dasNov3.JH562883             925617 0 -   1687904 C

a score=1511191.000000
s hg38.chr12_GL383549v1_alt     81735 154 +    120804 ctcctttctgcaagtaaagggttgccttgtgggctcccaagaaccccatcatgggagatattcaagtaaagtttgggtctttaagga-gactgtacga--gagtcctcctt--ggGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCTGCT
s panTro5.chr12              62773320 154 + 137163284 ctcctttctgcaagtaaagggttgccttgtgggctcccaagaaccccatcatgggagatattcaagtaaagtttgggtctttaagga-gactgtacga--gagtcctcctt--ggGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCTGCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897128 154 + 135337776 ctcctttctgcaagtaaagggttgccttgtgggctcccaagaaccccatcatgggagatattcaagtaaagtttgggtctttaagga-gactgtacga--gagtcctcctt--ggGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCTGCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112512 154 -  32808036 ctcctttctgcaagtaaagggttgccttgtgggctcccaggaaccccatcatgggagatattcaagtaaagtttgggtctttaagga-gactgtacga--gagtcctcctt--ggGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCCGCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302554 154 +  34552619 ctcctttctgcaagtaaagggttgccttgtgggctcccaagaaccccatcatgggagatattcaagtaaagtttgAGTCTTTAAGGA-GACTGTGCGA--GAGTCTCCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCTGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608187 155 - 133663169 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcacgggagattttcaagtaaagcttgggtCTTTAAGGAGGACTGTGCAA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----TCTGCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007748 155 - 137757926 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcacgggagattttcaagtaaagcttgggtCTTTAAGGAGGACTGTGCAA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----TCTGCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385705 155 -   7948249 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcacgggagattttcaagtaaagcttgggtCTTTAAGGAGGACTGTGCAA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----TCTGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286240 155 -  10730278 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcacgggagattttcaagtaaagcttgggtCTTTAAGGAGGACTATGCAA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----TCTGCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777242 155 - 128539186 ttcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcatgggagatattcaagtaaagcttgggtCTTTAAGGAGGACTGTATGA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----TCTGCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172434 153 +    435186 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcccatcacgggagattttcaagtaaagcttgggtCTTTAAGGAGGACTGTGCAA--GAGTCCTCCTT--GGGA---AAATCATTAGCT--CCAACT--GAGATCA------------GAAATT------------CTT-----TCTGCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566646 155 +   9309688 ctcctttctgcaagtaaaggtttgccttgtggtctcccaagaatcctatcatgggagatactcaagtaaagcttgggtCTTTAAGGAGGACTGTACGA--GAGTTCTCCTT--GGGA---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAAATT------------CTT-----CCTGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11398894 155 -  29834108 ctcctttctacaagtaaaaggttgccttacaggctcccaagaaccccagcatgggagacattcaagtaaaggttgggtctttaaggagggctgtacga--gagtcctcctt--ggGG---AAATCATTAGCT--CCAAATCAGAGCTCA------------GAATTT------------CTT-----TCTGCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851253 155 -   1015025 ctcctttctacaagtaaaaggttgccttacgggctcccaagaaacccatcatgggagacattcaaggaaaggttggGCCTTTAAGGAGGACTGTATGA--GAGTCCTCCTT--GGGG---AAATCATTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----GCTGCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1870948 155 -   2295209 ctcctttctacaagtaaaaggttgccttatggactcccaagaacccgatcatgggagacattcaagtaaaggctgggtCTTTAAGGAGGACTGTATGA--GAGTCCTCCTT--GGGG---AAATCTTTAGCT--CCAATTCAGAGCTCA------------GAATTT------------CTT-----TCTACT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4570055 152 -  12054995 tttctttctaaaagtaaagggttgctttgtgagttcccaaggaccctggcatgagcgatatccaggcaaaggttgggtCTTGAAGAC----------A--GTGTCCTTTGG--GGGA-AGAAAAGATTAACT--CCCATTCAGAGCTCA------------GAATTT------------ACGAAGAAATTGCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2411382 166 - 149736546 AGTCTTTCTAAAAGCAAAGAGTCCCCTTATGAGCT--CAGGAAACCTAGT-TGGGAG-TACGCAGTCAAAACCTGAACGTATAAGGGGTTCAGTACAA-CCAGGCCTCCTCTGGGAG---AAAAGATTCTCTTCTCAATTCAAAGCTCCGCAGCTGGGGATGAACCT------------CTT-----TTAG--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725628 170 +  45876710 ctttttttttaaagtaaaacgctgtctctggagctcccaaggacccagccatgagagagattcgggcaaaggtttggtctttaaagaattttgcacaagggagtcctccat--gggaggggaaagatgaact--CCATTCCAGAGTTCA------------GAATCCAAGGAGGAACAACGC-----TCCA--
i canFam3.chr27             I 118 C 0
e micMur3.chr21               3008214 1177 +  31815103 I
e proCoq1.NW_012140524v1      5099187 173 +  13104022 I
e dasNov3.JH562883             925617   0 -   1687904 C

a score=41709.000000
s hg38.chr12_GL383549v1_alt     81889 5 +    120804 CTTAG
s panTro5.chr12              62773474 5 + 137163284 CTTAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897282 5 + 135337776 CTTAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112666 5 -  32808036 CTTGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302708 5 +  34552619 CTTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608342 5 - 133663169 CTTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007903 5 - 137757926 CTTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385860 5 -   7948249 CTTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286395 5 -  10730278 CTTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777397 5 - 128539186 CTTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172587 5 +    435186 CTTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566801 5 +   9309688 CTTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11399049 5 -  29834108 CTTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851408 5 -   1015025 CTTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1871103 3 -   2295209 CTT--
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4570207 5 -  12054995 CTTGC
i otoGar3.GL873576          C 0 I 2
s dasNov3.JH562883             925617 5 -   1687904 CTTCA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2411548 0 - 149736546 C
e micMur3.chr21               3008214 1177 +  31815103 I
e canFam3.chr27              19725798 0 +  45876710 C
e proCoq1.NW_012140524v1      5099187 173 +  13104022 I

a score=12766552.000000
s hg38.chr12_GL383549v1_alt     81894  926 +    120804  
s panTro5.chr12              62773479  927 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60897287  927 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3112671  925 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7302713  927 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104608347  916 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109007908  916 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1385865  917 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8286400  924 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100777402  914 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       172592  917 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3566806  917 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11399054  923 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       851413  922 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1871106  892 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3009391  907 +  31815103  
i micMur3.chr21             I 1177 C 0
s proCoq1.NW_012140524v1      5099360  908 +  13104022  
i proCoq1.NW_012140524v1    I 173 C 0
s otoGar3.GL873576            4570214  892 -  12054995  
i otoGar3.GL873576          I 2 C 0
s mm10.chr6                   2411548  881 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19725798 1003 +  45876710  
i canFam3.chr27             C 0 I 115
s dasNov3.JH562883             925622  866 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=237701.000000
s hg38.chr12_GL383549v1_alt     82820 16 +    120804 TCCCTGTTTTCATCAT
s panTro5.chr12              62774406 16 + 137163284 TCCCTGTTTTCATCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898214 16 + 135337776 TCCCTGTTTTCATCAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3113596 16 -  32808036 TCCCTGTTTTCATCAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7303640 16 +  34552619 TCCCTGTTTGCATCAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609263 16 - 133663169 TCCCTGCTTTCATCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109008824 16 - 137757926 TCCCTGCTTTCATCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1386782 16 -   7948249 TCCCTGCTTTCATCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287324 16 -  10730278 TCCCTGTTTTCATCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778316 16 - 128539186 TCCCTGTTTTCATCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       173509 16 +    435186 TCCCTGTTTTCATCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3567723 16 +   9309688 TCCCTGTTTTCATCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11399977 16 -  29834108 TCCCTGTTTCCATCAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852335 16 -   1015025 TCCCTGTTTTCATCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1871998 16 -   2295209 TCCCTGTTTTCATCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010298 16 +  31815103 TCCCAGTTTTCATCAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100268 16 +  13104022 TCCCTATTTTCATCAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4571106 16 -  12054995 TCCCGGTTTTCAACAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2412429 16 - 149736546 TTTTTTTTTCAATTAt
i mm10.chr6                 C 0 I 708
s canFam3.chr27              19726916 16 +  45876710 TCCTTGTTCAGATCAT
i canFam3.chr27             I 115 C 0
s dasNov3.JH562883             926488 13 -   1687904 ---TAATTTTCATCAT
i dasNov3.JH562883          C 0 C 0

a score=387221.000000
s hg38.chr12_GL383549v1_alt     82836 32 +    120804 GGTCCTACTAATAGCCCAATTACTAGCCATTA
s panTro5.chr12              62774422 32 + 137163284 GATCCTACTAAAAGCCCAATTACTAGCCATTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898230 31 + 135337776 GATCCTACTAATAGCCCAATTACTAGCCATT-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3113612 32 -  32808036 GGTCCTACTAATAGCCCAATTACTAGCCATTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7303656 31 +  34552619 GGTCCTACTAATAGCCCAAATACTAGCCATT-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609279 32 - 133663169 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i rheMac8.chr11             C 0 I 9
s macFas5.chr11             109008840 32 - 137757926 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i macFas5.chr11             C 0 I 11
s macNem1.NW_012011422v1      1386798 32 -   7948249 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i macNem1.NW_012011422v1    C 0 I 8
s cerAty1.NW_011999477v1      8287340 32 -  10730278 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i cerAty1.NW_011999477v1    C 0 I 10
s chlSab2.chr11             100778332 32 - 128539186 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       173525 32 +    435186 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i manLeu1.NW_012101287v1    C 0 I 8
s colAng1.NW_012114364v1      3567739 32 +   9309688 GGTCCTACTAAAAGCCCAATTACTAACCATTT
i colAng1.NW_012114364v1    C 0 I 8
s saiBol1.JH378123           11399993 32 -  29834108 GGTCCTACTAATAGCCCAATTACTAGCCattt
i saiBol1.JH378123          C 0 I 5
s cebCap1.NW_016107911v1       852351 32 -   1015025 GGTCCTACTAATAGCCCAATTACCAGCCATTT
i cebCap1.NW_016107911v1    C 0 I 5
s aotNan1.NW_018488218v1      1872014 31 -   2295209 GATCCTACTAATAGCCCAATTACTAGCCATT-
i aotNan1.NW_018488218v1    C 0 I 4
s micMur3.chr21               3010314 32 +  31815103 GGTCCTACTAATAGCCCAATTACTGGCCATAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100284 32 +  13104022 GGTCCTACTAATAGCCCAATTACTGGCCATAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4571122 32 -  12054995 CGTTCTACTAATACTTTGATTGATAGCCATGA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19726932 32 +  45876710 TGTCTTACCAATAGCTGACATGCTAGCcacac
i canFam3.chr27             C 0 I 26
s dasNov3.JH562883             926501 31 -   1687904 GGTCCTACCAACAATCAAATAACTGGTTATT-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2412445 708 - 149736546 I

a score=4026505.000000
s hg38.chr12_GL383549v1_alt     82868 324 +    120804  
s panTro5.chr12              62774454 324 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898261 325 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3113644 323 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7303687 325 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609320 325 - 133663169  
i rheMac8.chr11             I 9 C 0
s macFas5.chr11             109008883 325 - 137757926  
i macFas5.chr11             I 11 C 0
s macNem1.NW_012011422v1      1386838 325 -   7948249  
i macNem1.NW_012011422v1    I 8 C 0
s cerAty1.NW_011999477v1      8287382 325 -  10730278  
i cerAty1.NW_011999477v1    I 10 C 0
s chlSab2.chr11             100778365 325 - 128539186  
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       173565 325 +    435186  
i manLeu1.NW_012101287v1    I 8 C 0
s colAng1.NW_012114364v1      3567779 325 +   9309688  
i colAng1.NW_012114364v1    I 8 C 0
s saiBol1.JH378123           11400030 327 -  29834108  
i saiBol1.JH378123          I 5 C 0
s cebCap1.NW_016107911v1       852388 323 -   1015025  
i cebCap1.NW_016107911v1    I 5 C 0
s aotNan1.NW_018488218v1      1872049 325 -   2295209  
i aotNan1.NW_018488218v1    I 4 C 0
s micMur3.chr21               3010346 335 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100316 334 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 12
s otoGar3.GL873576            4571154 334 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2413153 276 - 149736546  
i mm10.chr6                 I 708 C 0
s canFam3.chr27              19726990 419 +  45876710  
i canFam3.chr27             I 26 C 0
s dasNov3.JH562883             926532 396 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=60088.000000
s hg38.chr12_GL383549v1_alt     83192 9 +    120804 ---TACCACGTT
s panTro5.chr12              62774778 9 + 137163284 ---TACCACGTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898586 9 + 135337776 ---TACCACGTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3113967 9 -  32808036 ---TACCACGTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304012 9 +  34552619 ---TACCACGTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609645 9 - 133663169 ---TACCATGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009208 9 - 137757926 ---TACCATGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387163 9 -   7948249 ---TACCATGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287707 9 -  10730278 ---TACCATGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778690 9 - 128539186 ---TACCATGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       173890 9 +    435186 ---TACCATGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568104 9 +   9309688 ---TACCATGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400357 9 -  29834108 ---TGCCATGTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852711 9 -   1015025 ---TATCATGTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872374 9 -   2295209 ---TACCATGTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010681 9 +  31815103 ---TATAACTTT
i micMur3.chr21             C 0 I 1
s otoGar3.GL873576            4571488 9 -  12054995 ---CATAACTTC
i otoGar3.GL873576          C 0 I 1
s canFam3.chr27              19727409 9 +  45876710 ---GATAACTTT
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             926928 9 -   1687904 CGGTACTTT---
i dasNov3.JH562883          C 0 I 1
e mm10.chr6                   2413429 0 - 149736546 C
e proCoq1.NW_012140524v1      5100650 12 +  13104022 I

a score=465740.000000
s hg38.chr12_GL383549v1_alt     83201 44 +    120804 TGata-----------ttca---------acatg---aaaagaaaaaatataaaatgt-agagtatTT
s panTro5.chr12              62774787 44 + 137163284 TGata-----------ttca---------acatg---aaaagaaaaaatataaaatgt-agagtatTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898595 44 + 135337776 TGata-----------ttca---------acatg---aaaagaaaaaatataaaatgt-agagtatTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3113976 44 -  32808036 TGata-----------ttca---------acatg---aaaagaaaaaatataaaatgt-agagtatTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304021 44 +  34552619 TGATA-----------TTCA---------ACATG---AAAAGAAAAGATATAAAATGT-AGAGTATTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609654 44 - 133663169 TGATA-----------TTCA---------ACATG---CAAAGAAAAAGTATAAAACGT-AGAGTATTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009217 44 - 137757926 TGATA-----------TTCA---------ACATG---CAAAGAAAAAGTATAAAACGT-AGAGTATTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387172 44 -   7948249 TGATA-----------TTCA---------ACATG---CAAAGAAAAAGTATAAAACGT-AGAATATTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287716 44 -  10730278 TGATA-----------TTCA---------ACATG---CAAAGAAAAAGTATAAAACGT-AGAGTATTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778699 44 - 128539186 TGATA-----------TTCA---------ACATG---CCAAGAAAAAATATAAAACAT-AGAGTATTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       173899 44 +    435186 TGATA-----------TTCA---------ACATG---CAAAGAAAAAGTATAAAACGT-AGAGTATTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568113 44 +   9309688 TGATA-----------TTCA---------ACATG---CAAAGAAAAAATATAAAACGT-AGAGTATTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400366 43 -  29834108 TGATA-----------TTCA---------TCATG----AAAAAAAATGCATAAAATGC-AGAGTATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852720 42 -   1015025 TGATA-----------TTCA---------TCATG-----AAAAAAATGTATAAAATGT-AAAGTATTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872383 42 -   2295209 TGATA-----------TTCA---------TCATG-----AAAAAAATGTATAAAACGC-AGAGTATTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010691 44 +  31815103 TGACA-----------TTCA---------ACACA---AAACAAAAAAATTTAAAATGT-AGAGTACAT
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5100662 43 +  13104022 TGACA-----------TTCA---------ACACA---AAAC-AAAAAATATAAAATGT-ATAGTATAT
i proCoq1.NW_012140524v1    I 12 C 0
s otoGar3.GL873576            4571498 64 -  12054995 TGATACAGCAGAGCTCTACAGCACGGAGCACACA---AAACAAAAAAATCTGAAATGT-AGAGTACAG
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2413429 27 - 149736546 TGGTA-----------TCCA-------------------------GAGTCTGCAGTGTCAGAG-----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19727419 47 +  45876710 CGATG-----------TTCA---------ACATGGAAAAAAGGAAAAGATTGAAATGT-AGAGTATAT
i canFam3.chr27             I 1 I 116
s dasNov3.JH562883             926938 42 -   1687904 TGATA-----------TTCG---------ACATG---GAAAAAAAGACTTAAAAA--T-AAATTCTTT
i dasNov3.JH562883          I 1 C 0

a score=15027.000000
s hg38.chr12_GL383549v1_alt     83245 2 +    120804 AC
s panTro5.chr12              62774831 2 + 137163284 AC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898639 2 + 135337776 AC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114020 2 -  32808036 AC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304065 2 +  34552619 AC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609698 2 - 133663169 AC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009261 2 - 137757926 AC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387216 2 -   7948249 AC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287760 2 -  10730278 AC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778743 2 - 128539186 AC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       173943 2 +    435186 AC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568157 2 +   9309688 AC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400409 2 -  29834108 AT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852762 2 -   1015025 AT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872425 2 -   2295209 AT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010735 2 +  31815103 AT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100705 2 +  13104022 AT
i proCoq1.NW_012140524v1    C 0 I 65
s otoGar3.GL873576            4571562 2 -  12054995 AT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19727582 2 +  45876710 AT
i canFam3.chr27             I 116 C 0
s dasNov3.JH562883             926980 1 -   1687904 A-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2413456 0 - 149736546 C

a score=730601.000000
s hg38.chr12_GL383549v1_alt     83247 65 +    120804 ACCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCATATATGGGG
s panTro5.chr12              62774833 65 + 137163284 TCCTAACTACCACTGGGCAAGGGCATTCCTTTACCACC-TAAAAAGTACCTTCATCATATATGCGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898641 65 + 135337776 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCATATATGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114022 65 -  32808036 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCACACATGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304067 65 +  34552619 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAGGTACCTTCATCATACATGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609700 65 - 133663169 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTATCTTCATCGTATATGGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009263 65 - 137757926 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCGTATATGGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387218 65 -   7948249 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCGTATATGGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287762 65 -  10730278 TCCTAACTACTACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCATATATGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778745 51 - 128539186 TCC--------------CAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCGTATATGGGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       173945 65 +    435186 TCCTAACTACTACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCGTATATGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568159 65 +   9309688 TCCTAACTACCACTGGGCAAGGACATTCCTTTACCACC-TAAAAAGTACCTTCATCGTATATTGGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400411 66 -  29834108 TCCTAACTACCACTGGGCAAGGACATTCCTTTACAACCTTAAAAAGCACCTTCATCATATATGCGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852764 65 -   1015025 TCCTAACTACCACTGGGTAAGGACATTCCTTTACAACC-TAAAAAGCACCTTCATCATATATGCGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872427 65 -   2295209 TCGTAACTACCACTGGGCAAGGACATTCCTTTACAACC-TAAAAAGCACCTTCATCATATATGCGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010737 65 +  31815103 CCTTAAGTAGCACTGGGCAAGAACACTGCTTCACAGCC-TACAAAGTACCCCAACCACATTTGAGA
i micMur3.chr21             C 0 I 1
s otoGar3.GL873576            4571564 65 -  12054995 TTTTAAGTAGCACTGGGCAAGAACATTCCTTCACAGCC-TAAAAATTACCCCTCTCATATTTTGGA
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2413456 56 - 149736546 --------AGCACTGAG-ATGAATGTTCCTCTACAACC-TGCCAAGTGTTCTAATTGCGTGGGGAG
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19727584 64 +  45876710 ATTTCAGTAGTAGTGAGCAAGG-CTTCTTTTTATGACC-TGAAAAGCACCCTAATCATATTTGGTG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             926981 57 -   1687904 --------GCAGTTGGGAAGGAACTTCCTTTTACAACC-TGACATGTGCCTTAATCATGTTTGAGT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5100707 65 +  13104022 I

a score=813737.000000
s hg38.chr12_GL383549v1_alt     83312 59 +    120804 GAGAGACCGACAGTGG--GAGACCACACCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
s panTro5.chr12              62774898 59 + 137163284 GAGAGACCGACAGTGG--GAGATCACATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898706 59 + 135337776 GAGAGACCGACAGTGG--GAGACCACACCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114087 59 -  32808036 GAGAGACCGACAGTGG--GAGACCACATCTTGCCAGAATCATCAAGGGCATCTCATTTGCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304132 59 +  34552619 GAGAGACCGACAGTGG--GAGACCACATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609765 59 - 133663169 GAGACACCGACAGTGG--GAGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009328 59 - 137757926 GAGACACCGACAGTGG--GAGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387283 59 -   7948249 GAGACACCGACAGTGG--GAGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287827 59 -  10730278 GAGACACCGACAGTGG--GGGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778796 59 - 128539186 GAGACACTGACAGTGG--GAGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174010 59 +    435186 GAGACACCGACAGTGC--AAGACCATATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568224 59 +   9309688 GAGAGACCGACAGTGG--GAGACCACATCTTGCCAGAATCATCAAGGGTATCTCATTTGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400477 59 -  29834108 GAAAGACTGACTGTGG--GAGACCACACCTTGCCAGAGTCATCAAGGGCATCTCACTTGCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852829 59 -   1015025 GAAGGACTGACTGTGG--GAGACCACACCTTGCCAGAGTCATCAAGGGCATCTCACTTACT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872492 59 -   2295209 GAAAGACTGACTGTGG--GAGACCACATCTTGCCAGAGTCATCAAGGGCATCTCACTTGCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010803 61 +  31815103 GAAAGATTGAGAGTGAGAAAGCCCACTCCTTCCCAGAATGATCAAGGGCATCTCATCTTCT
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5100772 61 +  13104022 GAAAGACTGACAGTGGAAGAGACCACTCCTTGCCAGAATCATAAAAGGTATCTCATCTGCT
i proCoq1.NW_012140524v1    I 65 C 0
s otoGar3.GL873576            4571630 60 -  12054995 GAAAGACGGACAGTGGTAGAGACCACTCC-TGCCAGAATCATCCAGGGCTTCTCATCTGCT
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2413513 59 - 149736546 GAAAGATTGAGTAGAC--AAGACCTCATGTAGCTAGGATGATGAAGACTACCTCATCTGCT
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19727649 61 +  45876710 GAAAACCTGAAAGTGGGAGAAACCATACCATCGCAGAATTACCAAGGGCACCTCATTTGCT
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             927038 61 -   1687904 GAAAGACTGAAAGTGAGAGAGACCACAGTGTGCCAGAATAATCCGGGACATCTCATGTGTT
i dasNov3.JH562883          C 0 M 853

a score=711184.000000
s hg38.chr12_GL383549v1_alt     83371 61 +    120804 TTGAAGTGACACCACCAGACCCACAGCCACCATGCCACTATTTCTACTTTAACTAAAGTGG
s panTro5.chr12              62774957 61 + 137163284 TTGAAGTGACACCACCAGACCCACAGCCACCATGCCACTATTTCTACTTTAACTAAAGTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898765 61 + 135337776 TTGAAGTGACACCACCAGATCCACAGCCACCATTCCACTATTTCTACTTTAACTAAAGTGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114146 61 -  32808036 TTGAAGTGACACCACCAGACCCACAGCCACCATGCCACTATTTCTACTTTAACTAAAGTGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304191 61 +  34552619 TTGAAGTGTCACCACCAGACCCACAGCCACCATGCCACTATTTTTACTTTAACTAAAGTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609824 61 - 133663169 TTAAACTGACACCACCAGACCCACAGTGACCATACCACTATTTCTACTTTAACTAAAGTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009387 61 - 137757926 TTAAACTGACACCACCAGACCCACAGTGACCATACCACTATTTCTACTTTAACTAAAGTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387342 61 -   7948249 TTAAACTGACACCACCAGACCCACAGTGACCATACCACTATTTCTACTTTAACTAAAGTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287886 61 -  10730278 TTAAACTGACACCACCAGACCCACAGTGGTCATACCACTATTTCTACTTTAACTAAAGTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778855 61 - 128539186 TCGAACTGACACCACCAGACCCACAGTGACCATGCCACTATTTCTACTTTAACTAAAGTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174069 61 +    435186 TTAAACTGACACCACCAGACCCACAGTGACCATACCACTATTTCTACTTTAACTAAAGTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568283 61 +   9309688 TTGAACTGACACCACCAGACCCACAGTGACCATGCCACTATTTCTACTTTAACTAAAGTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400536 56 -  29834108 TTCAAGTGACAT-----AACCCAAGGCCACTAGGCCACTATTTCTACTTTAACTAAAGTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852888 56 -   1015025 TTCAAGTGACAC-----AACCCAAGGCCACCAGGCCACTATTTCTACTTTAACTAAAGTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872551 56 -   2295209 TTCAAGTGACAC-----AACCCAAGGCCACCAGGCCACTATTTCTACTTTAACTAAAGGGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010864 61 +  31815103 TTGAAGTGACACCACCAGACCCATGGCCACCGTGCCACTATTCCTACCTTAACAAAAGTGG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100833 61 +  13104022 TTGAAGTGACACCACTAGACCCATGCCCACCATGTCACTATTCCTACCTTAACAAAAGTGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4571690 61 -  12054995 TTGAAGGGACACCACCAGACCCACAGCCACCATGCCACTACCCCCACCTTAACAAAGAAAG
i otoGar3.GL873576          C 0 I 150
s mm10.chr6                   2413572 60 - 149736546 CCAGAGTGATATCCTGAGAACCACTGGTATC-TGTCTCTTTTTCCACCTTACTCGAAATGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19727710 61 +  45876710 TCGATGCGCCAGCATCCGAGCCACTGCCATCATGCTATTATGTCTATCTTGACAGAAAAGG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             927099 853 -   1687904 M

a score=2271658.000000
s hg38.chr12_GL383549v1_alt     83432 194 +    120804 GCTGGATGATCTTTGAATGTCC-T--CAGGG--------------GAAAAA---------AAAA--------GTG---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAACAGTCACTAAAATAAAGCAGGTT-AGGACAGGTTGCTG-AAGACCCAA--ATATGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTCCTGCCTTCTA
s panTro5.chr12              62775018 194 + 137163284 GCTGGATGATCTTTGAGTGTCC-T--CAGGG--------------GAAAAA---------AAAA--------ATG---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAACAGTCACTAAAATAAAGCAGGTT-AGGACAGGTTGCTG-AAGACCCAA--ATGTGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTCCTGCCTTCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60898826 195 + 135337776 GCTGGATGATCTTTGAGTGTCC-T--CAGGG--------------GGAAAA---------AAAA-------CGTG---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAACAGTCACTAAAATAAAGCAGGTT-AGGACAGGTTGCTG-AAGACCCAA--ATGTGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTCCTGCCTTCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114207 194 -  32808036 GCTGGATGATCTTTGAGTGTCC-T--CAGGG--------------GGAAAA---------AAAA--------GTG---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAACAGTCACTAAAATAAAGCAGGTT-AGGACAGGTTGCTG-AAGACCCAA--ATGTGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTCCTGCCTTCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304252 204 +  34552619 GCTGGATGATCTTTGAGTGTCC-T--CAGGG--------------aaaaaa---------aaaaaaaaaaaaGTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAACAGTCACTAAAATAAAGCAGGTT-AGGACAGGTTGCTG-AAGACCCAAATATGTGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTCCTGCCTTCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104609885 196 - 133663169 GATGGATGATCTTTGAGTGTCC-T--CAGGG-------------AAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCACAGGTTGCTGAAAGACCCAA--ATGTGTGTGGAAAAGATCC-CTTAAAGTACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009448 196 - 137757926 GATGGATGATCTTTGAGTGTCC-T--CAGGG-------------AAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCACAGGTTGCTGAAAGACCCAA--ATGTGTGTGGAAAAGATCC-CTTAAAGTACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387403 198 -   7948249 GATGGATGATCTTTGAGTGTCC-T--CAGGG-----------AAAAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCACAGGTTGCTGAAAGACCCAA--ATGTGTGTGGAAAAGATCC-CTTAAAGTACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8287947 195 -  10730278 GATGGATGATCTTTGAGTGTCC-T--CAGGG--------------AAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTTAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCACAGGTTGCTGAAAGACCCAA--ATGTGTGTGGAAAAGATCT-CTTAAAGCACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100778916 197 - 128539186 AATGGATGATCTTTGAGTGTCC-T--CAGGA-----------AAAAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGTGCATGTTGCTG-AAGACCCAA--ATGTGTGTGGAAAAGATCC-CTTAAAGCACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174130 195 +    435186 GATGGATGATCTTTGAGTGTCC-T--CAGG--------------GAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTTAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCACAGGTTGCTGAAAGACCCAA--AGGTGTGTGGAAAAGATCC-CTTAAAGCACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568344 197 +   9309688 GATGGATGATCTTTGAGTGTCC-T--CAGGA-----------AAAAAAAAA---------AAAA--------GTA---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAAAAAGTTAGTAATAGTCACTAAAATAAAGCAGGTT-AGCGCAGGTTGCTG-AAGACCCAA--ATGTGTGTGGAAAAGATCC-TATAAAGGACATTTCCTGGAGACCTGGATCCTGCTTCCTGTCTTCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400592 204 -  29834108 GCTGGGTGATCTTTGAGTGTCC-T--CATGG-------------AAAAAAAAAAAAAAATAAAA--------GTG---------GTGGAGAGAGTTTGCTGATTCAGAGCTTAGAAATTTAGTCATAATCACTGAAATAAAGCAGGTT-AGCACAGGTTGCTG-AAGACCCAA--ATGTGTGTGGACAAGATCC-CATAAAGCACATTTCTTGGAGGCCTGGATCCTGTTTTCCGCCTTCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       852944 198 -   1015025 GCTGGGTGATCTTTGAGTGTCC-T--CATGG-------------AAAAAAAAAA------AAAA--------GTA---------GGGGAGAGAGCTTGCTGATTCAGAGCTTAGAAATTTAGTAATAGTCACTGAAATAAAGCAGGTT-AGCACAGGTTGCTA-AAGACCCAA--ATGTGTGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTTCTGCCTTCTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872607 195 -   2295209 GCTGGGTGATCTTTGAGTGTCC-T--CATGG-------------AAAAAAA---------AAAA--------GTG---------GGGGAGAGAGTTTGCTGATTCAGAGCTTAGAAATTTAGTACTAGTCACTGAAATAAAGCAGGTT-AGCACAGGTTGCTG-AAGACCCAA--ATGTATGTGGACAAGATCC-CATAAAGCACATTTCCTGGAGGCCTGGATCCTGCTTTCCGCCTTCTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3010925 191 +  31815103 GCTGGATGATCTTTGAATGTCCTT--CAGGG-------------------A---------AAAA--------GAA---------GGCAAGCAGGATTGCTGATTCAGAGCTGAGAAAGTTAACAATAGTCACTAAAATAAAGCAGTTTAAGCAAAGGTCAGTG-AAGACCCAC--ATGTGTGTGGACAGGATGC-CATAAAGCACATTTGCTAGAGGACTAGATCCGGCTTTGTGCCTTCTA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5100894 191 +  13104022 GCTGGATGATCTTTGACTGTCCTT--CAGGG-------------------A---------AAGA--------GAG---------AGCGAGCAGGTTTGCTGATTCAGAGCTGAGAAAGTTAATAATAGTCACTAAAATAAAGCAGAGTAAGCAAATGTCAGTG-AAGACCCAC--ATGTGTGTGGACTGGATCC-CATAAAGCACATTTGCTAGAGGACTGGATCCGGCTTTCTGTCTTCTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4571901 190 -  12054995 GCTGGATGGTCTTTAAGTGTCCTT--CAGGG-------------------A---------GAAA--------GAA---------GGCAAGTGGGTTTGCTGAGTTAGAAGCAAGAAAGTTAGTTATAATCACAGAAATAAAGCAGTTTTAGCAAAGGTCAGTG-AATA-CCAC--CTGTGCATGGACAGGATCC-CACAAAGCACATTTGCTAGGGGACTCCACGGTGCTGTGTGCCTTCTA
i otoGar3.GL873576          I 150 C 0
s mm10.chr6                   2413632 134 - 149736546 -CCAGATGGTCTGAGCATCCCT-C--CATGG-------------------G---------AAAA--------GGA---------TGAGCTACA-TTTAATGATCCCAACCAAAGGCAGTTAG-ATCAATTACTAGCATAAGGCAG-------------------AGAGTCCAA--GCTTGTGAGGATGGGATCC-TCTGAGGCACAT-----------------------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19727771 220 +  45876710 GCTAGATGATCTTTGAGTACCC-TTCCAGGaaaaaaaaaaaaaaaaaaaaa---------aaaa--------gaaaaGGGGTAGGGGGAGGGAGTTTCCTGATTCAGAGCTAAGGAAGTTAGTAATGGCCACTAAAGTAAAGCAATTT-AAGAAAGGTCAGTG-AAGAGCCCA--ATGTGTGTGGACAGGATTTATACAAAGCACATTTGCTAAAGGACAAGAGCCTGCGTACTGCCTTACA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             927099 853 -   1687904 M

a score=4240065.000000
s hg38.chr12_GL383549v1_alt     83626 277 +    120804 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCACATCAATTTTGTTCTTTCACGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACCACAACCATCAATTAACA-TTTTTGC--TTTTCATTTAGCTTC
s panTro5.chr12              62775212 277 + 137163284 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCACGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899021 277 + 135337776 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCACATCAATTTTGTTCTTTCACGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114401 277 -  32808036 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCACATCAATTTTGTTCTTTCACGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304456 275 +  34552619 AGCAGCTGG-TGTCAGGTGTGTGGGGCA-GGGTGT---TATGTTC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCACATCAATTTTGTTCTTTCACGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCA-TTAGCTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610081 277 - 133663169 AGCAGCTCG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCGTCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009644 277 - 137757926 AGCAGCTCG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCGTCCCCCTACCACAAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387601 277 -   7948249 AGCAGCTCG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCGTCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288142 277 -  10730278 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTTC-CC-AAGCGTCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779113 277 - 128539186 AGCAGCTGG-TATGGGGTGTGTGGGACAGGGGTGT---TACATTC-CC-AAGCGTCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCACCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174325 277 +    435186 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TACGTTC-CC-AAGCGTCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACCGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568541 277 +   9309688 AGCAGCTGG-TGTGGGGTGTGTGGGGCAGGGGTGT---TATGTGC-CC-AAGCATCCCCCTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGAGATGATCCAGAGGTAACAGACTGCATCAATTTTGTTCTTTCATGGAGTAGTTCTATTTATTCACCCTGGAGATGGGTTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11400796 277 -  29834108 AGCAGCTAGGTGTGGGGTGTGTGGGGCAGGGGTGT---TATGTCT-CC-AAGCATCCCCTTACTACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TCCTTGA-ATGATCCAGAGGTAACAAACCACATCAGTTTTGTTCTTTCATGGAGTAGTTCCATTTATTCACCCTGGAGATTGGTTTAGACAAAAGAAAACCTTAGTTAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853142 277 -   1015025 AGCAGCTGGGTGTGGGGTATGTGGGGCAGGGGTGT---TATGTCT-CC-AAGCATCCCCTTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----GCCTTGA-ATGATCCAGAGGTAACAAACCACATCAGTTTTGTTCTTTCATGGAGTAGTTCCATTTATTCACCCTGGAGATTGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1872802 277 -   2295209 AGCAGCTGGATGTGGGGTGTGTAGGGCAGGGGTGT---TATGTCT-CC-AAGCATCCCCTTACCACCAATCCTT-CT-CAGACAGGAAGTTTGCAAGTTGCTAGGCTTTGAAAGTA-TTGT----TTCTCGA-ATGATCCAGAGGTAACAAACCACATCAGTTTTGTTCTTTCATGGAGTAGTTCCATTTATTCACCCTGGAGATTGGTTTAGACAAAAGAAAACCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011116 275 +  31815103 AACAGCTGG-AGAGGGGTGTGTGGGGCACGCGTGT---CATGCCC-CC-AGGCA--CCCCTGCCACCAATCCTT-CA-GAGACAGGAAGTTTTCGAGTTGCTGGGCTTTGAAAGTA-CTGT----TCCTTGAGATTATCCAGAGGTAGCAGACCACATGAATTTTGTTCTCTCATGGAACAGTTCCATTTATTCACCCTAGAGGTTGGTTTAGACAAAAGAAAGACTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5101085 277 +  13104022 AGCAGCTGG-AGTGGGGTGTGTGGGGCACGGGTGTCACCATGCCC-CC--GGCA--CCCCTGCCACCAATCCTT-CA-GAGACAGGAAGTTTGCAAGTTGCTGGGCTTTGAAAGTA-TTGT----TCCTTAAGATTACCCAGAGGTAACAGACCACATGAATTTTGTTCTTTCATGGAATAGTTCCATTTATTCACCCTAGAGGTTGGTTTAGACAAAAGAAAGACTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTTTTCC--TTTTCATTTAGCTTC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4572091 276 -  12054995 AGCAGCTGG-AGGAGGGTGTAGGGGGCACGAGTGC---CATGCCC-CC-AGGCA--CCACTGTCTCCAATCTTTATG-GAGACAGGAAGTTTGCAAGTTGCTGGGCTTTGAAAGTA-TTGT----TCCTTGAGCTTATCCAGAGGTAACAGACCACATGAATTTTGTTCTTTCATGGAATAGTTCCATTTATTCACCCCAGAGATTGGGTTAGACAAAAGAAAGCCTTAGTCAACTGGAGCCTGACTTACTACAACCATCAATTAACA-TTCTTCC--TCTTCATGTAGCTTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2413766 228 - 149736546 ----------TGTGGGG----------------------------------------------AACCAGTCTGT-CTAGAGACAGGAAGATGACATGCCACTGGGC-TTGAAAGCA-TTGTCTGCTCCTTGGGATTATCCAGAGGTGAGAGTTCACACAGA--TTGCTCTTTCATGGA--AGTTTGGTGTAGTCACCCAAGAGATTGACTTAGACAAAGTAAAGCTTTAGTCAGCCGGAGCCTGACTAACAACAACTGCTAATTAACATTTTTTCC--TTTTCATTTAGCTTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19727991 268 +  45876710 AACAGCTGG-TGT-GGGCATGAAGAGCAGGCGTGT---CATACCC-CCCACGCATCCCTC--CCACC-GCCTTT-TG-GGGACAGGAAGTTTGCAAGTTGCCAGGCATT-----TG-TTTT----TCCTTCAGATTGTGCAGAGGTAACAGACCACATGAATTTTGTTCATTCATGGAATAGTTA-GTTTATTCACCCTAGAGATTGGTTTAGACAAAATAAAGCCTTAGTCAACTGGAGCCTAACTTACTACAACCTTTAATTAACA-TTTTTCC--TTttcatttagcttc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             927966 275 -   1687904 AGAAGCTGG-TGTGGGA-ATGAGGGGCAGGGG-GT---CATACCCACC-AAACGTTTGTC--CCACCAGCCCTT-CTGGAGACAGGAAGTTTGCAAGTGGTT-GACTTTTAAAGTACTTTT----TCCTTGAGGTTACTCAGAGGTAATATACCACATGAATTTTGTTC-TTCATGAAATAATCATATTTATTCACCCTAGAGATTGGTTTAGACAAAATAAAGCCAAAGTCAACTGGTGCCTAACT-ACTACAACCTTTAATTAACA-TTTTTGCTTTTTTCATTTAGCTTC
i dasNov3.JH562883          M 853 I 801

a score=2310832.000000
s hg38.chr12_GL383549v1_alt     83903 168 +    120804 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCGCAAGTATTCTTTT----------CTGACTCATCTTGTTTATCTTCTATATTTATTATCAAGTTAAAAATGTGAATTTATGCTCAGAT
s panTro5.chr12              62775489 168 + 137163284 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCGCAAGTATTCTTTT----------CTGACTCATCTTGTTTATCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899298 168 + 135337776 CATGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCGCAAGTATTCTTTT----------CTGACTCATCGTGTTTATCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114678 168 -  32808036 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAGTATTCTTTT----------CTGACTCATCTTGTTTATCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304731 168 +  34552619 CACGAGAAATGAAGTGAATCCCAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTTGCAAGTATTCTTTT----------CTGACTCATCTTGTATATCTTCTATATTTATTATCAAATTAAAAATGTAAATTTATGCTCAGAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610358 168 - 133663169 CACGAGAAATGAAGTGAATCACGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACATCTTCTATGTTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109009921 168 - 137757926 CACGAGAAATGAAGTGAATCACGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACATCTTCTATGTTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1387878 168 -   7948249 CACGAGAAATGAAGTGAATCACGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACATCTTCTATGTTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288419 168 -  10730278 CACGAGAAATGAAGTGAATCACGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACATCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779390 168 - 128539186 CATGAGAAATGAAGTGAATCATGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAATCAG----GTACTCGCAAATATTCTTTT----------CTGACTCATCTTGTACATCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174602 168 +    435186 CACGAGAAATGAAGTGAATCACGAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACCTCTTCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568818 165 +   9309688 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAAGGATTCATCTTTTTAACCAACCAGTTCCCAGGTCTAACCAG----GTATTCACAAATATTCTTTT----------CTGACTCATCTTGTACA---TCTATATTTATTATCAAATTAAAAATGTGAATTTATGCTCAGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401073 168 -  29834108 CATGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCCGTTCCCAGATCTAACCAG----GTATTTGTAAGTATTCTTTT----------CTGACTCATTTTGTATGTCTTCTATATTTATGATCAAATTAAAAATGTGAATTTATGCTCAGAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853419 168 -   1015025 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCCGTTCCCAGATCTAACCAG----GTATTTGTAAGTATTCTTTT----------CTGACTCATTTTGTATGTTTTCTATATTTATGATCAAATTAGAAATGTGAATTTATGCTCAGAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873079 168 -   2295209 CACGAGAAATGAAGTGAATCACAAGAAAGTCATTTGACATTAGGGATTCATCTTTTTAACCAACCCGTTCCCAGATCTAACCAG----GTATTTGTAAGTATTCTTTT----------CTGACTCATTTTGTATGTCTTCTATATTTATGATCAAATTAAAAATGTGAATTTATGCTCAGAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011391 175 +  31815103 CATGAGAAATGAAATGAATCACAAGAAAGTCATTTGACATTAGCAATTCATCTTTTTAACGGGGC---TACCTGGTGTAGCCAG----GTATTCGTAAGTATTTTTTTTTTTTTTTTGCTGGCTCGTCTTGTACATTTTCTGTATTTGTGATCAAATGAAGACTGTGAATTTATGCTCAGAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5101362 166 +  13104022 CATGAGAAATGAAATGAATCACAAGAAAGTCATTTGACATTAGCAATTCATCTTTTTAACAGGGC---TACCTGGTGTAGCCAG----GTATTAGTAAGTATTTTTTTT---------CTGGCTCATCTTATACATTTTCTGTATTTGTGATCAAATAAAGACTATGAATTTATGCCCAGAT
i proCoq1.NW_012140524v1    C 0 I 14
s otoGar3.GL873576            4572367 172 -  12054995 CATGAGAAATGAAGTGAATCACAGGAAAGTCATTTGACATTAGCGATTCATCTTTCTAACCGACCAATTCCCAGGTGTAGCCAGGTGTGTATTAGTGAGTATTTTTCT----------CTGGCTCATCTTGTACATTGTCTGTGTTTGTGATCAAATAAAGAATGTGCATTTATGCTCAGAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2413994 160 - 149736546 GATGAGAACT-AAGTGAATCACAAGAAAGTCATTTGAAATCAGGGAGTTCTCTTGTTAACCACCCAGATCCACAACATCAGCAC----GTA-TAATGAGTAGCGTTCT----------CTGACATGTCTGAGAT------TATATTTATGAACAAATATAGAATCTGAACGTACATATGGCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19728259 167 +  45876710 gatgagaaatgaagtgaatcacaagaaagtaatttgacatgagggatttatctt-tgaaccaaccagttccaaggcGTAACCAG----GTATTAGTCAAAATTCTTTT----------CTGGCTCATCTTGTTTCTCTTTTCTGTTTATGATCAAATAAAGAGTGTGAATTTATGCTCAGAT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             928241 801 -   1687904 I

a score=111401.000000
s hg38.chr12_GL383549v1_alt     84071 13 +    120804 CAGTGATCCTGTA
s panTro5.chr12              62775657 13 + 137163284 CAGTGATCCTGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899466 13 + 135337776 CAGTGATCCTGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114846 13 -  32808036 CAGTGATCCTGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304899 13 +  34552619 CAGTGATCCTGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610526 13 - 133663169 CAGTGATCCTGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010089 13 - 137757926 CAGTGATCCTGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388046 13 -   7948249 CAGTGATCCTGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288587 13 -  10730278 CAGTGATCCTGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779558 13 - 128539186 CAGTGATCCTGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174770 13 +    435186 CAGTGATCCTGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568983 13 +   9309688 CAGTGATCCTGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401241 13 -  29834108 TAACAATCCTGAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853587 13 -   1015025 TAATGATCCTGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873247 13 -   2295209 TAATCATCCTGAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011566 12 +  31815103 CAATGCT-CCATA
i micMur3.chr21             C 0 I 1
s otoGar3.GL873576            4572539  5 -  12054995 --------CCATA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2414154 12 - 149736546 -CATGATCATTAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19728426 13 +  45876710 CAATGACCCTTAA
i canFam3.chr27             C 0 C 0
e proCoq1.NW_012140524v1      5101528 14 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I

a score=1150073.000000
s hg38.chr12_GL383549v1_alt     84084  96 +    120804 GCATAAAGTGGTGTGAAATATCCAGAATGATTTCTACTAAAAGGTTTTTACTTACCTTGCAATCAAAGAGTGTA-----------------------------------CTAGCCTTTCAGAATAGGGAGG
s panTro5.chr12              62775670  96 + 137163284 GCATAAAGTGGTGTGAAATATCCAGAATGATTTCTACTAAAAGGTTTTTACTTACCTTGCAATCAAAGAGTGTA-----------------------------------CTAGCCTTTCAGAATAGGGAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899479  96 + 135337776 GCATAAAGCGGTGTGAAATATCCAGAATGATTTCTACTAAAAGGTTTTTACTTACCTTGCAATCAAAGAGTGTA-----------------------------------CTAGCCTTTCAGAATAGGGAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114859  96 -  32808036 GCATAAAGTGGTGTGAAATATCCAGAATGATTTCTACTAAAAGGTTTTTACTTACCTTGCAATCAAAGAGTGTA-----------------------------------CTAGCCTTTCAGAATAGGGAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7304912  94 +  34552619 GCATAAAGTGGCATGAAATATCCAGAATGATTTCTACTAAAAGGTTTTTACTTACCTTGCAAT--AAGAGTGTA-----------------------------------CTAGCCTTTCAGAATAGGGAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610539  95 - 133663169 GCAT-AAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCAATCAAAGAGCGTT-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010102  95 - 137757926 GCAT-AAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCAATCAAAGAGCGTT-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388059  95 -   7948249 GCAT-AAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCAATCAAAGAGCGTT-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288600  95 -  10730278 GCAT-AAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCAACCAAAGAGCGTT-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779571  96 - 128539186 GCATAAAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCAATCAAAGAGCGTT-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174783  95 +    435186 GCAC-AAATGGTGTGAAATATCCAGAATGATTTCTACTGAAACGTTTTTACTTACCTTGCaatcaaagagcatt-----------------------------------ctagcctttcagaatttggagg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3568996  96 +   9309688 GCATAAAATGGCGTGAAATATCCAGAATGATTTCTACTGAAACATTTTTACTTACCTTGCAATCAAAGAGCACA-----------------------------------CTAGCCTTTCAGAATTTGGAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401254  96 -  29834108 GCATAAAGTGGTGTGAAATATCCAGAATTATTTCAACTAAAAGGTTTTTACTTATCTTGCaatcaaagagcata-----------------------------------ctagcctttcagaattgggagg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853600  96 -   1015025 GCATAAAGTGGTGTGAAATATCCAGAACTATTTCAACTAAAAGGTTTTTACTTATCTTGCaatcagagagcata-----------------------------------ctagcctttcagaattgaaagg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873260  96 -   2295209 GCATAAAGTGGTGTGAAATATCCAGAATTATTTCAACTAAAAGGTTTTTACTTATCTTGCAATCAAAGAGCATA-----------------------------------CTAGCCTTTCAGAATTGAGAGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011579  96 +  31815103 GCATGAAGTGGTGTGAGAGATCTGGAATGATTTCAACTAAAAGGTTTTTAGTTAGCTTGCAATCAAAGAGCACA-----------------------------------CTAGCCTTTCAGAAATGGGAGG
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5101542  96 +  13104022 GCATGAAGTGGTATGAGAGATCCAGAATGATTTCTACTAAAAGGTTTTTAGTTCACTTGCAATCAAAGAGCACG-----------------------------------CTAGCCTTTCAGAAGTGGGAGG
i proCoq1.NW_012140524v1    I 14 C 0
s otoGar3.GL873576            4572544 131 -  12054995 TCATAAAGTGGTGTGAGAGATCCGGAGTGGTTTCTACTGAAAAGTTTTTAGTTAACTTGCATTCAAATAGCATATGAGCAgcagggcacgatgactcacacctgtaatcctagcactttgggaggctgagg
i otoGar3.GL873576          C 0 I 269
s mm10.chr6                   2414166  88 - 149736546 GTATGAAGTAGTGCGAGGTGTCTAGAATAATTTCTCTCAAAATGTTTCCAGTTAACTTGCAATTTAAAAGCATT-----------------------------------CTAAAATTGGGGAA--------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19728439  62 +  45876710 GCATAAAACGATGTGAAA----------------------------------TACTTCTCAATCAGAGAGAATC-----------------------------------CTAGCCTTTTAGAATTGGAAGG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             928241 801 -   1687904 I

a score=3286105.000000
s hg38.chr12_GL383549v1_alt     84180 260 +    120804 AAACTT--AGAGATAGCATGTGTGCTTCTCACCTGGTTCATGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTGAACAACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatcct-acacagcgctctaatatataGACagggt----gactggacatcccagtttgaccagaacaacaga--ggggttttagaattaaggactttaag-gcaagaattgg
s panTro5.chr12              62775766 260 + 137163284 AACCTT--AGAGATAGCGTGTGTGCTTCTCACCTGGTTCATGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTGAACAACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTCAGTGCTTTT-AAGACAA----TGTTAGCCGC-AAAATCCTGTTTTCAAACTAAATCCT-ACACAGCGCTCTAATATATAGACagggt----gactggacatcccagtttgaccagagcaacaga--ggggttttagaattaaggactttaag-gcaagaattgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899575 260 + 135337776 AACCTT--AGAGATAGCGTGTGTGCTTCTCACCTGGTTCATGc-ccc--ttcactctccagggtgtcctggtttgaacaacaaattatttcctcaccACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatcct-acacagcgctctaatatataGACagggt----gactggacatcccagtttgaccagagcaacaga--ggggttttagaattaaggactttgag-gcaagaattgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3114955 260 -  32808036 AACCTT--AGAGATAGCGTGAGTGCTTCTCACCTGGTTCATGc-ccc--ttcactctccagggtgtcctggtttgaacaacaaattatttgctcaccACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatcct-acacagcgctctaatatataGACagggt----gactggacatcccagtttgaccagagcaacaga--ggggttctagaattaaggactttaag-gcaagaattgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305006 261 +  34552619 AACCTT--AGAGATAGCGTGTGTGCTTCTCACCTGGTTCATGc-ccc--ttcactctccagggtgtcctggtttgaacaacaaattatttgctcaccACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccacaaaaacccttttttcaaactaaatctt-acacagcgctctaatatataGACagggt----gactagacatcccagtttgaccagaacaacaga--ggagttttagaattaaggactttaag-gcaagaattgg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610634 257 - 133663169 AACCTT--AGAGATAGGGTGTATGCTTCTCACCCAGTTCACGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTG---AACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatctt-tcacagcgctctaatacataGACagggt----gactggacatcccagtttgactagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010197 257 - 137757926 AACCTT--AGAGATAGGGTGTATGCTTCTCACCTAGTTCACGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTG---AACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatctt-tcacagcgctctaatacataGACagggt----gactggacatcccagtttgactagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388154 257 -   7948249 AACCTT--AGAGATAGGGTGTATGCTTCTCACCTAGTTCAcgc-ccc--ttcactctccagggtgtcctggtttg---aacaaattatttgctcaccACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatctt-acacagcgctctaatacatagaCagggt----gactggacatcccagtttgactagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288695 257 -  10730278 AACCTT--AGAGATAGGGTGTATGCTTCTCACCTAGTTCACGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTG---AACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatctt-acacagcgctctaatacataGACagggt----gactagacatcccagtttgaccagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779667 257 - 128539186 AACCTT--AGAGATAGGGTGTATGCTTCTCACCTAGTTCACGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTG---AACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccac-aaaatccttttttcaaactaaatctt-acacagcgctctaatacataGACagggt----gactggacatcccagtttgaccagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       174878 257 +    435186 aacctt--agagatagggtgtatgcttctcacctagttcacgc-ccc--ttcactctccagGGTGTCCTGGTTTG---AACAAATTATTTGCTCACCACA-CAGA---CCATCTATCTcagtgctttt-aagacaa----tgttagccgc-aaaatccttttttcaaactaaatctt-acacagcgctctaatacataGACagggt----gactggacatcccagtttgaccagaacaacaga--ggggttttataatgaaggactttaag-gcaagaattgg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569092 260 +   9309688 AACCTT--AGAGATAGGGTGTATGCTTCTCACCTGGTTCACGC-CCC--TTCACTCTCCAGGGTGTCCTGGTTTGAACAACAAATTATTTGCTCACCACA-CAGA---CCGTCTATCTcagtgctttt-aagacaa----tgttagcagc-aaaatccttttttcaaactaaatctt-acacagcgctctaatacataGACAGGGT----GACTAGACATCCCAGTTTGACCAGAACAACAGA--GAGGTTTTATAATGAAGGACGTTAAG-GCAAGAATTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401350 259 -  29834108 aacctt--agagatAAGGTGTGTGCTTCGCATCTGGTTCATGc-tcc--ttcactctctaaggtgtcctggttttgacaacaaatcatttgctcaccgta-CAGA---TCATCCATCTCAGTGCTTTA-AAGAAAA----TGttagcagc-aaaatccttttttcaaacaaagtctt-acgcagcactctaatatataGACAGGGT----GACTGGACATCCCAGTTTGACCGGAACAACAGA--GGGGTTTCAGAATGAAGGAC-TGAAG-GCAAGAATTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853696 259 -   1015025 gacctt--agagatAAAGTGTGTGCTTCGCATCTGGTTCATGC-TCC--TTCACTCTCTAAGGTGTCCTGGTTTAGACAACAAATCATTTGCTCACCGTA-CAGA---TCATCCATCTcagtgcttta-aagacaa----tgttagcagc-aaaatccttttttcaaacaaagtctt-acacagcactctaatatataGACagggt----gactggacatcccagtttgaccagaacaacaga--ggggttttagaatgaaggac-ttaag-gcaagaattgg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873356 259 -   2295209 AACCTT--AGAGATAAGGTGTGTGCTTCTCATCTGGTTCATGc-tcc--ttcactctctaaggtgtccaggtttggacaacatatcatttgctcaccgta-CAGA---TCATCCATCTcagtgcttta-aagacaa----tgttagcagc-aaaattcttttttcaaacaaagtctt-acacagcgctctaatatataGACagggt----gactggacatcccagtttgaccagaacaacaga--ggggttttagaatgaaggac-ttaag-gcaagaattgg
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011675 257 +  31815103 AACCTTAGAGAGATAAGGTGTGAGCTTCTCGTCCAGTTCATGC-CCC--TTCACTGTCAAGATTGTCCGGGTCTGGATAACAAATCATTTGCTCGCCATA-CAGA---TCAGCTATCACTgtgttttt-aaaacaa----tgttgacagc-agaatcctcttttcaaactaaatgtt-acacagagagctgatatatacacagggt----gactgg-----ccagtttggccagaacaaagga--ggggctttagaatgaaggaatttaag-gctaaaactgg
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5101638 255 +  13104022 AACCTT--AGAGATAGGGTGTGAGCTTCTCGTCCAGTTCATGC-CCC--TTTACTGTCAAGGTCGTCCAGGTTTGGATAACAAATCGTTTGCCCACCATA-CTGA---TCATCTATCACTGTGTTTGT-AAGACAA----TGTTGGCAGC-AGAATCCTCTTTTCAAACTAAATCTT-ACTCAGCGAGCTGATATATAGACagggt----gactgg-----ccggtttgaccagaacaaagga--ggggctttagaatgaaggactttaag-gctaaaactgg
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4572944 266 -  12054995 AGGCTT--AGAGAAGTAGTGGGGGCTTCTGATCCAGTTCATGT-CCC--TTCACTGTCAAGGTGGTCCAGGTTTAGATAATAAATCATTGGCTCACCATA-CAGA---TCATCTATCAcagtgctttt-aaaacaa----tgttggcagc-agaatccttttttcaaactaaatctt-acgcagagagctgatatataGCTGATATATAGGACTGGCCATCCCAGTTTGACCAGAACAATGGATGGGGGCTTGAAAATAAAGAACTTTAAG-GATAAAACTGG
i otoGar3.GL873576          I 269 C 0
s mm10.chr6                   2414254 257 - 149736546 ATCCTT--AGATATGGGG---ATGCTAGCCAGAGAGTCTGTGAGCCT--TTCTCGATCCAGGGTGTCTAGGTTTAAATAACAAATCTTCTGTCCACTGGG-CAGAAGCCCTTCTTTCACAGTAATTTTCAAAAGAG----TTTTAGCAAT-CAAATCCTGTTTTCAGACTA--TCTT-ATATAGCATCCTGCTATAT-GAAAAGGA----GACCAG-CATCCCAATTCTATCAAAATGAT-GA--AGGTTCTCAAAATGAAAGGTTGGAGa-gcctgatgtgg
i mm10.chr6                 C 0 I 1610
s canFam3.chr27              19728501 263 +  45876710 AATCTT--CAAGATAGGGT--TTGCTTCTTGTCCTATGCATgc-cccctttcactttcaaggatgtccagatttggataataaattatttgctcaccataTTTGA---ACATCCGT--CAGTAATTTG-AAAAaaactattttcagtagc-aggatccttttaaaaaactaaatcttaacatagagttctgatatataaacagggc----aaccagccat-ccagtttgaccaggacatttga--tgggttt-aggatgaagaatgttcagtgctaaaactgg
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             928241 801 -   1687904 I

a score=2962059.000000
s hg38.chr12_GL383549v1_alt     84440 254 +    120804 gacagtccctggt-aaaacaggtaggtcagtcacccAGTTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--aaaaaata-aggccgttttaataaccac------aa-aaaagaatgatattgagaatgagggtagcattcttatataagcctcagcatccagctag-ttttttaactcattttggtttcatagtactggggaaa
s panTro5.chr12              62776026 254 + 137163284 gacagtccctggt-aaaacaggtaggtcagtcacccagttacagactacacaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--aaaaaata-aggccgttttaataaccac------aa-aaaagaatgatattgagaatgagggtagcattcttatataagcctcagcatccagctag-ttttttaactcattttggtttcatagtactggggaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60899835 255 + 135337776 gacagtccctggt-aaaacaggcaggtcagtcacccAGTTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--aaaaaata-aggccgttttaataaccac-----aaa-aaaagaatgatattgagaatgagggtagcattcttatataagcctcagcatccagctag-ttttttaactcattctggtttcatagtactggggaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115215 255 -  32808036 gacagtccctggt-aaaacaggtaggtcagtcacccAGTTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--acaaaata-aggccgttttaaaaaccac-----aaa-aaaagaatgatattgagaatgagggtagcattcttatataagcctcagcatccagctag-ttttttaactcattttggtttcatagtactggggaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305267 254 +  34552619 gacagtccctggt-aaaacgggtaggtcagtcacccAGTTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--aaaaaata-aggccgttttaataaccac-----aaa-aaaagaatgatattgagaatgacggtagcattcttatataagcctcagcatccagctag-ttttttaactcattttggtttcatagtact-gggaaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104610891 252 - 133663169 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgttagtgcaattata--ttttgtaaatacgaattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac----aaaa-caaagaataatattgagagtgatggtagcattcttatataagcctcagtatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010454 252 - 137757926 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgttagtgcaattata--ttttgtaaatacgaattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac----aaaa-aaaagaataatattgagagtgatggtagcattcttatataagcctcagtatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388411 252 -   7948249 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgttagtgcaattata--ttttgtaaatacgaattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac----aaaa-aaaagaataatattgagagtgatggtagcattcttatataagcctcagtagccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8288952 252 -  10730278 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacgaattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac----aaaa-aaaagaataatattgagagtgatggtagcattcttatataagcctcagtatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100779924 253 - 128539186 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacgaattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac---aaaaa-aaaagaataatattgagagtgatggtagcattcttatataagcctcagtatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175135 250 +    435186 gacagtcactggt-aaaacagataggtcagtcacccAGCTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatac-aattcataatactcatttattattaac----tcaatg--aaaaaata-aggccgttttaataaccac-----aaa-aaaagaataatattgagagtgatggtagcattcttatataagcctcagtatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569352 257 +   9309688 GACAGTCACTGGT-AAAACAGATAGGTCAGTCACCCAGCTACAGACTACACaaaagctctgttttgtcagtgtaattata--ttttgtaaatacaaattcataatactcatttattattaactcaatcaatg--aaaaaata-aggctgttttaataacccc---ccaaa-aaaagaataatattgagagtgatggtagcattcttatataagtctcaatatccagctaa-ttttttaattcattttggtttcataatactgaggaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401609 253 -  29834108 GATAGTCACTGAT-AAAACACTTAGGTCTGTCAcccaattacagactacataaaagctctgttttgtcagtgtgactgta--tttagtaaatacaaattcataatattcattaattattaacacaatcaatg--aaaaaat--gggttattttcataaccac-----c-a-taaagaataacattgagagtgatggtagcattctcatatgagcctcagtatccagctaa-tttttaaattcattttggttttgtagtactgaggaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       853955 255 -   1015025 gatagtcactggt-aaaacatgtaggtctgtcacccaattacagactacataaaagctctgttttgtcagtgtgcttgta--tttcataaatacaaattcataatattcatttattgttaacacaatcaatg--aaaaaata-aggctattttcataaccac-----caa-aaaagcataatattgagagtgatggtagcattcttatatgaacctcagcatccagctaa-tttttaaattcattttggttttgtagtgctgaggaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873615 255 -   2295209 gatagtcactggt-aaaacacgtaggtctgtcacccaattacagactacagaaaagctctgttttgtcagtgtgattgta--tttagtaaaaacaaattcataatattcatttattattaacacaatcaatg--aaaaaata-aggctgttttaataaccac-----caa-aaaagaataacattgagaatgatggcagcattcttatatgagcctcagcatccagctaa-cttttaaattcgttttggttttgtagtactgaggata
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3011932 258 +  31815103 gacagtccctgga-aaaccaggtcagctggtcaccctattagaaaccacacagaagctctgttttggcagtatagatgta--ttttagaaatataaattcataaaactcatg---tattaagtcaatcaattaaaaaaaata-aggccattttaacaaccac---aaaaagaaaataataatattgaaagtgacagttgcatttttatacgagtctcagaatccagcttatttttttgattcattttggattcatagaactgaggaaa
i micMur3.chr21             C 0 I 2
s proCoq1.NW_012140524v1      5101893 248 +  13104022 gacagtccccggc-aaaccaggtcagctgatcaccctaTTACAAACCACAC---AGCTCTGttttgctaatgtagaagta--ttttataaatacaaattcataatact-------tattaagtcaatcaatt--aaaaaata-aggccatctcaataaccac---acaaa-aaaagaataatattgggagtgacagttgcattcttatatgagtctcagaatccagcttatttttttgattcattttggattcacagaactgaggaaa
i proCoq1.NW_012140524v1    C 0 I 2
s otoGar3.GL873576            4573210 259 -  12054995 GACAGTCCCCAGCAAAACCAGGTTGGTCGGTCGccccattacaaactacacagaagctcttttttgctagtgtagatgta--ttttataaatacaaattcatattactcatttactattaagccaatcaatg--aaaaaata-aggtcatttcaataaccac---agaaagaaaagaataacattgagaatgatagctacattcttatgggaacctcagaatccaactca-cttttggattcattttagattcataatattgagaaag
i otoGar3.GL873576          C 0 I 108
s canFam3.chr27              19728764 256 +  45876710 gacagacccaggc-aaaggaggatag-aggtcaccctgttataaaata-acaaaggctctgttttgccagtgtaaatatgttttttataaatacaaattcatgatatttatttattattaagccaattgatg--agagaacatagatcatttcaagaagcacaaaaaaag-aaaaaaatcatactga----gatagttgcactcttacatgagcctcagaatttggttta-tttctgtatttgtttt-gtttcataatattgagggaa
i canFam3.chr27             C 0 I 2
e mm10.chr6                   2414511 1610 - 149736546 I
e dasNov3.JH562883             928241 801 -   1687904 I

a score=1070484.000000
s hg38.chr12_GL383549v1_alt     84694 108 +    120804 t--tgattcacatg---aag-ta--gtcatgaatgatagcttgttgctgata---ttttagcagtcccctttataagctcagaattctttctaattagaccaaccaagaggcttataag
s panTro5.chr12              62776280 108 + 137163284 t--tgattcacatg---aag-ta--gtcgtgaatgatagcttgttgctgata---ttttagcagtcccctttataagctcagaattctttctaattagaccaaccaagaggcttataag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900090 108 + 135337776 t--tgattcacatg---aag-ta--gtcgtgaatgatagcttgttgctgata---ttttagcagtcccctttataagctcagaattctttctaattagaccaaccaagaggcttataag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115470 108 -  32808036 t--tgattcacatg---aag-ta--gtcgtgaatgatagcttgttgctgata---ttttagcagtcccctttataagctcagaattctttctaattagaccaaccaagaggcttataag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305521 108 +  34552619 t--tgattcacatg---aag-ta--gtcgtgaatgatagcttgttgctgata---ttttagcagtcccctttataagctcagaattctttctaattaaaccaaccaagaggcttataag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611143  89 - 133663169 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttaaaagctcagaat------------------CCAAGAGGCTTATAA-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010706  89 - 137757926 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttaaaagctcagaat------------------CCAAGAGGCTTATAA-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388663  89 -   7948249 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttaaaagctcagaat------------------CCAAGAGGCTTATAA-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289204  89 -  10730278 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttataagctcagaat------------------CCAAGAGGCTTATAA-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780177  89 - 128539186 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttataagctcagaat------------------CCAAGAGGCTTATAA-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175385  89 +    435186 t--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttataagctcagaat------------------CCAAGAGGCTTATAA-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569609  89 +   9309688 c--tgattcacatg---aag-ta--gtcgtgagtgatagtttgttgctgata---ttttagcagttccctttataagctcagaat------------------CCAAGAGGCTTATAA-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11401862 112 -  29834108 ttctgattcacatgaaaaag-ta--ctcgtgaatgttagtttgttgctgata----tttagcagtccccttcataagctcagaattctttctaattagactagccaagaggcttataag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854210 112 -   1015025 ttctgattcacatgaagaag-ta--ctcatgaatgttagcttgttgctgaca----tttagcagtcccctttataagctcagaattctttctaattagactagccaagaggcttataag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873870 112 -   2295209 ttctgattcacatgaagaag-ta--ctcgtgaatgttagcttgttgctgata----tttagcagtcccctttataagctcagaattctttctaattagactagccaagaggcttataag
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3012192 112 +  31815103 --ctgattcacatgaataagtta--gttatgaatgatagtttgctgctacta---ttttaacagtctcccttataagcttaggattcttcctaattagaccggcccagaggcttgtaac
i micMur3.chr21             I 2 C 0
s proCoq1.NW_012140524v1      5102143 111 +  13104022 --ctgattcacatgaataag-ta--gttgtgaatgatagtttgctgctatta---ttttaacagtctcccttataagctcaggattctttctaattagactggcccagaggcttgtaag
i proCoq1.NW_012140524v1    I 2 C 0
s otoGar3.GL873576            4573577 113 -  12054995 --ctggttcacatgagtaaa-tagcgttgtgaatgatagtttgttgctatta---tctcaacactccccctcccaagctcaagattctttctaattagactggcccagtggcttgtaag
i otoGar3.GL873576          I 108 C 0
s canFam3.chr27              19729022 114 +  45876710 --ctggtttacatgagtaag-ta--gttgtggatgatactttgttgttgttgctcttataacagtcctccctagaagctcaggattctttctcattagattgatccagagggttataag
i canFam3.chr27             I 2 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e dasNov3.JH562883             928241 801 -   1687904 I

a score=70614.000000
s hg38.chr12_GL383549v1_alt     84802 9 +    120804 aggaaaagc
s panTro5.chr12              62776388 9 + 137163284 aagaaaagc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900198 9 + 135337776 aagaAAAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115578 9 -  32808036 aagaaaagc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305629 9 +  34552619 aagaaaagc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611232 7 - 133663169 --GAACACC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010795 7 - 137757926 --GAACACC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388752 7 -   7948249 --GAACACC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289293 7 -  10730278 --GAACACC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780266 7 - 128539186 --GAACACC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175474 7 +    435186 --GAACACC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569698 7 +   9309688 --GAACACC
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       854322 9 -   1015025 aagaaaagc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1873982 9 -   2295209 aagaaaagc
i aotNan1.NW_018488218v1    C 0 I 8
s micMur3.chr21               3012304 9 +  31815103 aagaaaagc
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5102254 9 +  13104022 aagaaaagc
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4573690 9 -  12054995 aagaaaagt
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729136 9 +  45876710 aagaaaagc
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e dasNov3.JH562883             928241 801 -   1687904 I
e saiBol1.JH378123           11401974 0 -  29834108 C

a score=12376.000000
s hg38.chr12_GL383549v1_alt     84811 1 +    120804 a
s panTro5.chr12              62776397 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900207 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115587 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305638 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611239 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010802 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388759 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289300 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780273 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175481 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569705 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       854331 1 -   1015025 a
i cebCap1.NW_016107911v1    C 0 C 0
s micMur3.chr21               3012313 1 +  31815103 a
i micMur3.chr21             C 0 I 868
s proCoq1.NW_012140524v1      5102263 1 +  13104022 a
i proCoq1.NW_012140524v1    C 0 I 685
s otoGar3.GL873576            4573699 1 -  12054995 a
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729145 1 +  45876710 a
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e saiBol1.JH378123           11401974 0 -  29834108 C

a score=8666.000000
s hg38.chr12_GL383549v1_alt     84812 1 +    120804 g
s panTro5.chr12              62776398 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900208 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115588 1 -  32808036 g
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305639 1 +  34552619 g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611240 1 - 133663169 g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010803 1 - 137757926 g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388760 1 -   7948249 g
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289301 1 -  10730278 g
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780274 1 - 128539186 g
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175482 1 +    435186 g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569706 1 +   9309688 g
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       854332 1 -   1015025 g
i cebCap1.NW_016107911v1    C 0 I 7
s otoGar3.GL873576            4573700 1 -  12054995 a
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729146 1 +  45876710 g
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e saiBol1.JH378123           11401974 0 -  29834108 C

a score=11713.000000
s hg38.chr12_GL383549v1_alt     84813 4 +    120804 gctg
s panTro5.chr12              62776399 4 + 137163284 gctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900209 4 + 135337776 gctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115589 4 -  32808036 gctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305640 4 +  34552619 gctg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611241 4 - 133663169 gccg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010804 4 - 137757926 gccg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388761 4 -   7948249 gccg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289302 4 -  10730278 gccg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780275 4 - 128539186 gccg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175483 4 +    435186 gcca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3569707 4 +   9309688 gcca
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4573701 4 -  12054995 aatg
i otoGar3.GL873576          C 0 I 395
s canFam3.chr27              19729147 3 +  45876710 aat-
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e saiBol1.JH378123           11401974 0 -  29834108 C

a score=854166.000000
s hg38.chr12_GL383549v1_alt     84817 155 +    120804 ggcacggtggctcacgcctgtaatctcagcactttgggaggccaaggcaggcgaatcacgaggtcaggagattgagaccatcctggccaacatggtaaaatccc-gtctctactaaaaatacaaaaattagccaggcgtggtggcgtgtgcctgta
s panTro5.chr12              62776403 155 + 137163284 ggcacggtggctcacgcctgtaatctcagcactttgggaggccaaggtgggcgaatcacgaggtcaggagattgagaccatcctggccaacatggtaaaatccc-gtctctactaaaaatacaaaaattagcctggcgtggtggtgtgtgcctgta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900213 155 + 135337776 ggcacggtggctcacgcctgtaatctcagcactttgggaggccaaggtgggcgaatcacgaggtcaggagattgagaccatcctggtcaacatggtaaaatccc-gtctctactaaaaatacaaaaattagccaggcgtggtggtgtgtgcctgta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115593 155 -  32808036 ggcacggtggctcacgcctgtaatctcagcactttgggaggccaaggcaggcaaatcacgaggtcaggagattgagaccatcctggccaacatggtaaaatccc-gtctctactaaaaatacaaaaattagccaggcgtggtggcgtgtgcctgta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305644 155 +  34552619 ggcacggtggctcacgcctgtaatctcagcacttcgggaggccaaggcgggcgaatcacgaggtcaggagactgagaccatcctggccaacatggtaaaatccc-gtctctgccaaaaatacaaaaattagccaggcgtggtggcatgtgcctgta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611245 156 - 133663169 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcgcgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaataaaaaaattagccaggcgtggtggcgtgtacctgta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109010808 156 - 137757926 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcacgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaataaaaaaattagccaggcgtggtggcgtgtacctgta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388765 156 -   7948249 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcacgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaataaaaaaattagccaggtgtggtggcgtgtacctgta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289306 154 -  10730278 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcacgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaat--aaaaattagccaggcatggtggcatgtacctgta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780279 156 - 128539186 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcacgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaataaaaaagttagccaggcgtggtggcgtgtacctgta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       175487 156 +    435186 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcggacaaatcacgtggtcaggggatttagaccatcctggccaatatggtaaaacccctgtctctactaaaaataaaaaaattagccaggcgtggtggcgtgtacctgta
i manLeu1.NW_012101287v1    C 0 M 2192
s colAng1.NW_012114364v1      3569711 156 +   9309688 ggcacggtggctcacgcctgtaatctcagcactttgggaggctgaggcgggcaaatcacatggtcaggggatttagaccatcctggccaacatggtaaaacccctgtctctactaaaaatacaaaaattagccaggcgtggtggcgtgtacctgta
i colAng1.NW_012114364v1    C 0 C 0
s canFam3.chr27              19729150  79 +  45876710 -----------------ctgttcttttttttttttttaatgt---------cagatcactaa--caGgggat--------ccctgg-----------------------------------------gtggctcagcggtttggcgcctgcctttg
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4573705 395 -  12054995 I
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991   8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333   7 -   1015025 I
e saiBol1.JH378123           11401974   0 -  29834108 C

a score=495825.000000
s hg38.chr12_GL383549v1_alt     84972 109 +    120804 gtcccagctactcaggaggctgaggcaggagaatcgcttgaagc-gggaggcagaggttgcagtgagccgagatcatgccactg-----------cactccagcctggtgacagagtgaga
s panTro5.chr12              62776558 110 + 137163284 gtcccagctactcaggaggctgaggcaggagaatcgcttgaagctgggaggcagaggttgcagtgagccgagatcatgccactg-----------cactccagcctggtgacagagtgaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900368 110 + 135337776 gtcccagctactcaggaggctgaggcaggagaatcgcttgaagctgggaggcagaggttgcagtaagccgagatcatgccactg-----------cactccagcctggtgacagagtgaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115748 110 -  32808036 gtcccagctactcaggaggctgaggcaggagaatcgcttgaagctgggaggcagaggttgcagtgagccgagatcatgccactg-----------cactccagcctggtgacagagtgaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305799 110 +  34552619 gtcccagctactcaggaggctgaggcaggagaatcgcttgaagctgggaggcagaggttgcagtgagccgagatcatgccactg-----------cactccggcctggtgacagagtgaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611401 110 - 133663169 atcccagctactcaggaggctgaggcaggataatcgtttgaacctggaaggtggaggttacagtgagccaagatcacgccactg-----------tactctagcctggtgacagagtgaga
i rheMac8.chr11             C 0 I 351
s macFas5.chr11             109010964 110 - 137757926 atcccagctactcaggaggctgaggcaggataatcgtttgaacctggaaggtggaggttacagtgagccaagatcacgccactg-----------tactctagcctggtgacagagtgaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1388921 110 -   7948249 atcccagctactcaggaggctgaggcaggataatcgttggaacctggaaggtggaggttacagtgagccaagatcacgccactg-----------tactctagcctggtgacagagtgaga
i macNem1.NW_012011422v1    C 0 I 333
s cerAty1.NW_011999477v1      8289460 110 -  10730278 atcccagctactcaggaggctgaggcaggataatcgtttgaacctggaaggtggaggttgcagtgagccaagatcacgccactg-----------tactctagcctggtgacagagtgaga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780435 110 - 128539186 atcccagctactcaggaggctgaggcaggataatcatttgaacctggaaggtggaggttgcagtgagccaagatcacgccactg-----------tactctagcctggtgacagagtgaga
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3569867 110 +   9309688 atcccagctactcaggaggctgaggcaggataatctcttgaacctggaaggtgaaggttgcagtgagccgagatcacaccactg-----------cactctagcctggtgacagagtgaga
i colAng1.NW_012114364v1    C 0 C 0
s canFam3.chr27              19729229  95 +  45876710 ---------gcccagggtgcgg-----------tcctggggtcctggga--tcgagtcc----tgagtcgggctcctggcatggagcctgcttctctctctgcctttgtctctgcctctct
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4573705 395 -  12054995 I
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991   8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333   7 -   1015025 I
e saiBol1.JH378123           11401974   0 -  29834108 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=3600.000000
s hg38.chr12_GL383549v1_alt     85081 1 +    120804 c
s panTro5.chr12              62776668 1 + 137163284 c
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900478 1 + 135337776 c
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115858 1 -  32808036 c
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305909 1 +  34552619 c
i nomLeu3.chr23             C 0 C 0
s cerAty1.NW_011999477v1      8289570 1 -  10730278 c
i cerAty1.NW_011999477v1    C 0 I 354
s chlSab2.chr11             100780545 1 - 128539186 c
i chlSab2.chr11             C 0 I 284
s colAng1.NW_012114364v1      3569977 1 +   9309688 c
i colAng1.NW_012114364v1    C 0 M 341
s canFam3.chr27              19729324 1 +  45876710 c
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4573705 395 -  12054995 I
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e saiBol1.JH378123           11401974 0 -  29834108 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e macFas5.chr11             109011074 0 - 137757926 C
e rheMac8.chr11             104611511 351 - 133663169 I

a score=1365.000000
s hg38.chr12_GL383549v1_alt     85082 1 +    120804 t
s panTro5.chr12              62776669 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900479 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115859 1 -  32808036 t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305910 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s canFam3.chr27              19729325 1 +  45876710 t
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4573705 395 -  12054995 I
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e saiBol1.JH378123           11401974 0 -  29834108 C
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e macFas5.chr11             109011074 0 - 137757926 C
e rheMac8.chr11             104611511 351 - 133663169 I

a score=4103.000000
s hg38.chr12_GL383549v1_alt     85083 16 +    120804 --------------ccatctc-------aaaaaaaaa-
s panTro5.chr12              62776670  7 + 137163284 --------------ccatctc-----------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900480 16 + 135337776 --------------ccatctc-------aaaaaaaaa-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115860 16 -  32808036 --------------ccatctt-------aaaaaaaaa-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305911 16 +  34552619 --------------ccatctc-------aaaaaaaaa-
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109011074  9 - 137757926 ----------------------------aaaataaaa-
i macFas5.chr11             C 0 I 306
s otoGar3.GL873576            4574100 16 -  12054995 --------------CCATTCA-------ATAAAAAAA-
i otoGar3.GL873576          I 395 C 0
s canFam3.chr27              19729326 38 +  45876710 ctctctctctctctccgtctatcatgaataaataaaac
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991  8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333  7 -   1015025 I
e saiBol1.JH378123           11401974  0 -  29834108 C
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I

a score=9201.000000
s hg38.chr12_GL383549v1_alt     85099 6 +    120804 -aaaaaa
s panTro5.chr12              62776677 6 + 137163284 -aaaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900496 6 + 135337776 -aaaaaa
i panPan2.chr12             C 0 I 22
s gorGor5.CYUI01000003v1      3115876 6 -  32808036 -aaaaaa
i gorGor5.CYUI01000003v1    C 0 I 3
s nomLeu3.chr23               7305927 6 +  34552619 -aaaaaa
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109011389 6 - 137757926 -aaaaag
i macFas5.chr11             I 306 C 0
s otoGar3.GL873576            4574116 6 -  12054995 -AAAAAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729364 6 +  45876710 taaata-
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e saiBol1.JH378123           11401974 0 -  29834108 C
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I

a score=755.000000
s hg38.chr12_GL383549v1_alt     85105 1 +    120804 a
s panTro5.chr12              62776683 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115885 1 -  32808036 a
i gorGor5.CYUI01000003v1    I 3 C 0
s macFas5.chr11             109011395 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s otoGar3.GL873576            4574122 1 -  12054995 G
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729370 1 +  45876710 a
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991 8 -   2295209 I
e nomLeu3.chr23               7305933 0 +  34552619 C
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e saiBol1.JH378123           11401974 0 -  29834108 C
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I
e panPan2.chr12              60900502 22 + 135337776 I

a score=9161.000000
s hg38.chr12_GL383549v1_alt     85106 13 +    120804 aaaaaaagcaggc
s panTro5.chr12              62776684 13 + 137163284 aaaaaaagcaggc
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115886 13 -  32808036 aaaaaaagcaggc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305933  7 +  34552619 ------agcaggc
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109011396 13 - 137757926 aagaaagaCGGGC
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11401974 13 -  29834108 aagaaaagcagac
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4574123  7 -  12054995 -GGAAAAA-----
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729371 12 +  45876710 -ataaaaaTAAAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1873991  8 -   2295209 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333  7 -   1015025 I
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I
e panPan2.chr12              60900502 22 + 135337776 I

a score=1911.000000
s hg38.chr12_GL383549v1_alt     85119 1 +    120804 t
s panTro5.chr12              62776697 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115899 1 -  32808036 t
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305940 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109011409 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11401987 1 -  29834108 t
i saiBol1.JH378123          C 0 I 4
s aotNan1.NW_018488218v1      1873999 1 -   2295209 t
i aotNan1.NW_018488218v1    I 8 C 0
e otoGar3.GL873576            4574130 0 -  12054995 C
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e canFam3.chr27              19729383 0 +  45876710 C
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I
e cebCap1.NW_016107911v1       854333 7 -   1015025 I
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I
e panPan2.chr12              60900502 22 + 135337776 I

a score=9936.000000
s hg38.chr12_GL383549v1_alt     85120 8 +    120804 -gttttcac
s panTro5.chr12              62776698 8 + 137163284 -gttttcat
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115900 8 -  32808036 -gttttcac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305941 8 +  34552619 -gttttcat
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109011410 7 - 137757926 -GTTTTCT-
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11401992 8 -  29834108 -gttttcat
i saiBol1.JH378123          I 4 C 0
s cebCap1.NW_016107911v1       854340 8 -   1015025 -gttttcat
i cebCap1.NW_016107911v1    I 7 C 0
s aotNan1.NW_018488218v1      1874000 8 -   2295209 -gttttcac
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19729383 3 +  45876710 AAT------
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4574130 0 -  12054995 C
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e chlSab2.chr11             100780546 284 - 128539186 I
e cerAty1.NW_011999477v1      8289571 354 -  10730278 I
e macNem1.NW_012011422v1      1389031 333 -   7948249 I
e rheMac8.chr11             104611511 351 - 133663169 I
e panPan2.chr12              60900502 22 + 135337776 I

a score=138900.000000
s hg38.chr12_GL383549v1_alt     85128 22 +    120804 gtcaaatcactaaccatatcta
s panTro5.chr12              62776706 22 + 137163284 gtcaaatcactaaccatatcta
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115908 22 -  32808036 gtcaaatcactaaccatatcta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305949 22 +  34552619 gtcaaatcattaatcatatcta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611862 22 - 133663169 gtcaaatcactaatcatatcta
i rheMac8.chr11             I 351 C 0
s macFas5.chr11             109011417 22 - 137757926 gtcaaatcactaatcatatcta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389364 22 -   7948249 gtcaaatcactaatcatatcta
i macNem1.NW_012011422v1    I 333 C 0
s cerAty1.NW_011999477v1      8289925 22 -  10730278 gtcaaatcactaaccatatcta
i cerAty1.NW_011999477v1    I 354 C 0
s chlSab2.chr11             100780830 22 - 128539186 gtcaaatcgctaatcatatcta
i chlSab2.chr11             I 284 C 0
s saiBol1.JH378123           11402000 22 -  29834108 gttaaatcactaagtatatcta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854348 22 -   1015025 gttaaatcactaactatatcta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874008 22 -   2295209 gttaaatcactaactatatcta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4574130  7 -  12054995 ---------------AAATCTA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729386 22 +  45876710 GTCAGATCACTAACAATATCTA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I
e colAng1.NW_012114364v1      3569978 341 +   9309688 M
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e panPan2.chr12              60900502 22 + 135337776 I

a score=468571.000000
s hg38.chr12_GL383549v1_alt     85150 75 +    120804 acatattctttatgacaaatgcaaaagtcatataagaagc-atcaaaatttatgaagggca----------taaaaactctctatt
s panTro5.chr12              62776728 75 + 137163284 acatattctttatgacaaatgcaaaagtcatataagaagc-atcaaaatttatgaagggca----------taaaaactctctatt
i panTro5.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3115930 75 -  32808036 acatattctttatgacaaatgcaaaagtcatataagaagc-atcaaaatttatgaagggca----------taaaaactctctatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7305971 69 +  34552619 acatattctttatgacaaatgcaaaagtcatataagaaga-atcaaaatttatgaagggca----------taaaaactt------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611884 71 - 133663169 acatattctttatgacaaatgc-aaagtcagataagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011439 71 - 137757926 acatattctttatgacaaatgc-aaagtcagataagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389386 71 -   7948249 acatattctttatgacaaatgc-aaagtcagataagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8289947 71 -  10730278 acatattctttatgacaaatgc-aaaatcagataagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780852 71 - 128539186 acatattctttatgacaaatgc-aaagtcagataagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570329 72 +   9309688 Acatattctttatgacaaatgcaaaagtcagacaagaagc-accaaaatttatgaagggcat---------taaaaactatt----
i colAng1.NW_012114364v1    M 341 C 0
s saiBol1.JH378123           11402022 75 -  29834108 acatattatttatgacaaacacaaaagtcagataagaagc-atcaaaatttatgaagggca----------taaaaattctctatt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854370 75 -   1015025 atatattatttataacaaatgcagaagtcagataagaagc-atcaaaatttatgaagggca----------taaaaattctctatt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874030 75 -   2295209 acatattatttatgacaaatgcaaaagtcagataagaagc-atcaaaatttatgaagggcg----------taaacattctctatt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4574137 84 -  12054995 ACACAATCTTTATGACAAATGCAAAAGTCAGATCAGAGGCAACCAAAATTTATGAAGGATATGAAAGGGTATAAAAACTCTGTT--
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729408 68 +  45876710 ACACAT--TTTATGGCAAACACAACAGTCAGATTAG-----AATAAAGTGTATGAAGATCA----------TAAAC-CTCTCTATT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M
e panPan2.chr12              60900502 22 + 135337776 I

a score=454314.000000
s hg38.chr12_GL383549v1_alt     85225 52 +    120804 atatgacatacatatgtgtatgtgg--------tatgtgacatgctagtggcccactttt
s panTro5.chr12              62776803 52 + 137163284 atatgacatacatatgtgtatgtgg--------tatgtgacatgctagtggcccactttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900524 52 + 135337776 ATATGACATACATATGTGTATGTGG--------TATGTGACATGCTAGTGGCCCACTTTT
i panPan2.chr12             I 22 C 0
s gorGor5.CYUI01000003v1      3116005 52 -  32808036 atatgacatacatatgtgtatgtgg--------tatgtgacatgctagtggcccactttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306040 52 +  34552619 atatgacatacctatgtgtatgtgg--------tatgtgacatgctagtggcccactttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104611955 52 - 133663169 atatgacatacatatgtatatgtgg--------tatgtgacatgctagtggcccaccttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011510 52 - 137757926 atatgacatacatatgtatatgtgg--------tatgtgacatgctagtggcccaccttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389457 52 -   7948249 atatgacatacatatgtatatgtgg--------tatgtgacatgctagtggcccaccttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290018 52 -  10730278 atatgacatacatatgtatatgtgg--------tatgtgacatgctagtggcccaccttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780923 52 - 128539186 atatgacatacataggtatatgtgg--------tatgtgacatgctagtggcccaccttt
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570401 52 +   9309688 atatgacatacatatgtatatgtgg--------tatgtgacatgctagtggcccactttg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402097 52 -  29834108 acatgacatacatatgtgtatgtag--------tatgcgacatgctagtggcccactttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854445 52 -   1015025 acatggcatacatatgtgtatgtga--------tatgcgacatgctagtggcccactttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874105 52 -   2295209 acatgacatacatatgtgcgtgtgg--------tatgcgacatgctagtggcccactttt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4574221 59 -  12054995 ATACCACATATATACATATACGTATGTATAGACCATGTGACGGGCCAGTGGCTCAC-TTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729476 48 +  45876710 --ACAACATATGTAT-TGTAT-TGT--------GATGTGACATGTCAGAGCTCCACTTCC
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             928241 801 -   1687904 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=683572.000000
s hg38.chr12_GL383549v1_alt     85277  86 +    120804 tattgctcaactctcccaacatcagatattaaagcacctgagcctgtc------tggctttcttgccgtttaattaaggc------------------------------------------tctcacatctgt
s panTro5.chr12              62776855  86 + 137163284 tattgctcaactctcccaacatcagatattaaagcacctgagcctgtc------tggctttcttgccgtttaattaagcc------------------------------------------tctcatatctgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900576  86 + 135337776 TATTGCTCAACTCTCCCAGCATCAGATATTAAAgcacctgagcctgtc------tggctttcttgccgtttaattaagcc------------------------------------------tctcacatctgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116057  86 -  32808036 tattgctcaactctcccaacatcagatattaaagcacctgagcctgtc------tggctttctttctgtttaattaaggc------------------------------------------tctcacatctgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306092  86 +  34552619 tattgctcacctctcccaacatcagatattaaagcacctgagcctgtc------tggctttcttgccatttaattaaggc------------------------------------------tctcacatctgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612007 128 - 133663169 tattgctcaactCTCCCAACATCAGATATTCAAATGCTTGAGCCTGTC------TGGCTTTCTTGCCATTTAATTAAGGcatggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011562 128 - 137757926 tattgctcaactCTCCCAACATCAGATATTCAAATGCTTGAGCCTGTC------TGGCTTTCTTGCCATTTAATTAAGGcatggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389509 128 -   7948249 tattgctcaactCTCCCAACATCAGATATTCAAATGCTTGAGCCTGTC------TGGCTTTCTTGCCATTTAATTAAGGcatggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290070 128 -  10730278 tattgctcaactCTCCCAACATCAGATATTCAAATGCTTGAGCCTGTC------TGGCTTTCTTGCCATTTAATTAAGGcatggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100780975 128 - 128539186 tattgctcaactCTCCCAACATCAGATATTCAAATGCCTGAGCCTGTC------TGGCTTTCTTGCCATTTGATTAAGGcatggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570453 128 +   9309688 tattgctcaactCTCCCAACATCTGATATTCAAATGCCTGAGTCTGTC------TGGCTTTCTTGCCATTTAATTAAGGcacggtagtttgctgcacaaatcatcccatcacctaggtattgtagcacatctgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402149  86 -  29834108 tattgctcaagtctccaaacatcagctattaaagctcttgagcctgcc------tggctttcttgccctttaattgaggc------------------------------------------tctggcatctgt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854497  86 -   1015025 tattgctcaactctccaaacatcagatattaaagctcctgagcctgcc------tggctttcttgccctttaattgaggc------------------------------------------tctggcatctgt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874157  86 -   2295209 tattgctcaactctccaaacatcaaatattaaaactcctgagcctgcc------tggctttcttgccctttaattgaggc------------------------------------------tctggcatctgt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4574280  91 -  12054995 TACTGCTCAACTATCCCAATATCAGACATTGACATGGGTGGGCGTGGCTGGGCGTGGCTGGCTCACC-TCTAGGTGAGAC------------------------------------------TCTGGTATGTTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729524  86 +  45876710 TATGTCCCAACCACCCCAGTATCAGACACTGAAATGCCTGGACCTGGC------TGGCTTTCTTGTCACTTCATTGAGAT------------------------------------------TCTGGTATGTGT
i canFam3.chr27             C 0 I 11
s dasNov3.JH562883             929042  80 -   1687904 tgttgcaccact-tgccagtgttgcacGTTGAAGGGCTTGGGCCTGGC-----------CTCTGGTTATTTAATCGAGGC------------------------------------------TCTGGCAGGTGC
i dasNov3.JH562883          I 801 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=1764670.000000
s hg38.chr12_GL383549v1_alt     85363 213 +    120804 t-----------------------ctacaatagtgtagtgtcctgtacaattctgcactggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaAATGTGGCAGAAGAAACTTTGTCCC-ATG---TCTATACAAAGCAAAGTTAAACAGGTAGCACAAATTGAAAAGTT---GTCAGTG---TGTTGCATGTTGACATGTAGCATATC----
s panTro5.chr12              62776941 213 + 137163284 t-----------------------ctacaacagtgtagtgtcctgtacaattctgcactggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaaatgtggcagaagaaactttgtccc-atg---tctatacaaagcaaagttaaacaggtagcacaaattgaaaagtt---gTGAGTG---TGTTGCATGTTGACATGTAGCATATC----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900662 213 + 135337776 t-----------------------ctacaacagcgtagtgtcctgtacaattctgcactggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaaatgtggcagaagaaactttgtccc-atg---tctatacaaagcaaagttaaacaggtagcacaaattgaaaagtt---gTCAGTG---TGTTGCATGTTGACATGTAGCATATC----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116143 213 -  32808036 t-----------------------ctacaatagtgtagtgtcctgtacaattctgcactggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattagtacatttgcaagaaaatgtggcagaagaaactttgtccc-atg---tctatacaaagcaaagttaaacaggtagcacaaattgaaaagtt---gTCAGTG---TGTTGCATGTTGACATGTAGCATATC----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306178 213 +  34552619 t-----------------------ctacaatagtgtagtgtcctgtacaattctgcactggggatac----atgtgtaggcctgaattgtaagaaacagcagcactcttaatcaatattaatatatttgcaagaaAATGTGGCAGAAGAAACTTTGTCCC-ATG---TCTATACAAAGCAAAGTTAAACAGGTAGCACAAATTGAAAAGTT---GTCAGTG---TGTTGCATGTTGACATGTAGCGTATC----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612135 188 - 133663169 g-----------------------ctacagtagtgtagtgtcctgtataattctgtgctggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaAATGTGGCAGAAGAAAC-----------------------------AGTTAAACAGGTAGCACAAATTGAAAAGTT---GTCAGTG---TATTGTATGTTGACATGTAGCATATC----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011690 213 - 137757926 g-----------------------ctacagtagtgtagtgtcctgtataattctgtgctggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaaatgtggcagaagaaactttgtctc-atg---tctatacaaagcaaagttaaacaggtagcacaaattgaaaagtt---gtcagtg---tattgtatgttgacatgtagcatatc----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389637 213 -   7948249 g-----------------------ctacagtagtgtagtgtcctgtataattctgtgctggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaAATGtggcagaagaaactttgtctc-atg---tctatacaaagcaaagttaaacaggtagcacaaattgaaaagtt---gtcagtg---tattgtatgttgacatgtagcatatc----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290198 213 -  10730278 g-----------------------ctacagtagtgtagtgtcctgtataattctgcgctggggatac----atgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaAATGTGGCAGAAGAAACTTTGTCTC-ATG---TCTATGCAAAGCAAAGTTAAACAGGTAGCACAAATTGAAAAGTT---GTCAGTG---TATTGTATGTTGACATGTAGCATATC----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781103 217 - 128539186 g-----------------------ctacagtagtgtagtgttctgtataattctgcgctgggggtactgaattgtgtaggcctgaattgtaagaaacaccagcactcttaatcaatattaatacatttgcaagaaaatgtggcagaagaaactttgtctc-atg---tctatacaaagcaaagttaaacaggaagcacaaattgaaaagtt---gtcagtg---tgttgtatgttgacatgtagcatatc----
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570581 213 +   9309688 g-----------------------ctacagtagtgtagtgtcctgtataattctgcgctggggatac----atgtgtaggcctgaattgtaagaaaccccagcactcttaatcaatattaatacatttgcaagaaAATGTGGCAGAAGAAACTTTGTCTC-ATG---TCTGTACGAAGCAAAGGTAAACAGGTAGCACAAATTGAAAAGTC---GTCAGTG---TGCTGTATGTTGACATGTAGCATATC----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402235 231 -  29834108 gctaaaatagcgtagtgtcctgtactacaatagcgtagtgtcctgtacaattctgcactggggctac----atgtataggcctgaattgtaagaaacaccagcactctcaatcaatattcatacatttgcaagaaaacgtggtaggagaaaccttgcc-c-atg---tctatacaaagcaaagttaaa----taacacaaatttaaaagtt---gtcaatg---tgttgtatgttgacatgtaacatatc----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854583 208 -   1015025 g-----------------------ctacaatagtgtagtgttctgtacaattctgcatgggggatat----atgtataggcctgaattgtaagaaacaccagcactcttaatcaatatgcatacatttgcaagaaaatgtggtaagagaaactttgtc-c-atg---cctatacaaagcaaagttaaa----taacacaaatttaaaagtt---gtcaatg---tgttgtatgttgacatgtaacatatc----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874243 208 -   2295209 g-----------------------ctacaatagtgtagtgtcctgtacaattctgcactggggatac----acgtataggcctgaattgtaagaaacaccagcactcttaatcaatattcatacatttgcaagaaAATGTGGTAGGAGAAACTTTGTC-C-ATG---TCTATACAAAGCAAAGTTAAA----TAACACAAATTTAAAAGTT---GTCAATG---TGTTGTATGTTGACATGTAACATAGT----
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4574371 207 -  12054995 G-----------------------CCATAATACCATAGTATTCTGTATACTTCTGCTT-------------TCTTAAAAGCCTAGATTGTAAGAAACACCAGTGATCTTAATCGATGTTAATATATTCACA--AAGATGTGACAGGAGAAACTTTGTCCC-AAGGTCTCTACAGAAAG-AATGTTAAACAGGTAGCATAAATTAAAAGGTT---GTTGATGGTACACTGTGTGGTGACACATAACATATT----
i otoGar3.GL873576          C 0 I 4
s dasNov3.JH562883             929122 218 -   1687904 -----------------------ACTCTTGTAATGCACGATTTTGAGCAATTTTGCACAGGAGATGC----TCATGCAGGTCTGGAGGTCAAGAAACACCAGCACTCTTCATCAGTGTCAGGACATTCCCAAG---ATTtgtcaggagaagcttcgtcccaatg---tctacttagaaatacgctaaacaggtagcatgaattaaaaggctggggtcagca---tgttacatgttggtatgtaacatacatttg
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3012314 868 +  31815103 I
e canFam3.chr27              19729610  11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=380998.000000
s hg38.chr12_GL383549v1_alt     85576 37 +    120804 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
s panTro5.chr12              62777154 37 + 137163284 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900875 37 + 135337776 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116356 37 -  32808036 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306391 37 +  34552619 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612323 37 - 133663169 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011903 37 - 137757926 tttgcttgttatttttaataatc---aacacactttaaaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389850 37 -   7948249 tttgcttgttatttttaataatc---aacacactttaaaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290411 37 -  10730278 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781320 37 - 128539186 tttgcttgttatttttaataatc---aacacactttaaaa
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570794 37 +   9309688 TTTGCTTGTTATTTTTAATAATC---AACACACTTTAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402466 37 -  29834108 tttgcttgatatttttaataatc---aacacactttaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854791 37 -   1015025 tttgcttgctatttttaataatc---aacacactttaaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874451 37 -   2295209 TTTGCTTGTTATTTTTAATAATC---AACATACTTTAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013182 40 +  31815103 tttgcgtgtcatttttAATAATCCAAAACACGCTTTCAAG
i micMur3.chr21             I 868 C 0
s otoGar3.GL873576            4574582 38 -  12054995 GTTGTGTGTTATTTTTCATAATC--AAAAATGCTTTAAAA
i otoGar3.GL873576          I 4 I 440
s dasNov3.JH562883             929340 39 -   1687904 tttgcatgttctatttaataatcaaaaatatatttaaaa-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=646314.000000
s hg38.chr12_GL383549v1_alt     85613 62 +    120804 TGATATTCCAATTATGTCTTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
s panTro5.chr12              62777191 62 + 137163284 TGATATTCCAATTATGTCTTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900912 62 + 135337776 TGATATTCCAATTATGTCTTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACAATAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116393 62 -  32808036 TGATATTCCAATTATGTCTTTGCAAAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306428 62 +  34552619 TGATATTCCAATTATGTCTTTGCAGAACTGGGTTTCAGAAAGTGCGAAAGTAGTGACGATAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612360 62 - 133663169 TGATATTCCAATTTTGTATTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109011940 62 - 137757926 tgatattCCAATTTTGTATTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389887 62 -   7948249 tgatattCCAATTTTGTATTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290448 62 -  10730278 TGATATTCCAATTTTGTATTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGCGACGATAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781357 62 - 128539186 tgatattCCAATTTTGTATTTGCGAAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570831 62 +   9309688 TGATATTCCCATTTTGTATTTGCAGAACTGGGTTTCAGAAAGTGCAAAAGTAGTGACGATAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402503 62 -  29834108 tgatattccaattatatctttgcagaacTGGGTTTCAGAAAGTGCAAAAGTAGTGATGATAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854828 62 -   1015025 tgatattCCAATTATATCTTTGCAGAACTGGGTTTTAGAAAGTGCAAAAGTAGTGATGATAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874488 62 -   2295209 TGATATTCCAATTATATCTTTGCAGAACTGGATTTCAGAAAGTGCAAAAGTAGTGATGATAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013222 62 +  31815103 TAATATCCAAATCATGTACTTGCAGAACTGGGTTCCAGAAAGTGCAAATGTAACAACGATAG
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4575060 62 -  12054995 TAATATTTAAATTATTTACTTGCAGAACTGGGTTCCAGAAAATACAAAAGTAACAATGATAT
i otoGar3.GL873576          I 440 C 0
s dasNov3.JH562883             929379 62 -   1687904 tGAGATTCAAATTATATATTTATAGAACTATGTTCTAGAGCACACAAAAGTAACGATGACAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=20070.000000
s hg38.chr12_GL383549v1_alt     85675 2 +    120804 GG
s panTro5.chr12              62777253 2 + 137163284 GG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900974 2 + 135337776 GG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116455 2 -  32808036 AG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306490 2 +  34552619 GG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612422 2 - 133663169 GG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012002 2 - 137757926 GG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389949 2 -   7948249 GG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290510 2 -  10730278 GG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781419 2 - 128539186 GA
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570893 2 +   9309688 GG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402565 2 -  29834108 GG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854890 2 -   1015025 GG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1874550 2 -   2295209 GG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013284 2 +  31815103 GG
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4575122 2 -  12054995 GG
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441 0 -   1687904 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=7003.000000
s hg38.chr12_GL383549v1_alt     85677 4 +    120804 AACA
s panTro5.chr12              62777255 4 + 137163284 AACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900976 4 + 135337776 AACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116457 4 -  32808036 AACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306492 4 +  34552619 AACA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612424 3 - 133663169 AA-A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012004 3 - 137757926 AA-A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389951 3 -   7948249 AA-A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290512 3 -  10730278 AA-A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781421 3 - 128539186 AA-A
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570895 3 +   9309688 AA-A
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1874552 4 -   2295209 AACA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013286 4 +  31815103 aaca
i micMur3.chr21             C 0 I 103
s otoGar3.GL873576            4575124 4 -  12054995 AACA
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441 0 -   1687904 C
e cebCap1.NW_016107911v1       854892 0 -   1015025 C
e saiBol1.JH378123           11402567 0 -  29834108 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=-8534.000000
s hg38.chr12_GL383549v1_alt     85681  9 +    120804 --------------Cttctc-ttt------------------------------
s panTro5.chr12              62777259 10 + 137163284 --------------Cttctctttt------------------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900980  9 + 135337776 --------------Cttctc-ttt------------------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116461  8 -  32808036 --------------Cttctc--tt------------------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306496  8 +  34552619 --------------Cttctc--tt------------------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612427  6 - 133663169 --------------Attctc----------------------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012007  6 - 137757926 --------------Attctc----------------------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389954  6 -   7948249 --------------Attctc----------------------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290515  6 -  10730278 --------------Attctc----------------------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781424  9 - 128539186 --------------ATTCTC-Ctt------------------------------
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570898  8 +   9309688 --------------Gttctc--tt------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1874556  9 -   2295209 --------------CTTCTC-TTT------------------------------
i aotNan1.NW_018488218v1    C 0 I 16
s otoGar3.GL873576            4575128 53 -  12054995 TTTTTTTATATAAAATTTAC-TTTATCCCAAGCTCTACAtttgtttgtttgttt
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441  0 -   1687904 C
e cebCap1.NW_016107911v1       854892  0 -   1015025 C
e saiBol1.JH378123           11402567  0 -  29834108 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=1419668.000000
s hg38.chr12_GL383549v1_alt     85690 289 +    120804 tttttcttgagacggagtctcgctctgtcgcccgggctggagagcagtggcgcgatctcagctcactgcaagctccgcctcctgggttcaggccattctcctgcctcagcctcccgagtagctgggactacaggcaagtgccaccatgcctggctaattttttgtatttttagta---------------gagatggggtttcactgtgttagccaggatggtctccatctcctgacctcgtgatctgcccgccttggtctcccaaagtgctgggattacaggagtgagccaccgcgcctggcc
s panTro5.chr12              62777269 289 + 137163284 ttttttttgagacggagtctcgctctgtcgcccaggctggagagcagtggcgcgatctcagctcactgcaagctccgcctcctgggttcaggccattctcctgcctcagcctcccgagtagctgggactacaggcaagtgccaccatgcccagctaattttttgtatttttagtg---------------gagatggggtttcactgtgttagccaggatggtctccatctcctgacctcgtgatctgcccgccttggtctcccaaagtgctgggattacaggagtgagccacggcgcctggcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60900989 289 + 135337776 tttttttgtagacggagtcttgctctgtcgcccaggctggagagcagtggcgcgatctcagctcactgcaagctccgcctcctgggttcaggccattctcctgcctcagcctcccgagtagctgggactacaggcaagtgccaccatgcctggctaattttttgtatttttagta---------------gagatggggtttcactgtgttagccaggatggtctccatctcctgacctcgtgatctgcctgccttggtctcccaaagtgctgggcttacaggagtgagccaccgcacctggcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116469 303 -  32808036 ttttttttgagacggagtctcgctctgtcgcccaggctggagagcagtggcgcgatctcagctcactgcaagctccgcctcctgggttcacgccattctcttgcctcagcct-ccgagtagctgggactacaggcaagtgccaccatgcccggctaattttttgtatttttagtagagatggggtttcacgagatggggtttcactgtgttagccaggatggtctccatctcctgacctcgtgatctgcccgccttggtctcccaaagtgctgggattacaggagtaagccaccgcgcctggcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306504 289 +  34552619 ttttttttgagacggagtctcgctctgtcgcccaggccagagtgcagtggcgtgatctcagctcacttcaagctctgcctcctgggttcacgccattctcctgcctcagcctaccgagtagctgggactacaggcgagtgccaccacgcccggttaattttttgtatttttagta---------------gagatggggtttcactgtgttagccaggatggtctccatctcctgacctcgtgatctgcccgccttggcttcccaaagtgctgggattacaggcgtgagccaccgtacccggcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612433 289 - 133663169 ttttttttgagatggagtctcactctgttgcacaggctggagtgcagtggtgcgatcttggctcactgcaagctccgcctccctgggtcacgccattctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccacgcccggctaattttttgtattttcagta---------------gagatggggtttcaccatgttagccaggatggtcttgatctcctgacctcgtggtccacccacctcggcctcccaaagttctgggattacaggcgtgagccaccacacccCacc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012013 289 - 137757926 ttttttttgagatggagtctcactctgttgcacaggctggagtgcagtggtgcgatcttggctcactgcaagctccgcctccctgggtcacgccattctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccacgcccggctaattttttgtattttcagta---------------gagatggggtttcaccatgttagccaggatggtcttgatctcctgacctcgtggtccacccacctcggcctcccaaagttctgggattacaggcgtgagccaccacaccccgcc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1389960 289 -   7948249 ttttttttgagacggagtctcactctgttgcacaggctggagtgcagtggtgcaatcttggctcactgcaagctccgcctccctgggtcacgccattctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccacgcccggctaattttttgtattttcagta---------------gagacggggtttcaccatgttagccaggatggtcttgatctcctgacctcgtggtccacccacctcggcctcccaaagttctgggattacaggcgtgagccaccacacccggcc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290521 289 -  10730278 ttttttttgagacggagtctcactctgttgcacaggctggagtgcagtggtgcgatcttggctcactgcaagctccgcctccctgggtcacgccattctcctgcctcagcctcccgagtagctgggactacaggcacccgccaccacgcccggctaattttttgtattttcagta---------------gagatggggtttcaccatgttagccaggatggtcttgatctcctgacctcgtgatccacccacctcagcctcccaaagttctgggattacaggcatgagccaccacaccccgcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781433 289 - 128539186 ttttttttgagacggagtctcgctctgtcgcccaggctggagtgcaatggtgtgatctcggctcactgcaagctccgcctcccagagtcacgccattctcctgcctcagcctcctaagtagctgggactacaggtgcccgccaccacgcccagctaattttttgtatttttagta---------------gagacggggtttcaccgtgttagccaggatggtcttgatctcctgacctcgtgatccacccacctcggcctcccaaagttctgggattacaggcgtgagccaccgcgcccggcT
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3570906 289 +   9309688 ttttttttgagacggagtcttgctctgttgcccaggctggagtgcagtggtgtgatcttggctcactgcaagctccgcctcccagggtcacaccattctcctgcctcagcctcctgagtagctgggactacaggcgcccgccaccacgcccggctaattttttgtatttttagta---------------gagacggggtttcaccgtgttagccaggatggttttgatctcctgacctcgtgatccacctgcctcggcctcccaaagctctgggattacaggcttgagccaccgcacctggcc
i colAng1.NW_012114364v1    C 0 C 0
s otoGar3.GL873576            4575181 261 -  12054995 gtttgtttgagacagagtctcactgtgttaccctgggtagagggccgtggtgtcatcatagctcacagcaacctcaaactcttgggctcaagcaattctcttgcctcagcttcccaagtacctgggattacagatgcctgccacagcg----------------------gagta---------------cagacaagtcttactcttgct---caagctgctctcgaactcctgagct-gaggtcatcc--cctcggcctccccaagtgttaggattataggcgtgagccaccacacctggcc
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610  11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1874565  16 -   2295209 I
e dasNov3.JH562883             929441   0 -   1687904 C
e cebCap1.NW_016107911v1       854892   0 -   1015025 C
e saiBol1.JH378123           11402567   0 -  29834108 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=30049.000000
s hg38.chr12_GL383549v1_alt     85979 5 +    120804 AACAC
s panTro5.chr12              62777558 5 + 137163284 AACAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901278 5 + 135337776 AACAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116772 5 -  32808036 AACAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306793 5 +  34552619 AACAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612722 5 - 133663169 aacac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012302 5 - 137757926 AACAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390249 5 -   7948249 AACAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290810 5 -  10730278 AACAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781722 5 - 128539186 AACAC
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3571195 5 +   9309688 AACAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402567 5 -  29834108 AATGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       854892 5 -   1015025 AACGC
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4575442 5 -  12054995 TCCAc
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1874565 16 -   2295209 I
e dasNov3.JH562883             929441 0 -   1687904 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=120277.000000
s hg38.chr12_GL383549v1_alt     85984 21 +    120804 TTCTCttttttatta-tttttt
s panTro5.chr12              62777563 21 + 137163284 TTCTCttttttatta-tttttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901283 20 + 135337776 ttctcttttttatta--ttttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116777 21 -  32808036 TTCTCttttttatta-tttttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306798 20 +  34552619 TTATC-tttttatta-tttttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612727 21 - 133663169 ttctcttttttatta-tttttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012307 21 - 137757926 TTCTCttttttatta-tttttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390254 21 -   7948249 TTCTCttttttatta-tttttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290815 21 -  10730278 TTCTCttttttatta-tttttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781727 21 - 128539186 TTCTCttttttatta-tttttt
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3571200 22 +   9309688 TTCTCTTTTTTATTATTTtttt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402572 20 -  29834108 TTCTCTTTGTTAtt--tttttt
i saiBol1.JH378123          C 0 I 4
s cebCap1.NW_016107911v1       854897 21 -   1015025 TTCTCTTTGTTATTA-tttttt
i cebCap1.NW_016107911v1    C 0 I 4
e otoGar3.GL873576            4575447  0 -  12054995 C
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e aotNan1.NW_018488218v1      1874565 16 -   2295209 I
e dasNov3.JH562883             929441  0 -   1687904 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=3348744.000000
s hg38.chr12_GL383549v1_alt     86005 484 +    120804 attttaagttcagaggtacatgtggaggatgtgccagtttgttacatagttaaatgtgtgccatggtggtttgcagcacaaatcatcccatcacctaggtattaagcccagcatccattagctattctttttgatgctctccctcctccccaaagtccaccctctgacaggccccagtgggtgt--tttccccaccatgtgtccatgtgttctcatcattcagctttcacttataaatgagaacatgcaacatctggttttctattcctgcgttagtttgctgaggatagtggccttagcttcatccatgtccctgcaaaggacatgatctcgttcctttttatgcctgcatggtattccacagtgtataagtaccacattttctttatccagtctaccattgatgggcatttaggttgactccatgtctttgctattgtgaataatgctgcaatgaacatacacatgcata-atgaataagtttcg
s panTro5.chr12              62777584 484 + 137163284 attttaagttcagaggtacatgtggaggatgtgccagtttgttacataggtaaatgtgtgccatggtggtttgcagcacaaatcatcccatcacctagatattaagcccagcatccattagctattctttttgatgctctccctcctccccaaagtccaccctctgacaggccccagtgggtgt--tttccccaccatgtgtccatgtgttctcatcattcagctttcacttataaatgagaccatgcgacatctggttttctattcctgcgttagtttgctgaggatagtggcctcagcttcatccatgtccctgcaaaggacacgatctcgttcctttttatgcctgcatggtattccacagtgtataagtaccacattttctttatccagtctaccattgatgggcatttaggttgactccatgtctttgctgttgtgaataatgctgcaatgaacatacacatgcata-atgaataagcttca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901303 484 + 135337776 attttaagttcagaggtacatgtggaggatgtgccggtttgttacataggcaaatgtgtgccatggtggtttgcagcacaaatcatcccatcacctaggtattaagcccagcatccattagctattctttttgatgctctccctcctccccaaagtccaccctctgacaggccccagtgggtgt--tttccccaccatgtgtccatgtgttctcatcattcagctttcacttataaatgagaccatgcgacatctggttttctattcctgcgttagtttgctgagggtagtggcctcagcttcatccatgtccctgcaaaggacacaatctcgttcctttttatgcctgcatggtattccacagcgtataagtaccacattttctttatccagtctactattgatgggcatttaggttgactccatgtctttgctattgtgaataatgctgcaatgaacatacacatgcata-atgaataagctttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3116798 484 -  32808036 attttaagttcagaggtacatgtggaggatgtgccggtttgttacataggtaaatgtgtgccatggtggtctgcagcacaaatcatcccatcacctaggtattaagcccagcatccattagctattctttttgatgctctccctcctccccaaagtccaccctctgacaggccccagtgggtgt--tttccccaccatgtgtccatgtgttctcatcattcagctttcacttataaatgagaacatgcgacatctggttttctattcctgcgttagtttgctgaggatagtggcctcagcttcatcaatgtccctgcaaaggacatgatctcgttcctttttatgcctgcatggtattccacggtgtataagtaccacattttctttatccagtctaccattgatgggcatttcggttgactccatgtctttgctattgtgaataatgctgcaatgaacatacacatgcata-atgaataagcttcg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7306818 486 +  34552619 attttaagttcagaggtacatgtggaggatgtgccagtttgttacataggtaaatgtgtgccatggtggtttgcagcacaaatcatcccatcacctaggtattaagcccagcatcctttagctattctttctgatgctctccctcctccccaaagtccaccctctgacaggccccagtgggtgttattcccctaccatgtgtccatgcgttctcatcattcagctctcacttataaatgcgaacatgtgacatctggttttctattcctatgttagtttgctgaggatagtggcctcagcttcatccatgtccctgcaaaggacatgatcttgttcctttttatgcctgcatggtattccacagtgtagaagtaccacattttctttatccagtctaccattgatgggcatttaggttgactccatgtctttgctattgtgaataatgctgcagtgaacatacacatgcgta-atgaataagcttca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104612748 475 - 133663169 attttaagttca----------tggaggatgtgccagtttgttacataggt-aatgtgtgccatggtggtttgctgcacaaatcatcccatcacctaggtgtgaagcccagtatccattagctattctttctgatgctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccctaccatgtgtccatgtgttctcatcattcagctctcacttacaaatgagaacatgtgatatctggttttctattcctgcattagtttgctgaggatagtggcctcatcttcatccatgtccctgccaaggacatgatctctttcctttttatgcctgcatggtattccacagtgtataagtgccatgtttcctttatccagtctaccattgatgggcatttaggttgattccatgtctttgctattgtgaatagtgctgtaacgaacctacatatgcata-acgaataagcttta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012328 475 - 137757926 attttaagttca----------tggaggatgtgccagtttgttacataggt-aatgtgtgccatggtggtttgctgcacaaatcatcccatcacctaggtgtgaagcccagtatccattagctattctttctgatgctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccctaccatgtgtccatgtgttctcatcattcagctctcacttacaaatgagaacatgtgatatctggttttctattcctgcattagtttgctgaggatagtggcctcatcttcatccatgtccctgccaaggacatgatctctttcctttttatgcctgcatggtattccacagtgtataagtgccatgtttcctttatccagtctaccattgatgggcatttaggttgattccatgtctttgctattgtgaatagtgctgtaacgaacctacacatgcata-acgaataagcttta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390275 475 -   7948249 attttaagttca----------tggaggatgtgccagtttgttacataggt-aatgtgtgccatggtggtttgctgcacaaatcatcccatcacctaggtgtgaagcccagtatccattagctattctttctgatgctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccctaccatgtgtccatgtgttctcatcattcagctctcacttacaaatgagaacatgtgatatctggttttctattcctgcattagtttgctgaggatagtggcctcatcttcatccatgtccctgccaaggacatgatctctttcctttttatgcctgcatggtattccacagtgtataagtgccatgtttcctttatccagtctaccattgatgggcatttaggttgattccatgtctttgctattgtgaatagtgctgtaacgaacctacacatgcata-acgaataagcttta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8290836 475 -  10730278 attttaagttca----------tgaaggatgtgccagtttgttacataggt-aatgtgtgccatggtggtttgctgcacaaatcatcccatcacctaggtatgaagcccagtatccattagctattctttctgatgctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccccaccacgtgtccatgtgttctcatcattcagctctcacttacaaatgagaacatgtgatatctggttttctattcctgcattagtttgctgaggatagtggcctcatcttcatccatgtccctgccaaggacatgatctctttcctttttatccctgcatggtattccacagtgtataagtaccatgtttcctttatccagtctaccattgatgggcatttagattgattccatgtctttgctattgtgactagtgctgtaacgaacctacacatgcata-acgaataagcttta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100781748 485 - 128539186 attttaagttcaggggtacatgtggaggatgtgccggtttgttacataggt-aatgtgtgccacggtggtttgctgctcaaatcatcccatcacctaggtatgaagcccagtgtccattagctattctttctgaagctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccccaccatatgttcatgtgttctcatcattcagctctcacttacaaatgagaacatgcgatatctgattttctattcctgcattagtttgctgaggatagtggcctcatcttcacccatgtccctgccaaggacatgatctcttttctttttatgcctgcatggtattccacagtgtataagtaccatgtttcctttatccagtctaccactgatgggcatttaggttgattccatgtctttgctattgtgactagtgctgtaacgaacctacacatgcata-atgaataagcttta
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3571222 485 +   9309688 attttaagttcaggggtacatgtggaggatgtgccagtttgttacataggt-aatgcgtgccatggtggtttgctgcacaaatcatctcatcacctaggtatgaagcgcagtatccattagctagtctttctgatgctctccctactccccacagtccaccctctgacaggccccagtgggtgttgtccccccaccatgtgtccgtgtgttctcatcattcagctctcacttacaaatgagaacatgcgatatctggttttctattcctgcattagtttgctgaggatagtggcctcatcttcatccatgtccctgccaaggacatgatctctttcctttttatgcctgcatggtgttccacagtgtataagtaccatgtttcctttatccagtctaccgatgatgggcatttaggttgattccatgtctttgctattgtgaatagtgctgtaacgaacatacacatgcata-atgaatacgcttta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11402596 464 -  29834108 attttaagttcaggggtacatgtgcaggatgtgccggtttgttaaataggtaaatgtgtgccatggtgattttctgcacagaccatcccatcacc-------------cagcatccattagctatcttttttgatgctctccctcctgcccccaccccaccctctgaaaggcctcagagggtgttgttcccccaccatgtgtccatgtgttctcatcatcgaggtctcgcttacaaatgagaacatgtggtattcagttatctattcctgcat--gtttgctgaggatagtggcctcagctccatccatgtccctacaaaggacatgatctcattccttttgatggagacatagtattccatggtgtatatgcacgatattttctttatccagtctaccattgatgggcatttaggttgattccatgtctttgctattgcgaataatgctgcagtgaac--acacatgcatgtatatatac------
i saiBol1.JH378123          I 4 C 0
s cebCap1.NW_016107911v1       854922 464 -   1015025 attctaagttcaggggtacacgtgcaggatgtgccggtttgttaaataggtaaatgtgtgccatggtgattttctgcacagaccatcccatcacc-------------cagcatccattagctatcctttttgatgctctccctcctgctcctaccccaccctctgacaggcctcagagggtgttgttaccccaccatgtgtccatgtgttctcatcattgagctctcacttataaatgagaacatgtggtatctggttttctattcctgtgt--gtttgctgaggatagtggcctcagctccatccatgtccttgcaaaggacatgatctcgtttctttttatggaggcatagtattccacagtgtatatgcatgatattttctttatccagtctaccattgatgggcatttaggttgattccatgtctttgctattgtgaataatgctgcagtgaac--acacatgcatgtatatataa------
i cebCap1.NW_016107911v1    I 4 C 0
s aotNan1.NW_018488218v1      1874581 451 -   2295209 attttaagttcaggggtgcatgtgcaggatgtgccggtttgttaaataggtaaatgtgtgccatggtaattttctgcacagaccatcccatcacc-------------cagcatccattagctatcc-ttttgatgctcttcctcctgcccccaccccac-----------cctcagagggtgttgttcccccaccatgtgtccatgtgttctcatcattgagctctcacttataaatgagaacatgtggtatttggttttctattcctgcat--gtttgctgaggatagtgg-ctcagctccatccatgtccctgcaaaggacatgatctcgttcctttttgtgggggcatagtattccacagtgtatatgcatgatattttcttcatccagtctaccattcatgggcatttaggttgattccatgtctttgctattgtgaataatgctgcagtgaac--acacatgcatgtatatatac------
i aotNan1.NW_018488218v1    I 16 C 0
e otoGar3.GL873576            4575447   0 -  12054995 C
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610  11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441   0 -   1687904 C
e manLeu1.NW_012101287v1       175643 2192 +    435186 M

a score=1214873.000000
s hg38.chr12_GL383549v1_alt     86489 139 +    120804 taaaataataatttatattcctttgggcacatacctagtaatgggattgctgggtcaaatggtatttctgcctccgggtctttgaggaattgccacattgtcttccacagtggttgaactaattcacactcccaccaac
s panTro5.chr12              62778068 139 + 137163284 taaaataataatttatattcctttgggtacatacctagtaatgggattgctgggtcaaatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacagtggttgaactaattcacactcccaccaac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901787 139 + 135337776 taaaataataatttatattcctttgggtacatacctagtaatgggattgctgggtcaaatggtatttctgcctccaagtctttgaggaattgccacattgtcttccacagtggttgaactaattcacactcccaccaac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117282 139 -  32808036 taaaataataatttatattcctttaggtacacacctagtaatgggattgctgggtcaaatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacagtggttgaactaattcacactcccaccaac
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307304 139 +  34552619 taaaagaataatttatactcctttgggtacatacctagtaatgggattgctgggtcaaatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacagtggttgaactaattcacactcccaccaac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613223 137 - 133663169 t--aagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttacactaattcacactcccaccaac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012803 137 - 137757926 t--aagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttacactaattcacactcccaccaac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390750 137 -   7948249 t--aagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttacactaattcacactcccaccaac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291311 139 -  10730278 taaaagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttgaactaattcacactcccaccaac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782233 139 - 128539186 taaaagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttacactaattcacactcccaccaac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       177840 139 +    435186 taaaagaataatttctattcctttgggtacatacccagtaatgggattgctgggtcacatggtatttctgcctccaggtctttgaggaattgccacattgtcttccacaatggttgaactaattcacactcccaccaac
i manLeu1.NW_012101287v1    M 2192 C 0
s colAng1.NW_012114364v1      3571707 139 +   9309688 taaaagaataatttatattcctttgggtacatacccagtaatgggattgctgggtcaaatggtatttctgcctcgaggtctttgaggaattgccacattgtcttccacaatggttgaactaattcacactcccaacaac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403060 138 -  29834108 -aatagaataatttacattcctttaggtacatacccactagtgggatttctggatcaaacggtatttctgcctccaggtctttgaggaattgccacactgtcttccacaatggttgaactaatttacactcccataaac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855386 138 -   1015025 -aatagaataatttacattcctttgggtacctacccactaatgggatttctgggtcaaatggtatttctgcttccaggtctttgaggaattaccacactgtcttccacaatggttgaactaatttacactcccataaac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875032 138 -   2295209 -aatagaataatttacattcctttgggtacatacccactaatgggatttctgggtcaaatggtatttctgcctccaggtctttgaggaattgccacactgtcttccacaatggttgaactaatttacactcccataaac
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4575447   0 -  12054995 C
e mm10.chr6                   2414511 1610 - 149736546 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610  11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441   0 -   1687904 C

a score=10920.000000
s hg38.chr12_GL383549v1_alt     86628 1 +    120804 a
s panTro5.chr12              62778207 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901926 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117421 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307443 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613360 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012940 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390887 1 -   7948249 a
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291450 1 -  10730278 a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782372 1 - 128539186 a
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       177979 1 +    435186 a
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3571846 1 +   9309688 a
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403198 1 -  29834108 a
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855524 1 -   1015025 a
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875170 1 -   2295209 a
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2416121 1 - 149736546 A
i mm10.chr6                 I 1610 C 0
e otoGar3.GL873576            4575447 0 -  12054995 C
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I
e dasNov3.JH562883             929441 0 -   1687904 C

a score=272387.000000
s hg38.chr12_GL383549v1_alt     86629 36 +    120804 gGAACGCTTCtttgtgtag-----catttattggatgtcag
s panTro5.chr12              62778208 17 + 137163284 gGAACGCTT------------------------GATGTCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901927 36 + 135337776 gGAACGCTTCtttatgtag-----catttattggatgtcag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117422 36 -  32808036 gGAACGCTTCtttatgtag-----catttattggatgtcag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307444 36 +  34552619 gGAACACTTCtttatgtag-----catttattggatgtcag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613361 36 - 133663169 ggaacgcttctttgtgtag-----catttattggatgtcag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012941 36 - 137757926 ggaacgcttctttgtgtag-----catttattggatgtcag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390888 36 -   7948249 ggaacgcttctttgtgtag-----catttattggatgtcag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291451 36 -  10730278 ggaacgcttctttgtgtag-----catttattggatgtcag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782373 36 - 128539186 ggaacgcttctttgtgtag-----catttattggatgtcag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       177980 36 +    435186 gGAACACTTCtttgtgtag-----catttattggatgtcag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3571847 36 +   9309688 ggaacgcttctttgtgtag-----catttattggatgtcag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403199 36 -  29834108 gGAGATCTTCTTTATGTCG-----CATTTATTGCACGTCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855525 36 -   1015025 gGAAATCTTCTTTATGTAG-----TCTTTATTGCACATCCG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875171 36 -   2295209 gGAAATCTTCtttatgtag-----catttattgcatgtcag
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2416122 34 - 149736546 GAGATACTTCTTAATGAAGTTTGTCATTTACTAG-------
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             929441 31 -   1687904 GGAACACTT-----TATAG-----AGTTTTCCCTGTGCCAG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4575447  0 -  12054995 C
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I

a score=716684.000000
s hg38.chr12_GL383549v1_alt     86665 75 +    120804 gctctaaatattaactcatttagtcctcacaacaatctatgagataggttt-taaatctattcaatcaaaactgca
s panTro5.chr12              62778225 75 + 137163284 gctctaaatattaactcatttagtcctcacaacaatctatgagataggctt-tgaatctattcaatcaaaactgca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60901963 75 + 135337776 gctctaaatattaactcatttagtcctcacaacaatctatgagataggctt-taaatccattcaatcaaaactgca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117458 75 -  32808036 gctctaaatattaactcatttagtcctcacaacaatctatgagataggctt-taaatctattcaatcaaaactgca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307480 75 +  34552619 gctctaaatattaactcatttagtcctcacaacaatctatgagataggctt-taaacctattcaaccaaaactgca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613397 75 - 133663169 gccctaaatattaactcatttagtcctcacaacaatctatgagataggctt-taaacctatttaaccaaaactgca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109012977 75 - 137757926 gccctaaatattaactcatttagtcctcacaacaatctatgagataggctt-taaacctatttaaccaaaactgca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390924 74 -   7948249 gccctaaatattaactcatttagtcctcacaacaatctatga-ataggctt-taaacctatttaaccaaaactgca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291487 75 -  10730278 gccctaaatattaactcattgagtcctcacaacaatctatgcgataggctt-taaacctatttaaccaaaactgca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782409 75 - 128539186 gccctaaatattaactcatttagtcctcataacaatctatgagataggctt-taaacctatttaaccaaaactgca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178016 75 +    435186 gccctaaatattaactcatttagtcctcacaacaatctatgcgataggctt-taaacctatttaaccaaaactgca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3571883 75 +   9309688 accctaaatattaactcatttagtccccacaataatgtatgagataggctt-taaacctatttaaccaaaactgca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403235 74 -  29834108 CCTCTAAatatgaactcatttagtcctcaaaataatctataagataggctt-taagcccttttgacc-aaactgca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855561 75 -   1015025 gctgtaaatattaactcatttagtcctcacaacaatctataagatagactt-taagcccttttgaccaaaactgca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875207 75 -   2295209 gctctaaatattaactcatttagtcctcacagcaatctataagataggctt-taagcccttttgaccaaaactgcc
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4575447 72 -  12054995 gctctaaatattaactcacttcatcttcacaacaccc---aagataggctt-tttgcttgtttgatcaaaactgag
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2416156 60 - 149736546 GCTCTACAGATGAACACACT-AATACTCACAGCCACTTGTG---------------CCTGTTTCCCTGTaactgag
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             929472 76 -   1687904 GCTCTAAATACTAGCTCCTCGAACCCTCTCGGCAACCTGTGAGACTGGCTTCTCTCCCCACGTTACTAAAGTGAAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I

a score=8046.000000
s hg38.chr12_GL383549v1_alt     86740 1 +    120804 g
s panTro5.chr12              62778300 1 + 137163284 g
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902038 1 + 135337776 g
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117533 1 -  32808036 c
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307555 1 +  34552619 g
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613472 1 - 133663169 g
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013052 1 - 137757926 g
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390998 1 -   7948249 g
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291562 1 -  10730278 g
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782484 1 - 128539186 g
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178091 1 +    435186 g
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3571958 1 +   9309688 g
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403309 1 -  29834108 g
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855636 1 -   1015025 g
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875282 1 -   2295209 g
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2416216 1 - 149736546 a
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             929548 1 -   1687904 G
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4575519 1 -  12054995 I
e micMur3.chr21               3013290 103 +  31815103 I
e canFam3.chr27              19729610 11 +  45876710 I
e proCoq1.NW_012140524v1      5102264 685 +  13104022 I

a score=1978742.000000
s hg38.chr12_GL383549v1_alt     86741 159 +    120804 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaaataacactgccagacttgagcttacacaagctggatccag---gtctctgttcatagtcactaaactTGACACTA-CACTCACCTCGGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
s panTro5.chr12              62778301 159 + 137163284 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaaataacactgccagacttgagcttacacaagctggatccag---gtctctgttcatagtcactaaactTGACACTA-CACTCACCTCGGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902039 159 + 135337776 tgctgggctaagtgattttctgaaggtcacaaagctgtgaaataacactgccagacttgagcttacacaagctggatccag---gtctctgttcatagtcactaaactTGACACTA-CACTCACCTCGGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117534 159 -  32808036 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaaataacactgccagacttgagcttacacaagctggatccag---gtgtctgttcatagtcactaaactTGACACTA-CACTCACCTCGGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307556 159 +  34552619 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaaataacactgccagacttgagcttacacaagctggatccag---ggctgtgttcacagtcaccaaactTGACACTA-CACTCACCTCGGTATCAAAATCCTGCTCCAGTG---------------TG-ttttatagacc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613473 159 - 133663169 tgctgggctaagtgatttgctgaaggtcacaaagccgtgaagtaatactgccagacttgagcttacacaagctggatccag---gtccgtgttcacagtcaccaAAGTTGACACTA-CACTCACCTCGGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013053 159 - 137757926 tgctgggctaagtgatttgctgaaggtcacaaagccgtgaagtaatactgccagacttgagcttacacaagctggatccag---gtccgtgttcacagtcaccaaagttgacacta-cactcacctcgGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1390999 159 -   7948249 tgctgggctaagtgatttgctgaaggtcacaaagccgtgaagtaatactgccagacttgagcttacacaagctggatccag---gtccgtgttcacagtcaccaaagttgacacta-cactcacctcgGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291563 159 -  10730278 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaagtaatactgccagacttgagtttacacaagctggatccag---gtccgtgttcacagtcaccaaagttgacacta-cactcacctcgGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782485 159 - 128539186 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaagtaatactgccagactcgagcttacacaagctggatccag---gtccgtgttcacagtcaccaAAGTTGACACTA-CACTCACCTCAGTATAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178092 159 +    435186 tgctgggctaagtgatttgccgaaggtcacaaagctgtgaagtaatactgccagacctgagcttacacaagctggatccgg---gtccgtgttcacagtcaccaAAGTTGACACTA-CACTCACCTCAGTGTAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3571959 159 +   9309688 tgctgggctaagtgatttgctgaaggtcacaaagctgtgaagtaatactgccagactggagcttacataagctggatccag---gtccgtgttcacagttaccaaagttgacagta-cactcacctcgGTATAAAAACCCTGCTCCAATG---------------TG-ttttttagacc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403310 159 -  29834108 tgctgggctaagtgatttgctgaaggtcacaaagctttaaagtgacactgccagacttgactctacgcaagctggatccag---gtctgtgttcatagtcaccaaacttgacacta-cactcacctcgGTGTAAAAACCCTGCTCCAATG---------------TG-ttttatagacc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855637 160 -   1015025 tgttgggctaagtgatctgctgaaggtcacaaagttatgaagtgacactgctagacttgactttatgcaagctggatccag---gtctgtgttcagagtcaataaacttgacacta-cactcacCTCGGTGTAAAAACCCTGCTCCAGTG---------------TGTttttatagatc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875283 159 -   2295209 tgctgggctaagtgatttgctgaaggtcacaaagctatgaagtgacactgccaaacttgactttacgcaagctggatccag---gtctgtgttcatagtcaccaaactTGACACTA-CACTCACCTCGGTGTAAAAACCCTACTCCAATG---------------TG-ttttatagacc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013393 163 +  31815103 tgccgggctaagtgatttgctgaaggtcacgaagctgctaagtgacactgctggacttgaactcagacaagctggatccagagagtctgtgttcctcaccgccaaacttgacgctagcactcagcGCAGTttaaagaccctgctccactg---------------tg-ttttatagacc
i micMur3.chr21             I 103 C 0
s proCoq1.NW_012140524v1      5102949 163 +  13104022 tgctggactaagtgatttgctgaaggtcacaaagctgttaagtgacactgctggacttgaactcggacaagctggatccagagagtctgtgttcctcgccaccaaactTGACACTAGCACTCACCTCAGTTTAAAGCCCCCGCTCCAGTG---------------TG-ttttatagacc
i proCoq1.NW_012140524v1    I 685 C 0
s otoGar3.GL873576            4575520 142 -  12054995 tgctgggctaagtgattc---------------actgttaagtgacac--ccagccttgaacac--acaagctagatcc--agagtccgtgttcctcacccccagactTGACACCAGTGGTCACCTCAGTTTAGAGACACTGTCCCAATG---------------CG-TTTTGTAGACC
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2416217 152 - 149736546 tgctggactaagtgatctgctaaaggtcataaaactactgagtgccaaccccagacctgagctca-gcatgctggattc-g---aactctgtTTCAAGCCATCAAACATGCCATTA-CCCTTTGTCTCCTGTGAGAACC-----CCACTG---------------CA-GTTATTAAACC
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             929549 169 -   1687904 CACTGGGCTCAGCAATGTGCTGCAAGCCGCAGGGCTCC----tggcacagccagaatcaggctcacacaggctggatgcag---aa-tgtgctcctagctactGAATTTCACACAG-CCTCTTAGGTGGTTTaaaaactctgcgctgataaattttctgggtcctta-ttttgtagacc
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19729610  11 +  45876710 I

a score=2848578.000000
s hg38.chr12_GL383549v1_alt     86900 235 +    120804 aggaaacctgctcctgaaaagttatgggacta-gaccaagcccatgaaatttgtaaatggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaag-tcctctctcccacaccTGGA---CATCCCTCAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACATCAATAACAGAT---TTCAGTTCTGCGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGG-TTTTCTAATGCG---------------------------------TGGGGTAT
s panTro5.chr12              62778460 235 + 137163284 aggaaacctgctcctgaaaagttatgggacta-gaccaagcccatgaaatttgtaaatggcagaaggtcaggaacctg--ccttcccaaag-ccacttc-aaag-tcctctctcccacacctgga---catccctcAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACATCAATAACAGAT---TTCAGTTCTGCGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGTTTTTCTAATGCG---------------------------------TGGGTTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902198 235 + 135337776 aggaaacctgctcctgaaaagttatgggacta-gaccaagcccatgaaatttgtaaatggcagaaggtcaggaacctg--ccttcccaaag-ccacttc-aaag-tcctctctcccacacctgga---catccctcAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACATCAATAACAGAT---TTCAGTTCTGCGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGTTTTTCTAATGCG---------------------------------TGGGTTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117693 236 -  32808036 aggaaacctgctcctgaaaagttatgggacta-gaccaagcccatgaaatttgtaaatggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaag-tcctctctcccacaccTGGA---CATCCCTCAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACATCAATAACAGAT---TTCAGTTCTGCGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGTTTTTCTAATGCG---------------------------------CGGGGTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307715 236 +  34552619 aggaaacctgctcctgaaaagttatgggacta-gaccaagcccatgaaatttgtaaatggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaag-tcctctctcccacaccTCGG---CATCCCTCAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACATCAACAACAGAT---TTCAGGTCTGCGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGTTTCTCTAATGCG---------------------------------TGGGGTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613632 235 - 133663169 aggaaacctgctcctg-aaagttgtgggacta-gaccaagcccgtgaaatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccACTTC-AAAG-TCCTCTCTCCCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAGTAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAATTCG---------------------------------TGGGGTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013212 235 - 137757926 aggaaacctgctcctg-aaagttgtgggacta-gaccaagcccgcgaaatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaag-tcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAGTAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAATTCG---------------------------------TGGGGTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391158 235 -   7948249 aggaaacctgctcctg-aaagttgtgggacta-gaccaagcccgtgaaatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaag-tcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAGTAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAATTCG---------------------------------TGGGGTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291722 236 -  10730278 aggaaacctgctcctg-aaagttatgggacta-gaccaagcccgtgaaatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccacttcaaaag-tcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAGTAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAATCCG---------------------------------TGGGGTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782644 235 - 128539186 aggaaacctgctcctg-aaagttatgggacta-gaccaagcccgtgacatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaaa-tcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAATAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAGTTTG---------------------------------TGGGGTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178251 236 +    435186 aggaaacctgctcctg-aaagttatgggacta-gaccaagcctgtgaaatttgtaaagggcagaaggtcaggaacctg--ccttcccaaagcccacttc-aaaagtcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCT-AC-CTGTACAGATATCAGTAACAGAT---TTCAGTGCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTGCTAATTCG---------------------------------TGGGGTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572118 235 +   9309688 aggaaacttgctcctg-aaagttatgggacta-gaccaagcccaggaaatttgtaaagggcagaaggtcagaaacctg--ccttcccaaagcccacttc-aaag-tcctctctccCACACTTGGG---CATCCCTCAGGGTGCCCTGTCTAACCC-AC-CTGTACAGATATCAATAACAGAT---TTCAGTTCTGAGCTCCCTGTGCCCTGCCTCTGGGTAGCAAAGGCTTTTCTAATTCA---------------------------------TGGGGTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403469 268 -  29834108 aggaaacctggtcctgaaaagttatgggacta-ggccaagcctatgaaatttgtaaatggcagaaggtcaagaatctg--ccttcccgaagcccacttc-aaag-tcctctctcccacaccTGGG---CATCCCTCAGGGTGCTCTGTCTAACTC-AC-CTGTACAGACACCAGTAATGGAT---TTTAGTTCTGAGCTCCCTGTTTCCTGCCTCTGGGTAGCAAAGGCTTTTCTAAT-CATAGGGTATTGCTTTATGGGCATTCATCTAATCGTGGGGTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       855797 238 -   1015025 aggaaacctgctcttgaaaagttatgggacta-ggccaagcctatgaaatttgtaaatggcagaaggtcaagaatctg--ccttcccaaagcccacttc-aaag-tcctctctcccacacctgggcgtcgtccctcAGGGTGCTCTGTCTAACCC-AC-CTGTACAGACACCAATAACAGAT---TTTAGTTCTGAGCTCCCTGTTTCCTGCCTCTGGGTAGCAAAGGCTTTTCTAAT-CA---------------------------------TGGGATAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875442 235 -   2295209 aggaaacctgctcctgaaaagttatgggacta-ggccaagcctatgaaatttgtaaatggcagaaggtcaagaatctg--ccttcccaaagcccacttc-aaag-tcctctctccgacaccTGGA---CATCCCTCAGGGTGCTCTGTCTAACGC-AC-CTGTACAGACACCAATAACAGAT---TTTAGTTCTGAGCTCCCTGTTTCCTGCCTCTGGGTAGCAAAGGCTTTTCTAAT-CG---------------------------------TGGGGTAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013556 237 +  31815103 agaaaacctgctcctgaaaagtcacgggactt-ggccaaggctacacca-ttgtaaagggcagaaggtcaggaacctg--cctcctggaagcccacttc-agag-tcctcttctccacacctgag---cctctctCTGAGCACTCTGCCTAACCC-AC-CTGTGTAGACATTAGCAACAGAGAGCAGCAGTACTGCACTGCCAGGACCCTGCCTCTAGGTCGGGAAGG-TTTTCTAATTCA---------------------------------TGAGGTTT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5103112 234 +  13104022 agaaaacctgctcctgcaaggttaagggactt-ggccaaggccacatcatttgtaaatggcagaaggtcaggaacctg--cctcctggaagcccacttc-aggg-tcctc-ccccaacacctgag---cctctctccgagCACTCTTCCTAACCC-AC-TTGTGCAGATGTTAGCAGCAGAG---AGCAGTACTGCACTGCCAGGACCCTGCCTCTAGGTAGGGAAGG-TTTTCTAATTCA---------------------------------TGGGGTAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4575662 228 -  12054995 ACAAAACCTGCTCCTGAAAAGTTATGGGAGTCAGGCCAAAACTGTGCCATTTGTAAATGGCAGAAGGTCAGGAAGCTG--CCTCCCTGCA-CCCACTTC-AGAG-TCCTCTCCCCCACACCCATG---CCTCTCTCCGAGCGCTCGGCCTAACCC-AG-CTGTGCAGACATTA--ATCAGAG--------CACCATGCTGCT-GGAGCCTGCCTCTAGGTAGAGAAGGCTTTTCGACCTCT---------------------------------TGCTGTAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2416369 191 - 149736546 AGGAATCCTTTTAGTAAGAAGGAACATGGCTA-AGCCAAGGCTGTGCAGTTTGTAAATGACAGAAGGTTA------------------------------GGAG---------CCCACACCTGTC---CCTGTCTCCAATGACTCTGCCTAGCCC-AC-CTGTACAGACATCAACAATTGAT---TAC---------CTCACTAT-CTTTGTTTGTAGGGAGGAAAGATGTTCCTAATTCA---------------------------------TGGTGTAT
i mm10.chr6                 C 0 I 546
s canFam3.chr27              19729621 230 +  45876710 AGAAACTTTGCTCCTGAAGAAGTGGGGTAGGA-GGCACTGGCCACGCAGTTTGTAAAAGGTAG-ATGTCTGGAATCTA--CCTCCCTGATGCCCATTTC--AAG-TTCTCTCTGGCACACCTTGT---CCTCTCTCGGGGCAATCTGCCTGGCCC-AAGCTGTACAGACACTAATAACAGGT--------TGCCACACTACCTAGCTCATGCCACTAACTCGGGAAGGCTTGAGTAATCAG---------------------------------TGAATTAT
i canFam3.chr27             I 11 C 0
s dasNov3.JH562883             929718 209 -   1687904 aggaaacctgcttctgagcagccaagggatta-ggttaaggtcacacagattgtaa---gcagcaggtctggatcctgttccttcctgacg-ctaatcc-agcg-ttccc----------ctgga-------------agcactctcccTAACCTGAG-TTGTGCAGACACGA-----AGGC---CTCATTCCTGCAGCACCTCT-CTCACCCCCTAGTTAGAGAAGACTCTGCTAATCAG---------------------------------TGATTTGT
i dasNov3.JH562883          C 0 C 0

a score=8230.000000
s hg38.chr12_GL383549v1_alt     87135 1 +    120804 T
s panTro5.chr12              62778695 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902433 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117929 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307951 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613867 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013447 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391393 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291958 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782879 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178487 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572353 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403737 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856035 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875677 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013793 1 +  31815103 C
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5103346 1 +  13104022 C
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4575890 1 -  12054995 C
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19729851 1 +  45876710 C
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             929927 1 -   1687904 C
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2416560 546 - 149736546 I

a score=733877.000000
s hg38.chr12_GL383549v1_alt     87136 60 +    120804 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGCCCCGACAGAC----A
s panTro5.chr12              62778696 60 + 137163284 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGCCCCGACAGAC----A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902434 60 + 135337776 GCTTTGTGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGCCCCGACAGAC----A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117930 60 -  32808036 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGCCCTGACAGAC----A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7307952 64 +  34552619 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGCCCCAACGGACAGTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613868 64 - 133663169 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGTCCTAATGGACAGTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013448 64 - 137757926 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGTCCTGATGGACAGTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391394 64 -   7948249 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGCACACTCCACAGTCCTGATGGACAGTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8291959 64 -  10730278 GCTTTATGAGCATTTGCTCTGCAGGACACACGGATGCACACTCCACAGTCCTGATGGACAGTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782880 64 - 128539186 GCTTTATGAGCATTTGCTCAGCAGGACACACGGATGTACACTCCACAGTCCTGATGGACAGTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178488 64 +    435186 GCTTTATGAGCATTCGCTCTGCAGGACACACGGATGCACACTCCACAGTCCTGATGGACAGTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572354 64 +   9309688 GCTTTATGAGCATTTGCTCAGCAGGACACATGGATGCACACTCCACAGTCCTGATGGACAGTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403738 58 -  29834108 GCTTTACGA------GCTCAGCAGGACACACAGTTGCATACTCCATAGCCCCGATGGACAGTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856036 58 -   1015025 GCTTTATGA------GCTCAGCAGGACACACAGATGCACACTCCATAGCCCCGACGGACAGTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875678 58 -   2295209 GCTTTATGA------GCTCAGCAGGACACACAGATGCACACTCCATAGCCCCAACGGACAGTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013794 60 +  31815103 ACTTTATGAGCATTTGCTCTGCAGGGCACAAGGATGCACACTCCACAGCCTCAATGGGCA----
i micMur3.chr21             C 0 I 27
s proCoq1.NW_012140524v1      5103347 60 +  13104022 ACTTTATGAGCATTTGCTCTGCCGGACACACAGATGCACACTCCACAGCCTCAATGGGCA----
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4575891 60 -  12054995 ACTTCAAGAGCATTTGCTCTGCGGGACACACAGATCCCCACTTCACAGCCTCGGTGGGGA----
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2417106 60 - 149736546 GTTTTATGATCTTTTGTTCTAGAAAACAGAGGAATACAAACTTCAGGGCCTCAATGGAGA----
i mm10.chr6                 I 546 I 4
s canFam3.chr27              19729852 63 +  45876710 ACATACTGACCATTTGCTTAGCAGGACACACAGCCGCACAGTACATGGCCTCAA-AGACAGTTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             929928 54 -   1687904 ACTCGATGACTGTTTGC-----AGGACTCGCGGCTGCACAAACT-CAGACTCGATGGGCT----
i dasNov3.JH562883          C 0 C 0

a score=268020.000000
s hg38.chr12_GL383549v1_alt     87196 23 +    120804 ----GAGAGTAAGTGAACAAGATCCTG
s panTro5.chr12              62778756 23 + 137163284 ----GAGAGTAAGTGAACAAGATCCTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902494 23 + 135337776 ----GAGAGTAAGTGAACAAGATCCTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3117990 23 -  32808036 ----GAGAGTAAGTGAACAAGATCCTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308016 23 +  34552619 ----GGGAGTAAGTGAACAAGGTCCTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613932 23 - 133663169 ----GAGCAGAAGTGAACAAGGTCCTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013512 23 - 137757926 ----GAGCAGAAGTGAACAAGGTCCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391458 23 -   7948249 ----GAGCAGAAGTGAACAAGGTCCTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292023 23 -  10730278 ----GAGCAGAAGTGAACAAGGTCCTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782944 23 - 128539186 ----GAGCAGAAGTGAACAAGGTCCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178552 23 +    435186 ----GAGCAGAAGTGAACAAGGTCCTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572418 23 +   9309688 ----GAGCATAAGTGAACAAGGTCCTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403796 23 -  29834108 ----GAGAGTAAGTGAACAAGGTCCCG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856094 23 -   1015025 ----GAGAGTGAGTGAACAAGGTCCCG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875736 23 -   2295209 ----GAGAGTAAGGGAACAAGGTCCCG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5103410 22 +  13104022 ----ACGAGTGAGTGAACCAGGTCCT-
i proCoq1.NW_012140524v1    I 3 C 0
s otoGar3.GL873576            4575955 23 -  12054995 ----CAGAGTGAGTGAACAAGGTCCCA
i otoGar3.GL873576          I 4 C 0
s mm10.chr6                   2417170 23 - 149736546 ----CAGAGCCAGGAAACCAGGTCCTG
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19729915 23 +  45876710 ----CAGAGCGAGTAGACAAGGTCCTG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             929982 27 -   1687904 GTTCCGGAGCTAGTGCACAAGGTCCCG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3013854 27 +  31815103 I

a score=3800536.000000
s hg38.chr12_GL383549v1_alt     87219 240 +    120804 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGACA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAGGGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAAGAGGGACTC---CTTTCATCAGTAGC----TACAGAGA
s panTro5.chr12              62778779 240 + 137163284 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTGTAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGTCTGTTTTGTTCCAGACA-GGGTTCTTTAAAACATCATAAGCAAGCCGCAAGAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAAGAGGGACTC---CTTTCATCAGTAGC----TACAGAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902517 240 + 135337776 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGACA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAGAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAAGAGGGACTC---CTTTCATCAGTAGC----TACAGAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118013 240 -  32808036 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGACA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAGAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAAGAGGGACTC---CTTTCATCAGTAGC----TACAGAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308039 240 +  34552619 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCAAAGGATCTGTTTACAATTACAC---AAATGTCGCCTGTTTTGTTCCAGACA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAGAGCCCACAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAAGAGGGACTC---CTTTCATCAGTAGC----TGCAGAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104613955 244 - 133663169 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCAGGGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACGACTCTGTGAGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013535 244 - 137757926 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCAGGGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACGACTCTGTGAGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391481 243 -   7948249 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACGACTCTGTGAGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292046 243 -  10730278 ATTCCATTA-AAAGAATAAAGAGAACCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCTTTTCTCCCTGAGTATTAAACGACTCTGTGGGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100782967 243 - 128539186 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATCATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTTTTTAAAACATCATAAGGAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACGACTCTGTGGGCTCCTAGAGTACAACACGGACTCCTTCTTTCATCAGTAGC----TGCAAAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178575 243 +    435186 ATTCCATTA-ACAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGGTCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGTG-GGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACGACTCTGTGGGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572441 243 +   9309688 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGTTATAAAGGATCTAAGAATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTTTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTCCTAGAGTACAACAGGGACTCCTTCTTTCATCAGTAGC----TACAAAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11403819 243 -  29834108 ATTCCATTA-AAAGAATAGAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTATAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCCGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAGGAGGGACTCCCTCTTTCATCAGTAGC----TACAGGGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856117 243 -   1015025 ATTCCATTA-AAAGAATAAAGAGAGCCTCTTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTTTTCTAGGCA-GGGCTCTTTAAAACATCATAAGCAAGCCACAAAAGCCCAGAGGGTGGCCCAATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAGGAGGGACTTCCTCTTTCATCAGTAGC----TACAGAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1875759 243 -   2295209 ATCCCCTTA-AAAGAATAAAGAGAGCCTCTTTCCTCGTACAGATTATCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACAC---AAATGTTGCCTGTTTTGTTCCAGGCA-GGGCTCTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTGAGCTTCTAGAGTACAGGAGGGACTCCCTCTTTCATCAGCAGC----TACAGAGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3013881 247 +  31815103 ATTCCATTACAAACAATAAAGAGAGCCTCTTTTCTTGTGCAGATTACCTCAGCTATAAAGGATCTAAGGATCTGTTTACAATTACACTTTGAATGTTGCCTGTTTTGTTCCAGGCA-GGCCTCTTTAAAACATCATAAGCAAGCCACAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTTGACTTCTAGAGTGCTAGAGTTGCTCCTTCCTTCATCAATAAC----TACAGAGA
i micMur3.chr21             I 27 C 0
s proCoq1.NW_012140524v1      5103432 242 +  13104022 ATTCCATTATAAACAATAAAGAGAGCCTC-TTTCTTGTGCAGATTACCTCAGCTATAAAGGATCT-GGGGTCTGTTTACAATTACAC---AAATATTGCCTGTTTTGTTCCAGGCA-GGCCTCCTTAAAACATCATAAGCAAGCCACAAAAGCCCAGAGGGTGGCCCCATTTCTCCCTGAGTATTAAACAACTCTGTTGACTTCTAGAGTGCTAGAGCTGCTCCTTCCTTCATCAATAGC----TACAAAGA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4575978 244 -  12054995 GTTCCCTTATAAAGAATAAAGAGAGCCTCTTTCCTTGCGCAGATTACCTCAGCTATAAAAGATCTAAGGATCTGTTTACAATTACAC---AGATATTGCCTGTTGTGTTCCAGGCG-GGCCTCTTTAAAACATCATAAGCAAGCCGCAAAAGCCCAGAGGGTGGCCCCTTTTCCCCCTGAATATTAAACAACTCTGTTAACTTCTAGAATGCTAGAGCTGTTCCTTCCTTCATCAATAGC----TACACAGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2417193 233 - 149736546 ATTCCATGAGAAAGAATAAAGAG---CTCTTTCCTTGTACAGATTATCTGAGCTATAAAGGATCT--------GTTTACAATTACAC---AAATATTGCCTGTTTTGTTCCAG-CA-GGCCTC--TAAAACATCACAAGCAAGCCACAAAAACCCAGAGGGTGGCCCCTTCCAACCCCCAGCGTGAAACAACTC-GTTGGCTTCAAGACTGCCTGGGCTACTCAGCCTTCCATCAATAGCACAAGACAGAGA
i mm10.chr6                 C 0 I 128
s canFam3.chr27              19729938 244 +  45876710 TTTCCCTTCTAAAGAATAAAGAGAGCCCCCTTCCTTGTACAGATTATCTCAGCTATAAAGGATCTACAGATCTGTTTACAATTACAT---AAATATTGCCTGTTTTGTTCCTGGCA-GGCCTCTTTAAAACATCATAAGCAAGCCACAAAAGCCCAGAGGGTGGCCCCATTCCTCTCTGAGCATTAAACAGCCGCATTAACTTCTAGAGAGCTAGAAATAGTCCCCCCTTCATCAATAGC----TACAAAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             930009 237 -   1687904 ATTCCACACTAAAGAATAAAAAGGGCCCCTTTCCTTGTGCAGATTACCTCCACTAGAAAGGAGCTATGGATCTGCTTACAATTACAC---AAATGTTGCCTGTTTTGGTCTTGACA-GGCCTTTTTAAAACAACATAAATGAGCCTCAGCAGAACAGAGGGT-GCCCCATTCCCTCCTGAGCAGTTAACAACTCTG----CTTCCTGAGTCCTGGAGCTATTGCTCGTTCC--TAGCATG----GATGGAGA
i dasNov3.JH562883          C 0 C 0

a score=475306.000000
s hg38.chr12_GL383549v1_alt     87459 40 +    120804 AGAAAACATCTACCAGTTTGGTGCATATGACTGAATTACA-------
s panTro5.chr12              62779019 40 + 137163284 AGAAAACATCTACCAGTTTGGTGCATATGACTGAATTACA-------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902757 40 + 135337776 AGAAAACATCTACCAGTTTGGTGCATATGATTGAATTACA-------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118253 40 -  32808036 AGAAAACATCTACCAGTTTGGTGCATATGACTGAATTACA-------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308279 40 +  34552619 AGAAAACATCTACCAGTTTGGTGCATATGACTGAATTACA-------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614199 40 - 133663169 AGAAAACATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013779 40 - 137757926 AGAAAACATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391724 40 -   7948249 AGAAAACATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292289 40 -  10730278 AGAAAACATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783210 40 - 128539186 AGAAAAAATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178818 40 +    435186 AGAAAACATCTGCCAGTTTGGTGCATATCACTGAATTACA-------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572684 40 +   9309688 AGAAAACATCTGCCAGTTGGGTGCATATCCCTGAATTACA-------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404062 40 -  29834108 AGCAAACATCTGCCAGTTTGGTGCATATCACTGAATTGCC-------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856360 40 -   1015025 AGCAAACATCTGCCAGTTTGGTGCATGTCGCTGAATTGCC-------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876002 40 -   2295209 AGCAAACATCTGCCAGTTTGGTGCATATCACTGAATTGCC-------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3014128 39 +  31815103 A-AAAACTGCTGCCGATTTGGTGCATATTGCTAAATTATC-------
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5103674 39 +  13104022 A-AAAACAGCTGCCGATTTGGTACCTATTGCTAAATTACC-------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4576222 39 -  12054995 A-AAAACATCTGCCAATTTGGTACACATCGCTGAATTATC-------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19730182 37 +  45876710 -AAAAACAAGTGTCGAT--GGTGCACATCACTGGATTACC-------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             930246 46 -   1687904 -AAGAACACCTCCCAGCTTGGCACCTATCTCCAGATGACCGATCACA
i dasNov3.JH562883          C 0 I 269
e mm10.chr6                   2417426 128 - 149736546 I

a score=93243.000000
s hg38.chr12_GL383549v1_alt     87499 11 +    120804 GTTCGAATATA
s panTro5.chr12              62779059 11 + 137163284 GTTCGAATATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902797 11 + 135337776 GTTCGAATATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118293 11 -  32808036 GTTTGAATATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308319 11 +  34552619 GTTCGAATATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614239 11 - 133663169 GATCGAATATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013819 11 - 137757926 GATCGAATATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391764 11 -   7948249 GATCGAATATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292329 11 -  10730278 GATCGAATATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783250 11 - 128539186 GATCGAATATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178858 11 +    435186 GATCGAATATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572724 11 +   9309688 GATCGAATATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404102 11 -  29834108 CATCAAATATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856400 11 -   1015025 CATCAGATATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876042 11 -   2295209 CATCAAATATA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3014167 11 +  31815103 CTTCATTTATA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5103713 11 +  13104022 CATCACATGTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4576261 11 -  12054995 CCTCAGCTATA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19730219 11 +  45876710 TGTCATACGCA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2417426 128 - 149736546 I
e dasNov3.JH562883             930292 269 -   1687904 I

a score=80163.000000
s hg38.chr12_GL383549v1_alt     87510  9 +    120804 CCCC-AAAAA
s panTro5.chr12              62779070  9 + 137163284 CCCC-AAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902808  9 + 135337776 CCCC-AAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118304  9 -  32808036 CCCC-AAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308330  9 +  34552619 CCCC-AGAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614250  9 - 133663169 CCCC-AAAAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013830  9 - 137757926 CCCC-AAAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391775  9 -   7948249 CCCC-AAAAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292340  9 -  10730278 CCCC-AAAAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783261  9 - 128539186 CCCC-AAGAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178869  9 +    435186 CCCC-AAGAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572735  9 +   9309688 CCCC-AAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404113  9 -  29834108 CCCC-CCAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856411  9 -   1015025 CCCC-CCAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876053  9 -   2295209 CCCC-CCAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3014178 10 +  31815103 CCCCAAAAAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5103724  9 +  13104022 CCCC-AAAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4576272  7 -  12054995 CCC---AAAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2417554  9 - 149736546 CCCC-AAGGG
i mm10.chr6                 I 128 C 0
s canFam3.chr27              19730230  8 +  45876710 -CCC-AGAAA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             930292 269 -   1687904 I

a score=5406051.000000
s hg38.chr12_GL383549v1_alt     87519 438 +    120804  
s panTro5.chr12              62779079 438 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60902817 438 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118313 438 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308339 422 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614259 440 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109013839 440 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1391784 440 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292349 440 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783270 440 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       178878 441 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3572744 438 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404122 431 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856420 427 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876062 427 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3014188 419 +  31815103  
i micMur3.chr21             C 0 I 384
s proCoq1.NW_012140524v1      5103733 435 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4576279 430 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2417563 367 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730238 424 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             930561 510 -   1687904  
i dasNov3.JH562883          I 269 C 0

a score=634710.000000
s hg38.chr12_GL383549v1_alt     87957 51 +    120804 gacggtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
s panTro5.chr12              62779517 51 + 137163284 gacggtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903255 51 + 135337776 gacggtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118751 51 -  32808036 gacggtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308761 51 +  34552619 gacggtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614699 51 - 133663169 gacggtaggtagcagtagc----agtgctgaaaggagtttctggacatcttcaag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014279 51 - 137757926 gacggtaggtagcagtagc----agtgctgaaaggagtttctggacatcttcaag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392224 51 -   7948249 gacggtaggtagcagtagc----agtgctgaaaggagtttctggacatcttcaag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292789 51 -  10730278 gacggtaggtagcagtagc----agtgctgaaaggagtttctggacatcttcaag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783710 50 - 128539186 gacggtaggtagca-tagc----agtgctgaaaggagtttctggacatcttcaag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179319 51 +    435186 gacggtaggtagcagcagc----agtgctgaaaggagtttctggacatcttcaag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573182 51 +   9309688 gatggtaggtagcagtagc----agtgctgaaaggagtttctggacatattcaag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404553 51 -  29834108 gacagtaggtagcagtagt----agtgctgaaaggagcttctgggcactttcaag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856847 51 -   1015025 gacagtaggtagcagtagc----agtgctgaaaggagcttctgggcactttcaag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876489 51 -   2295209 gatagtaggtagcagtagt----ggtgctgaaaggagcttctgggcactttcaag
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5104168 51 +  13104022 gatagtgggtagcaatagc----agggccgaaaggaacttctaggcacttttaag
i proCoq1.NW_012140524v1    C 0 I 679
s otoGar3.GL873576            4576709 51 -  12054995 gatagtaggtagcaatggt----agtgctgaaaggagcttccggaccctttcaag
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2417930 40 - 149736546 GAGGGGAGAGACCAATGCTGCAGAATGCTGAAGGGAA--------------CAA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730662 50 +  45876710 -atggtgggtggctcaagt----aatgctgacaggaattcccaggtgctttcaag
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             931071 50 -   1687904 gatggtgagaggaaatagt----agcgctgaagggagcttctgggcatgctcag-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3014607 384 +  31815103 I

a score=1266204.000000
s hg38.chr12_GL383549v1_alt     88008 125 +    120804 agctgagaat---agga---gagtgcgttggttctccgtgtctaattttacttctaaaca-gaggctgtccttttctttCTTGTCGGAGGCAAATCAGTAATAATGGTCATTTGCTGCCTCGCACTGTCTTC
s panTro5.chr12              62779568 125 + 137163284 agctgagaat---agga---gagtgcgttggttctccgtgtctaattttacttctaaaca-gaggctgtccttttctttCTTTTCGGAGGCAAATCAGTAATAATGGTCATTTGCTGCCTCGCGCTGCCTTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903306 125 + 135337776 agctgagaat---agga---gagtgcgttggttctccgtgtctaattttacttctaaaca-gaggctctccttttctttCTTGTCGGAGGCAAATCAGTAATAATGGTCATTTGCTGCCTCGCACTGCCTTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118802 125 -  32808036 agctgagaat---agga---gagtgcgttggttctccatgtctaattttacttctaaaca-gaggctctccttttctttCTTGTCGGAGGCAAATCAGTAATAATGGTCATTTGCTGCCTCGCACTGCCTTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308812 125 +  34552619 agctgagaat---agga---gagtgcgttggttttctgtgtctaattttacttccaaaca-gaggctctccttttctttCTTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGTCTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614750 125 - 133663169 agctgagaat---agga---cagtgcgttggttctccgtgtctaattttacttctacaca-gagattctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014330 125 - 137757926 agctgagaat---agga---cagtgcattggttctccgtgtctaattttacttctacaca-gagattctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392275 125 -   7948249 agctgagaat---agga---cagtgcgttggttctccgtgtctaattttacttctacaca-gagattctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292840 125 -  10730278 agctgagaat---agga---cagtgcgttggttctccgtgtctaattttacttctaaaca-gagactctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783760 125 - 128539186 agctgagaat---agga---gaatgcgttggttctccgtgtctaattttacttctaagca-gagactctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179370 125 +    435186 agctgagaat---agga---cagtgcgttggttctccgtgtctaattttacttctaaaca-gagactctccttttctttCCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573233 125 +   9309688 agctgagaat---agga---gaatgcgttggttctccatgtctaattttacttctaaaca-gagactctcctttactttgCTGTTGGAGGCAAATCAGTAATGATGGTCATTTGCTGCCTCGCACTGCCTTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404604 117 -  29834108 agctaagagc---agga---gagtgccttggttctccgtgtctaattttacttctaaaca-aaggctctccttttccttCCTGTTGGAGGCAAATCA--------GATTATTTGCTGCCTCACGCTCCCTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       856898 117 -   1015025 agctcagagt---agga---gagtgccttggttctccgtgtctaattttacttctaaaca-aaggctctccttttccttCCTGTTGGAGGCACATCA--------GATTATTTGCTGCCTCACGCTGCCTTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876540 117 -   2295209 agctgagagt---agga---gagtgccttggttctccgtgtctaattttacttctaaaca-aagactctccttttccttCCTGTTAGAGGCAAATCA--------GATTATTTGCTGCCTCACGCTGCCTTC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4576760  92 -  12054995 ---------------------------------------ggcGAATTTTACTTCTCGGGA-GAGGATCTCCTTTTCCTTCCTTTTGGAGGTAAATCAGGAACGCTGGTCACTTGCTGCCTCATGCTGCCTGC
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2417970 100 - 149736546 GCCTGAG------TGGA---GAGAGCTTTGGTCCT--ATGTCCACTGTTG-TTTGAAATG-CGAGCTCCGGTGTCCCTTCCTACGGACAGGAA------------GGTCACTTATTGCCTCTCAT-------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730713 128 +  45876710 gtttaagact---agaacatgagagcattggttttctgtgtcgaattttacctcaaaaca-gagtcttaccttttccttCCTTTCCGAGACACATCAATAATAACAGTCATTTACTGCCTCACACCGCTTTC
i canFam3.chr27             I 1 I 1
s dasNov3.JH562883             931121 126 -   1687904 agctgacggccagaggg---aagagccttgg---cctgtgtctaattttactttacagcagggggctctccttttccttCCTTTCAGAGGCCTGTTGGGAGCGAGGGTCCTTTATGTCTCTCCGCTTCCTTC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3014607 384 +  31815103 I
e proCoq1.NW_012140524v1      5104219 679 +  13104022 I

a score=998004.000000
s hg38.chr12_GL383549v1_alt     88133 84 +    120804 TCCAGCACGCTGCCTCCTTCGCTGTGGCTCCAGTCCCCACCGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
s panTro5.chr12              62779693 84 + 137163284 TCCAGCATGCTCCCTCCTTCGTTGTGGCTCCAGTCCCCACCGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903431 84 + 135337776 TCCAACATGCTCCCTCCTTCGCTGTGGCTCCAGTCCCCACCGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGAGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3118927 84 -  32808036 TCCAGCACGCTCCCTCCTTCGCTGTGGCTCCAGTCCCCACCGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7308937 82 +  34552619 TCCAGCACGCTCCCTCCTTCACTGTGGCCC--GTCTGCACCGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614875 84 - 133663169 TCCAGCACGCTCCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014455 84 - 137757926 TCCAGCACGCTCCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392400 84 -   7948249 TCCAGCACGCTCCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8292965 84 -  10730278 CCCAGCACGCTGCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783885 84 - 128539186 TCCAGCACGCTCCCTCCTTCACTGTGGTTCCAGTCCCCACGGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179495 84 +    435186 TCCAGCACGCTCCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573358 84 +   9309688 TCCAGCACGCTCCCTCCTTCACTGTGGCTCCAGTCCCCACAGACTCTTAGTGAGGTCACATGCTGGCCATGGGTGAGG---CAGGGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404721 84 -  29834108 TCCACCACGCTCCCTCCTTTGCTGTGGCTCCAGTCCTCATGGATGGCTAGCGAGGTCACATGCTGGTCATGGGTTAGG---CCGAGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857015 84 -   1015025 TCCACCACGCTCCCTCCTTCCCTGTGGCTCCAGTCCCCACGGACTGCTAGTGAGGTCACATGCTGGTCATGGGTTAGG---CCGGGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876657 84 -   2295209 TCCACCACGCTCCCTCCTTCGCTGTGGCTCCAGTCCCCGCGGACCGCTAGTGAGGTCACATGCTGGTCATGGGTTAAG---CCGGGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3014991 84 +  31815103 TCCAGCACGCTTCCGCCCTCGCTGTGTCTCGAATCCCCACAGACTCTTGGTGAGGTCACAGGCTGGCCAGGGGTCAGG---CAGGGT
i micMur3.chr21             I 384 I 258
s otoGar3.GL873576            4576853 83 -  12054995 CCCAGCACGCTTCT-CCTTCCTGGTGTCTGGAGTCCCCACAGGCTCTTGGTGAGGTCACAGGCTGGTCATAGGTCGGG---CAGGGT
i otoGar3.GL873576          I 1 I 6
s mm10.chr6                   2418070 55 - 149736546 --------GCTTCCTCCT-------------AGTCTCCAC--------AGTGAGGTCATATACTAGCCTGGGGAGGGT---CAGCCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730842 84 +  45876710 CCTGGTGTGCTTCCTTCCTGGCTGTGTCTGGAGTCCCCACTGATGCTTAGTGAGGTCATTTTCTGGCCAAGGGTTAGG---CAGGGT
i canFam3.chr27             I 1 I 6
s dasNov3.JH562883             931247 72 -   1687904 --CAGCACACGTTCTCCTTCCGTCTGTCT-----------GGAATCTCAGCAGGGTCACGGG--GAGCAGGAGCTGGGCCCCAGGAT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5104219 679 +  13104022 I

a score=473883.000000
s hg38.chr12_GL383549v1_alt     88217 41 +    120804 GGCCTCACACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
s panTro5.chr12              62779777 41 + 137163284 GGCCTCACACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903515 41 + 135337776 GGCCTCGCACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119011 41 -  32808036 GGCCTCGCACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309019 41 +  34552619 GGCCTCGCACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104614959 41 - 133663169 GGCCTCGTACAGACACATTTCATGGCACTTTCAGAGGCT-G-------C
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014539 41 - 137757926 GGCCTCGTACAGACACATTTCATGGCACTTTCAGAGGCT-G-------C
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392484 41 -   7948249 GGCCTCGTACAGACACATTTCATGGCACTTTCAGAGGCT-G-------C
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293049 41 -  10730278 GGCCTCATACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100783969 41 - 128539186 GGCCTCGTACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179579 41 +    435186 GGCCTCGTACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573442 41 +   9309688 GGCCTCATACAGACACATCTCAGGGCACTTTCAGAGGCT-G-------C
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404805 41 -  29834108 GGCCTTGCACAGACACATCTTACGGCACTTTCAGAGGCT-G-------C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857099 41 -   1015025 GGCCTTGCACAGACACATCTCATGGCACTTTCATAGGCT-G-------C
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876741 41 -   2295209 GGCCTTGCACAGACACATCTCATGGCACTTTCAGAGGCT-G-------C
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4576942 42 -  12054995 GGCCCCACAGAGACACCTCACCTGGCACTGCTGGAAGCTGG-------C
i otoGar3.GL873576          I 6 C 0
s mm10.chr6                   2418125 48 - 149736546 AGCCTCACATAGACTCATCTCTTGGTGCTACTGGAGGCT-AGTGGGGTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730932 36 +  45876710 GGACT----CAGACCCGTCTCATGGTGTTTCTGGAGGCT-G--------
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             931319 41 -   1687904 GGCCCCCCACAGCACCGTCTCATGGAGCTTCTGGAAGCT-C-------C
i dasNov3.JH562883          C 0 I 389
e micMur3.chr21               3015075 258 +  31815103 I
e proCoq1.NW_012140524v1      5104219 679 +  13104022 I

a score=2481081.000000
s hg38.chr12_GL383549v1_alt     88258 240 +    120804 AGATGCCTG--------CTCAGAGCCTCGTTCTAGGGCCAGAGGTTA-TAGCACTAACTAGG-GGCTGGACAGGGGCCACAGTGCTGCCTGCATGACC-GCTGGCCCTGACCGTGTTGG-CCCCACCCACCACCTTACCCC-GAGGCAGTATCCACAGTCGGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAAAAA---TCACCCTCAATAAAAAGCAACGATTCTTGCT
s panTro5.chr12              62779818 240 + 137163284 AGATGCCTG--------CTCAGAGCCTTGTTCTAGGGCCAGAGGTTA-TAGCACTAACTGGG-GACTGGACAGGGGCCACAGTGCTGCCTGCATGACC-GCTGGCCCTGACCGTGTTGG-CCCCACCCACCACCTTACCCC-GAGGCAGTATCCACAGTCGGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAAAAA---TCACCCTCAATAAAAAGCAACGATTCTTGCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903556 239 + 135337776 AGATGCCTG--------CTCAGAGCCTTGTTCTAGGGCCAGAGGTTA-TAGCACTAACTGGG-GGCTGGACAGGGGCCACAGTGCTGCCTGCATGACT-GCTGGCCCTGACCATGTTGG-CCCCACCCACCACCTCACCCC-GAGGCAGTATCCACAGTCGGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TT-AAAAAAAAA---TCACCCTCAATAAAAAGCAACGATTCTTGCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119052 239 -  32808036 AGATGCCTG--------CTCAGAGCCTCGTTCTAGGGCCAGAGGTTA-TACCACTAACTGGG-GGCTGGACAGGGGCCACGGTGCTGCCTGCATGACC-GCTGGCCCTGACCATGTTGG-CCCCACCCACCACCTCACCCC-GAGGCAGTATCTACAGTCGGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TT-AAAAAAAAA---TCACCCTCAATAAAAAGCAACGATTCTTGCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309060 244 +  34552619 AGATGCCTG--------CTCAGAGTCTTGTTCTAGGGCCAGAGGTTA-TAGCACTAACTGGG-GGCTGGACAGGGGCCACAGTGCTGCCTGCATGACC-ACTAGCCCTGACCATGTTGG-CCCCACCCACCGCCTCACCCCTGAGGCAGCATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAAAAAAATCCACCCTCAATTAAAAGCAAAGATTCTTGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615000 242 - 133663169 AGATGCCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCATGTTGG-CCCCATCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAACAA--TCCACCCTCAATAAAAAGCAACAATTCTTGTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014580 242 - 137757926 AGATGCCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCATGTTGG-CCCCATCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAACAA--TCCACCCTCAATAAAAAGCAACAATTCTTGTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392525 242 -   7948249 AGATGCCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCATGTTGG-CCCCACCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAACAA--TCCACCCTCAATAAAAAGCAACAATTCTTGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293090 242 -  10730278 AGATGCCTG--------CTTGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCGTGTTGG-CCCCACCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAAAAA--TCCACCCTCAATAAAAAGCAACGATTCTTGTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784010 241 - 128539186 AGATGCCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCGTGTTGG-CCCCACCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TT-AAAAAAAAA--TCCACCCTCAATAAAAAGCAACGATTCTTGTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179620 242 +    435186 AGATGTCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTC-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCCTGCATGACC-GCTGGCCCTGACCGTGTTGG-CCCCACCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAAAAA--TCCACCCTCAATAAAAAGCAACAATTCTTGTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573483 242 +   9309688 AGATGCCTG--------CTCGGAGTCTTGTTCTAGGGCCAGAGGTTA-TAGCACTAACTGGG-GGCTGGACAGAGGCCAGAGCACTGCGGGCATGACC-GCTGGCCCTGACGGTGTTGG-CCCCACCCACCGCCTCACCCCTAAGGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGGTAAGAAGACAGGTA-TTAAAAAAATAA--TCCACCCTCAATAAAAAGCAATGATTCTTGTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11404846 239 -  29834108 AGATGCCTG--------CTCAGAGTCTTGTTCTAGGGCCAGAGGTTA-TAGCAGTAACTGAG-GGCTGGACAGGGGCCAGCATGCTGCCTGCGTGACT-GTTGGTCCTGGCCATGTTGA-CCCCACCCACCGCCTCACCCCAGAAGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGATACGAAGACAGGTA-TT---AAAAAAA--TCCAGCCTCAATAAAAAGCAACGATTCTTGCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857140 240 -   1015025 AGATGCCTG--------CTCAGAGCCTTGTTCTAGGGCCAGAGGTTA-TAGCAGTAACTGAG-GGCTGGACAGGGGCCAGCGTGCTGCCTGCATGACT-GCTGGCCCTGGCCATGTTGG-CCCCACCCACTGCCTCACCCCAGAAGCAGTATCCACAGTCAGTGAACAAGAATGTTCTATCTTTATATTTGCAGGATAAGAAGACAGGTATTT---TAAAAAA--TGCAGCCTCAATAAAAAGCAACGATTCTTGCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1876782 239 -   2295209 AGATGCCTG--------CTCAGAGTCTTGTTCCAGGGCCAGAGGTTA-TAGCAGTAACTGAG-GGCTGGACAGAGGCCAGCGTGCTGCCTGCATGACT-GCTGGCCCTGGCCATGTTGG-CCCCACCCACCGCCTCACCCCAGAAGCAGTATCCACAGTCAGTAAACAAGAATGTTCTATCTTTATATTTGCGGGATAAGAAGACAGGTA-TT---AAAAAAA--TCCAGCCTCAATAAAAAGCAACGATTCTTGCT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4576984 206 -  12054995 ATCTGTGCG--------TCCAGAGTCTTGTTCCCAGGCAAGAGGTTA-TGGCACCAATTGGG-GGCTGGACAGAGGCCATC-TGCTGCCTGTGTGATG-GCGGCCCCAG-------------CCACCCTCAACCTCACCCT-GAGGTGGGACCCACAGACAGTGACCATGAATATTCCATCTTTATATT--CAGGGTGAGAAGAT-GGTA-GT----AAAGAA--TCCATGCT---------------ATTCTTGCT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2418173 237 - 149736546 ACACAGCTGGTCCTTCTCTCAGAGTCCTGTTCCAGGGTAAGAAGTTA-CAGCCCTGATGGGGAGGTTGGATGATGGCC-GAACACTGCCTGCATGACC-ACTAGCT------GTGTTGGACCACACCCACAGCCTTGTCCCTGAGGTCATATCCACAGATGGTGACCAAGAATATTCCATCTTCTGCTTTGCGGGGTAGGAAAATGGGTA-AT----AGAGAA--CTTGGGCCCAGTGAAAGTCAACTCTCCT----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19730968 227 +  45876710 ----GCCGA--------CACAGA---------TGGAGTGAGAGGCTGTTGGCATGGGCTGGA-GGCTGGACCAGGGCCATCGTGCTGCCTGCAGGACCAGCTGACCCCAGCCATGGTAG-CCCCACCCACTGCCTCACCCCTTAGGTAGTCTCCACAGCCAGTAAACACTAATGCTCCATGATTATATTTGCAGGGTAAGAAGAAGGGTA-AT----AAAGAA--TCCAGGCTCAATGAAAAGCAATTGTCCTTGTT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3015075 258 +  31815103 I
e proCoq1.NW_012140524v1      5104219 679 +  13104022 I
e dasNov3.JH562883             931360 389 -   1687904 I

a score=1125277.000000
s hg38.chr12_GL383549v1_alt     88498  93 +    120804 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTGAGTATAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCCAAGACCCAGAACAAA
s panTro5.chr12              62780058  93 + 137163284 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTGAGTGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCCAAGACCCAGAACAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903795  93 + 135337776 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTGAGTGTAGATTTCATAAA---GAGAGT-AAA-------------CTAACTTCCATGACCCAAGACCCAGAACAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119291  93 -  32808036 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTGAGTGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCCAAGACCCAGAACAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309304  93 +  34552619 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTGAGTGTAGATTTCATAAA---CAGAGT-AGA-------------CTAACTTCCATGACCTGAGACCCAGAACAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615242  93 - 133663169 CCACAGCAGAAAAATATGAGAAAAACATAAGCACTGAATGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCTGAGACCCAGAACAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014822  93 - 137757926 CCACAGCAGAAAAATATGAGAAAAACATAAGCACTGAATGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCTGAGACCCAGAACAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392767  93 -   7948249 CCACAGAAGAAAAATATGAGAAAAACATAAGCACTGAATGTAGATTTCATAAA---GAGGGT-AGA-------------CTAACTTCCATGACCTGAGACCCAGAACAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293332  93 -  10730278 TCACAGAAGAAAAATACGAGAAAAACATAAGCACTGAATGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCATGACCCGAGACCCAGAACAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784251  94 - 128539186 CCACAGAAGAAAAATATGAGAAAAACATAAGCACTGAATGTAGATTTCATCAA---GAGAGTAAGA-------------CTAACTTCCATGACCCGAGACCCAGAACAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179862  93 +    435186 CCACAGAAGAAAAATATGAGAAAAACATAAGCACTGAATGTAGATTTCATGAA---GAGAGT-AGA-------------CTAACTTCCATGACCCGAGACCCAGAACAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573725  89 +   9309688 CCACAGAAGAAAAATATGAGGAAACCATAAGCACTGAATGTAGATTTCAT-------AGAGT-AGA-------------CTAACTTCCGTGACCTGAGACCCAGAACAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405085  93 -  29834108 CCACAGAAGAAAAATATGAGAAAAACATAGGTACTAAATGTGGATTTCATCAA---GAGAAT-AGA-------------CTAACTTCCACGACCCAGGACCCAGAGCAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857380  93 -   1015025 CCCCAGAAGAGAAATATGAGAAAAACATAGGCACTAAATGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCACGACCCAGGACCCAGAGCAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877021  93 -   2295209 CCACAGAAGAAAAATATGAGAAAAACATAGGCACTAAATGTAGATTTCATAAA---GAGAGT-AGA-------------CTAACTTCCACGAACCAGGACCCAGAGCAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3015333  93 +  31815103 CCACAGAGGAAAAATATGAGCAAAACATAGGCACTGGATGTAGATTGCATAAA---GGAGGT-AAA-------------CTAACTTCCGTGACCTAGGACCTAGAGCAAA
i micMur3.chr21             I 258 I 600
s proCoq1.NW_012140524v1      5104898  92 +  13104022 CCACAGAGGAAAAATATGAGTAAAACATAGGCACTGCATGTAGATTGCATAAA---GGTAGT-AAA-------------CTAACTT-CATGACCTAGGATCTAGAGCAAA
i proCoq1.NW_012140524v1    I 679 C 0
s otoGar3.GL873576            4577190  90 -  12054995 CCACAGAGG-AAAATATGAGAGAAATGTGGACACTGGAGGGAGGTTTCACAGA---G--AGT-AAA-------------CTCACTTCCATGCCCTAAGGCCTGGAGCCAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2418410  94 - 149736546 -CACCAGTGGAAAGTGTGAGAGAGAACAAGACACTGAA--CAGATCTCCCAAA---GATGGG-AGAGTTGAAACAAAGCCTGACTTCC-TG--CTGAGAACCAG------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19731195 104 +  45876710 CCACTGAGGACAAACATCA-AAGAGTATGTGCTTTGAACTTAACTTTCATAGACTGAAGAAT-GAA----AAATGAATCCTAATGGCCATGACCTAGCACCCAGAGCAAA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             931360 389 -   1687904 I

a score=131576.000000
s hg38.chr12_GL383549v1_alt     88591 12 +    120804 TCCTCTGACTCA
s panTro5.chr12              62780151 12 + 137163284 TCCTCCGACTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903888 12 + 135337776 TCCTCCGACTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119384 12 -  32808036 TCCTCCAACTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309397 12 +  34552619 TCCTCCAACTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615335 12 - 133663169 TCCTCTGACTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014915 12 - 137757926 TCCTCTGACTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392860 12 -   7948249 TCCTCTGACTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293425 12 -  10730278 TCCTCTGACTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784345 12 - 128539186 TCCCCTGACTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179955 12 +    435186 TCCTCTGACTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573814 12 +   9309688 TCCTCTGACTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405178 12 -  29834108 TCCTCTGACTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857473 12 -   1015025 TCCTCTGACTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877114 11 -   2295209 TCCTCGGACTC-
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5104990 12 +  13104022 CCGTCTGACTCA
i proCoq1.NW_012140524v1    C 0 I 556
s otoGar3.GL873576            4577280 12 -  12054995 TCCTCGGACTGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2418504 12 - 149736546 TGCTTGCTTTCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19731299 12 +  45876710 TCCTCTGAACCA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3015426 600 +  31815103 I
e dasNov3.JH562883             931360 389 -   1687904 I

a score=701742.000000
s hg38.chr12_GL383549v1_alt     88603 74 +    120804 CACACTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGAA-GCTGCCTTGCC-CCTCTGTGGCAGATA
s panTro5.chr12              62780163 74 + 137163284 CACACTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGAA-GCTGCCTTGCC-CGTCTGTGGCAGATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903900 74 + 135337776 CACACTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGAA-GCTGCCTTGCC-CCTCTGTGGCAGATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119396 74 -  32808036 CACACTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGAA-GCTGCCTTGCC-CCTCTGTGGCAGATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309409 74 +  34552619 CACGCTTAGTTTGATGATCCTTTCGTTCAACGTGGCTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615347 74 - 133663169 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109014927 74 - 137757926 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392872 74 -   7948249 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293437 74 -  10730278 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784357 74 - 128539186 CACACTTAGTTTGATGATTCTTCTCTTCAGTGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       179967 74 +    435186 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGACTTCCTCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573826 74 +   9309688 CACACTTAGTTTGATGATTCTTCTGTTCAATGTGGCTTCATCTAGGAA-GCGGCCTTGCC-CCTCTGTGGCAGGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405190 75 -  29834108 CATGCTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGAA-GCGGCCTTGCCTTCTCCGTGCCAGGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857485 52 -   1015025 CATGCTTAGTTTGATGATCCTTCTGTTCAATGTGGCTTCCTCTAGGA------------------------AGGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877125 71 -   2295209 ---GCTTAGTTTGATGATCCTTCTATTCAATGTGGCTTCCTCTAGGAA-GCGGCCTTGCC-CCTCCGTGACAGGTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4577292 69 -  12054995 CATGCTTAGCTCAGCCATCTTTCTGTCAAATGTGGCTCCCTCTAGGCA-CCCTACCTGCC------GTAACAGGTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2418516 62 - 149736546 GATGGGTGGTGTGACAGCCTTTCTGTCAAATGTGGCTTCTT------------GCCTGCC--CTCTGTGACAGGGG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19731311 73 +  45876710 GGTACCCAGT-TGACAATCTTTCTGTTTa-tgtagcttcctccgggaaccccaccctgtc-cttctgagacaggta
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3015426 600 +  31815103 I
e proCoq1.NW_012140524v1      5105002 556 +  13104022 I
e dasNov3.JH562883             931360 389 -   1687904 I

a score=4757070.000000
s hg38.chr12_GL383549v1_alt     88677 485 +    120804  
s panTro5.chr12              62780237 485 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60903974 485 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119470 485 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309483 473 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615421 489 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109015001 489 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1392946 489 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8293511 489 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784431 489 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       180041 489 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3573900 489 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405265 501 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       857537 507 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877196 502 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4577361 477 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2418578 473 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19731384 524 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             931749 432 -   1687904  
i dasNov3.JH562883          I 389 C 0
e micMur3.chr21               3015426 600 +  31815103 I
e proCoq1.NW_012140524v1      5105002 556 +  13104022 I

a score=539278.000000
s hg38.chr12_GL383549v1_alt     89162 41 +    120804 GATGCTT-CCTCTGATTTTCAGGATGATAAGTGGTCCCTGCT
s panTro5.chr12              62780722 41 + 137163284 GATGCTT-CCTCTGATTTTCAGGATGATAAGTGGTCCCTGCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60904459 41 + 135337776 GATGCTT-CCTCTGATTTTCAGGATGATAAGTGGTCCCTGCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119955 41 -  32808036 GATGCTT-CCTCTGATTTTCAGGATGATAAGTGGTCCCTGCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309956 41 +  34552619 GATGCTT-CCTCTGATTTTAAGGATGATAAGTGGTCCCTGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615910 41 - 133663169 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCTGCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109015490 41 - 137757926 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCTGCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1393435 41 -   7948249 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCTGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294000 41 -  10730278 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCTGCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784920 41 - 128539186 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCCGCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       180530 41 +    435186 GATGCTT-CCTCTGATTTTGAGGATGATAAGTGGTCCCTGCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3574389 41 +   9309688 GATGCTT-CCTCTGATTTTAAGGATGATAAGTGGTCCCTGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405766 41 -  29834108 GATGCTG-TCTCTGATTTTAAAGATGATAAGTGGTCTCTGCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858044 41 -   1015025 GATGCTT-CCTCTGATTTTAAGGATGATAAGTGGTCTCTGCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877698 41 -   2295209 GATGCTT-CCTCTGATTTTAAGGATGATAAGTGCTGTCTGCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5105558 41 +  13104022 GATGCTG-CCCCTGATTTTAAGGATGATAGCTGGGCTCAGCT
i proCoq1.NW_012140524v1    I 556 C 0
s otoGar3.GL873576            4577838 41 -  12054995 AGTGCTT-CCCTCGATTGTAAGGACGCAAGCTGGGCTCAGCC
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2419051 40 - 149736546 GACATTG-CCTCTGATTTGAAGGGAGATGAGTAG-CTTAGCT
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19731908 41 +  45876710 GACGCTT-CCTCTAATTTTAAGGATTGTAAGTGGTCTCAGCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             932181 42 -   1687904 GATGCTCGCCCTTGACCTTAAGGGTTCTAAGTGGTCTCAGCC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3015426 600 +  31815103 I

a score=5519074.000000
s hg38.chr12_GL383549v1_alt     89203 333 +    120804 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCATTTCACAAACAGGCTACCATCTGCTGCAATGATAAAAACGTTTGGCGTTAAATTTGCTGTGGTTGTCAGTATTGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATCTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGATAATAGGGAATTGAAGTATCCTAAGAGCCAGGCTCCATTTCAGAGCCCTTGTAGGTTGCTATTCCAGGGCAGTGCACACCC
s panTro5.chr12              62780763 333 + 137163284 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCATTTCACAAACAGGCTACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATTGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGATAATAGGGAATTGAAGAATCCTAACAGCCAGGCTCCATTTCAGAGCCCTTGTAGGATGCTATTCCAGGGCAGTGCACACCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60904500 333 + 135337776 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCATTTCACAAACAGGCTACCATCTGCCGCAATGATAAAAACGTTTGGCGTTAAATTTGCTGTGGTTGTCAGTATTGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGATAATAGGGAATTGAAGAATCCTAAGAGCCAGGCTCCATTTCAGAGCCCTTGTAGGATGCTATTCCAGGGCAGTGCACACCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3119996 333 -  32808036 ATTTCAAGTGTGGCAGGGCACACTTGCTCTGTGAAGTGCCATTTCACAAACAGGCTACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATTGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGATAATAGGGAATTGAAGAATCCTAACAGCCAGGCTCCATTTCGGAGCCCTTGTAGGATGCTATTCCAGGGCAGTGCACACCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7309997 333 +  34552619 ATTTCAAGTGTGGCAGAGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACGGGCTACCATCTGCCGCAATGATAAAAATGTTTGGCATTGAATTTGCTGTGGTTGTCAGTATTGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATTGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAAGTAAAGAATCCTAACAGCCAGGCTCCATTTCAGAGCCCTTGTAGGATGCTATTCCAGGGCAGTGCACACCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104615951 333 - 133663169 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACAGGCCACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109015531 333 - 137757926 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACAGGCCACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1393476 332 -   7948249 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCGCAAACAGGCCACCATCTGCCTCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAG-CCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294041 333 -  10730278 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACAGGCCACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100784961 333 - 128539186 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCTGTTTCACAAACAGGCCACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTG-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       180571 333 +    435186 ATTTCAAGTGTGGTAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACAGGCCACCATCTGCCGCAATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGTCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3574430 333 +   9309688 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCCGTTTCACAAACAGGCCACCATCTGCCTCGATGATAAAAACGTTTGGCGTTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTAACAGCCAGGCTCCATTTCAGAGCCCTGGTAGGATGCTATTCCAGGGCAGTGCACACCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11405807 334 -  29834108 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCTTTTTCACAAACAGGTCACCATCTGCTGCAATGATAAAAACGTTTGGCGCTGAATTTGCTGTGGTTGTCAGTATCGATGCGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGGCGATTTGGGAGCACAGAAAAACTTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCGGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTCACAGCCAGGCTCCATTTCAGAGCCCTCGTAGGATGCCATTCCAGGGCAGCGCACACCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858085 333 -   1015025 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCTTTTTCACAAACAGGTCACCATCTGCTGCAATGATAAAGACGTTTGGCACTGAATTTGCTGTGGTTGTCAGTATCGACGGGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGGCGATTTGGGAGCACAGAAAAA-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCGGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTCACAGCCAGGCTCCATTTCAGAGCCCTCGTAGGATGCTATTCCAGGGCAGCGCACACCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1877739 333 -   2295209 ATTTCAAGTGTGGCAGGGCACCCTTGCTCTGTGAAGTGCTGTTTCACAAACAGGTCACCATCTGCTGCAATGATAAAAACGTTTGGCGCTGAATTTGCTGTGGTTGTCGGTATCGACGCGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGGCGATTTGGGAGCACAGAAAAT-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAGGCAGAACAGCTGTGCGGCAG-TTTTACTGTTCTGACGCTGAGAATAGGGAATTAAAGAATCCTCACAGCCAGGCTCCATTTCAGAGCCCTTGTAGGATGCTATTCCAGGGCAGCGTACACCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3016026 333 +  31815103 ATTTCAAGTGTGGAAGGGCATCCTTGCTCTGCGAAGTGCTGTTGCACAAACAGGCCACCATCTGCCGCAGTGATAAAAACGTTTGGCGCTGAATTTGCTGTGGTCGTCAGTATCGACGTGCCTGATATTTAGAACACTCA-CTTTTTTATGGAGCTGATTCGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAAGCAGAACAGCTGTGCCGCAG-TGTTACTGTTCTGAGGCTGAGAATAGGGAATTCAAGAATCCTAACAGCCAGGCTCCCTTTCAGGGCCCTCATAGGATGCTATTCCAGGGCAGTGCACGCCC
i micMur3.chr21             I 600 I 605
s proCoq1.NW_012140524v1      5105599 332 +  13104022 -ATTCAAGTGTGGAAGGGCATCCTTGTTCTGTGAAGTGCTGTTTCACAAACAGGCCACCATCTGCCGCAGTGATAAAAACGTTTGGCGCTGAATTTGCTGTGGTTGTCAGTATCGACGTGCCTGATATTTAGAACACTTATTTTTTTTATGGAGCTGATTTGGGAGCACAGAAAGC-TTCTGGGAAAACTGCCC-TACATAGCTGCCCTTTACAAGCAGAACAGCTGTGCCGCAG-TTTTACTGTTCTGAGGCTGAGAATAGGGAATTAAAGAATCCTGACAGCCAGGCTCCATTTCAGAGCCCTTATAGGATGCCATTCCAGGGCAGTGCACACC-
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4577880 329 -  12054995 TTTTCAAGTGTGGAAGGGCAT-CTTGCTCTGTGGAGTGCTGTTTCACAAACAGGCCGCCATCTGCCAC---GATGAAAACGTTTGGCACTGAATTTGCTGTGGTTGTCAGCATCTACGTGCCTGATATTTGGAACACTTA-CTTTTTTATGGGGCTGATTTGGGAGCACAGAAAGC-TTCTGGGGAAACTGCCCTTACATCACTGCCCTTTACAGGCAGAACAGCTGTGCCGCCG-TTTTACTGTTCTGAGGCTGAGAATGGGGGATTAATGAATCCAAACAGCCAGGCTCCA-TTCAGAGCCCTCCTAAGATGCTATTCCAGGGCAGCGCATGCCC
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2419095 316 - 149736546 ATTTCCAATGTTGAAGGGCACCCTTGCTCTGGGA-----CGCTTCACAATCAGGCCACCATCTGCCGCAACAATAAAAATGCTTGGCGGTGGATCTGCTGTGGTTGTCAGTATGGATG-GCCTGGTACTCAGCACACTTC-CTACTTTATAGAGCGGATTTGAGAGCATAGAAGCC-TTCTGGGAACTCTGCCC-TGCATAGCTGCCCTTTACAGCGAGAACAGCTGTGCTG--G-GTTTGCTGCTCAGAGGCTGAGAAGAGGGAGTTAAAGAGTTCTCGAAGCCAGGCTC--TCTCAGAGACCTCTGGAGTTACAGTTCCA-------GCACTTCC
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19731949 306 +  45876710 ATTTCAAGTGTTGAAAAGCATCCTTGCTCTGAGAAATGCTGTTTCACAAAGAGGCCACCATCTGCCACAAAGATAAAAACGTTTGGTGCTGAATTT-CTGTGGTTGTTGGTATCGACATGCCTGATATTTAGAACACTTA-CTTTTTTATGGAGCTGATTTGGGAGCACAGAAGGC-TTCTGGGAGTATTGCCC-TACATAGCTGCCCTTTACAACCAGAACAGCTGGGCCACAGTTTTTACTGTTCTGAGGCTGAGAATAGGGAAGTAGAGAA---------------------------CCCTCGCCAGATGCTATTCCAGGGCAGTGCACACTC
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             932223 331 -   1687904 ATTTCAAGTGTTG-AAGACATCCTTGCTCCGTGAAATGTTGTTTCACAAACGGGCCACCATCTGCCGCAAACCCAAAAATGTTTGGTGCTGCATTTGCTGGGGTTGTCAGAATCATCATGTCTAATATTTAGAACACTCG-CTTTTTTATGGAGCTGCTATCAGAGCACAGAAAGT-TTCTGGGAGTTCTGCCC-TACATAGCTGCCCTTTACACCCAGAACAGCTGTGCCACAG-TTTTACTGTTCTGAGGCCGAGAACAGGGAA-CAAAGAATCCTACCAGCCAGGCTCCACTTCAGATCCTTCACAGGATGCTATTCCAGGGCCCTGCACGCTC
i dasNov3.JH562883          C 0 C 0

a score=2937160.000000
s hg38.chr12_GL383549v1_alt     89536 263 +    120804 -CATCTG-CCCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCATCACATTGCACGTCAATGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCAtagtggatatacatctcggtt------cacaagtctgacgtgcaagaaagatgtttc--cttga--gtattttttcttat---taacaacttcatttctacttagagttcctatttcttggaagccgcagaaatttgattattcgttcagtctgaat-cctttttctcaagggttgc
s panTro5.chr12              62781096 263 + 137163284 -CATCTG-CCCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCTTCACATTGCACGTCAATGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCAtagtggatatatatcttggtt------cacaagtctgacgtgcaagaaagatgtttc--cttga--gtattttttcctat---taacaacttcatttctacttagagttcctatttcttggaagccgcagaaatttgattattcgttcagtctgaat-cctttttctcaagggttgc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60904833 263 + 135337776 -CATCTG-CCCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCTTCACATTGCACGTCAACGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCAtagtggatatacatctcggtt------cacaagtctgacgtgcaagaaagatgtttc--cttga--gtattttttcctat---taacaacttcatttctacttagagttcctatttcTTGGAAGCCGCAGAAATTTGATTATTCGTTCAGTCTGAAT-CCTTTTTCTCAAGGGTTGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3120329 263 -  32808036 -CATCTG-CCCTAGCTTTCCGGCTTTGTTTTGATTTTAGTTCTTCACATTGCACGTCAATGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCAtagtggatatacatcttggtt------cacaagtctgacgtgcaagaaagatgtttc--cttga--gtatttttccctat---taacaacttcatttctacttagagttcctatttcttggaagccgcagaaatttgattattcgttcagtctgaat-ccttttcctcaagggttgc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7310330 264 +  34552619 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCTTAACATTGCACGTCAATGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATACATCTCGGTT------CACAAGTCTGACATGCAAGAAAGATGTTTC--CTTGA--GTATTTTTTCCTAT---TAACAACTTCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCCACAGAAATTTGATTATTCGTTCAGTCTGAAT-CCTTTTTCTCAAGGGTTGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104616284 264 - 133663169 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAACTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATCCATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAGCAACCGCATTTCTACTTAGAGTTCCTATTTCTTGAAAGCAGCAGCAATTTGATTATTCGTTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109015864 264 - 137757926 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAACTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATCCATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAGCAACCGCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCTGCAGCAATTTGATTATTCGTTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1393808 264 -   7948249 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAACTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATCCATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAGCAACCGCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCTGCAGCAATTTGATTATTCGTTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294374 264 -  10730278 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAACTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATACATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAGCAACCGCATTTCTACTTAGAATTCCTATTTCTTGGAAGCTGCAGAAATTTGATTATTCGTTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100785294 264 - 128539186 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAACTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATACATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAACAACCTCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCTGCAGAAACTTGATTATTCATTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       180904 264 +    435186 -CATCTGCCCCTAGCTTTCCAGCTTTGTTTCGATTTTAGTTCTTCACATTGCACATCaatgttaactttttaaa-agttaagttttaactttttaaAGTACCATAGTGGATATACATCTCGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAGCAACCGCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCTGCAGAAATTTGATTATTCGTTCAGTCTGAAT-CCTTTTTCTCAAGAGTTGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3574763 264 +   9309688 -CATCTGCCCCCAGCTTTCCAGCTTTGCTTCGATTTTAGTTCTTCACATTGCACATCAATGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTACCATAGTGGATATACATCTTGGTT------CACAAGTCTGATGTGCAAGAAAAATGTTTC--CTTGA--GTATTTTTTCCTGT---TAACAACCTCATTTCTACTTAGAGTTCCTATTTCTTGGAAGCTGCAGAAATTTGATTATTCGTTCAATCTGAAT-CCTTTTTCTCAAGGGTTGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406141 263 -  29834108 -CATCTGCACCTAGCTTTCCGGCTTTGTTTTGATTTTAGTTCTTAACATTGCACATCAGTGTTAAGTTTTTAAA-TGTTAAGTTTTAACTTTTTAAAGTGCCATAATGGATATATAT-TCGGTT------CACAAGTCTGATGTGCAAGAAAAGTGTTTC--CTTGA--GTATTTTTTCCTAT---TAACAACTTCATTTCTATTTAGAGTTCCTATTTCTTGGAAGCTGCAGAAATTTGATTATTCGTTCAGTTTGAAT-CCTTTTTCTCAAGGGTTTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858418 263 -   1015025 -CACCTGCACCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCTTAACATTGCACATCAGTGTTAAGTTTTTTAA-TGTTAAGTTTTAACTTTTTAAAGTGCTATAGTGGATATATAT-TTGGTT------CACAAGTCTGATGTGCAAGAAAAGTGTTTC--CTTGA--GTATTTTTTCCTAT---TAACAACTTCATTTCTATTTAGAGTTCCTATTTCTTGAAAGCTGCAAAAATTTGATTATTCGTTTAGTTTGAAT-CCTTTTTCTCAAGGGTTGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878072 261 -   2295209 -CATCTGCACCTAGCTTTCCAGCTTTGTTTTGATTTTAGTTCTTAACATTGCACGTCagtgttaagtttttaaa-tgttaagttttaac-ttgtaaAGTGCCAT-GTGGATATATAT-TTGGTT------CACAAGTCTGATGTGCGAGAAAAGTGTTTC--CTTGA--GTATTTTTTCCTAT---TAACAACTTCATTTCTATTTAGAGTTCCTATTTCTTGGAAGCTGCAGAAATTTGATTCTTCGTTCAGTTTGAAT-CCTTTTTCTCAAGGGTTGC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5105931 242 +  13104022 -CGTCTGCACCTAGATTTCCGGTGTTGTTTTCATTTTAGTTCTTAACGTTGCATGTCAATGTGAAGC-----------------------TTTTAAAATACCAtagtggatacacatctcagtc------cacaagcctgatgtgcaagaaaagtatttt--cttga--gttttgctttccctctaaaacaactttatgtctattttgagttcctatttcttgggagctgcagaagt----ttatccgttcagttggaatccccttttctcaagggttgc
i proCoq1.NW_012140524v1    C 0 I 21
s otoGar3.GL873576            4578209 242 -  12054995 --ACCCACACCTAGCTTCCCAGGGCTGTTTTCATTTTGGTTCTCAACATTGTACGTCAATGTAAAGC-----------------------TTTTAAAATACCATCGTGGATGTACATCTCCTCC------CACAAGACTAATGTGCAAGAAAAATATTTT--CTTGAGGGTTTTTTTTTTCCT-----ACAACTTTTTTTCTAGCTTGAATCCTGATTTCTTGGGTGCTACAGAAGTTTGATTATTAGTTCAGTTGGAATCCCCTTTTCTCATGGGTCAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2419411 226 - 149736546 -------------------AAGTTTTGTC----TTTCAAGTTTTACTTTTGCCCACCACTGTCAAGTTTTTAAAGCGTCACTGTGTCCCTACTGGTGACAGCATGCCAGCCATATATCCCATTTCATCACCACATGCCCGAC-TGGAAGGAGCATGGCTC--CTCT---TTGTCTCTTCACTC---TAAC----TCACTCCT-CTTTGAGCT---------------CTGTAGATGTTTA--TGTTAACTCCTTTGGAGTCCCCATTTCTCCTGGGTTAC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19732256 233 +  45876710 -AGTCCGCACCTAGTTTTCCAGCTTCGTTTTCATTTTAGTTGTTAACATTTTA----------AAGTTTTTAAA----------------------GTTACTATAATGAATACCTatttcaggc------cacaacaccgatatgcaaggcaaatgtttttatttat--ttatttttttctat----accaactgaatttctattttgagtt-ctattgcttgcg-gccacagaaatttgattattagttcagctgaaatccctttttctcaagggttat
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             932554 234 -   1687904 CAGCTCGCACCCGGCTTTCCAGCTCTGGTTCCATTTTAGCTCCTCACGTTGCATATCCATTTGAAGTTCTTAAA-----------------------GTACCATCAcggatatacatctcagtc------cacac-cctgctgtgtaaggaaaa---ctg--tttat--gcaggttttcctga----aacaactt-atttctatttcgagctcctctttctcagagggtgcataaatctaa-cacccacccatctggagtcccctgtcctccggggt---
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3016359 605 +  31815103 I

a score=129414.000000
s hg38.chr12_GL383549v1_alt     89799 21 +    120804 aatggaagatttgag---------------------gattca-
s panTro5.chr12              62781359 21 + 137163284 aatggaagattcaag---------------------gattca-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905096 21 + 135337776 AATGGAAGATTTGAG---------------------GATTCA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3120592 21 -  32808036 aatggaagattcgag---------------------gattca-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7310594 21 +  34552619 AATGGAAGATTCGAG---------------------GATTCA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104616548 42 - 133663169 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCAGAGGGTTCA-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016128 42 - 137757926 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCAGAGGGTTCA-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394072 42 -   7948249 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCAGAGGGTTCA-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294638 42 -  10730278 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCAGAAGGTTCA-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100785558 42 - 128539186 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCCGAGGGTTCA-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181168 42 +    435186 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCAGAGGGTTCA-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575027 42 +   9309688 AATAGAAGATCCGAGGGTTCCAAGAGAAGATCCGAGGGTTCA-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406404 20 -  29834108 -GTGGACAATCCGAA---------------------GGTTCA-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858681 20 -   1015025 -GTGGACGATCCTAA---------------------GGTTCA-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878333 20 -   2295209 -ATGGACGATCCAAA---------------------GGTTCA-
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4578451 21 -  12054995 AAGAAGGGCTTGCAG---------------------GGTTCA-
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2419637 16 - 149736546 -----ATGTGTCGAC---------------------AACTCC-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19732489 20 +  45876710 -atgagagatccaag---------------------ggttca-
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             932788 15 -   1687904 -------gatgcgag---------------------gactccC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3016359 605 +  31815103 I
e proCoq1.NW_012140524v1      5106173 21 +  13104022 I

a score=3070903.000000
s hg38.chr12_GL383549v1_alt     89820 260 +    120804 acaatgtcaagctggtgtggag----tctgg--gatgtgcctggttctccatgcg-tc-tgtctttgccgagtcatctgtgggccc---------tcaggca--tggatc-ct---ccagctcact---------------------------tggccacttccggtg----cca-ccctttggaggaggggaatcattctgtgGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACTGCAGAGCCATTTCCTTTCTAAAGCTGTGTGAC---CTCCAGGGG
s panTro5.chr12              62781380 260 + 137163284 acaatgtcaagctggtgtggag----tctgg--gatgtgcctggttctccatgca-tc-tgtctttgctgagtcatctgtgggccc---------tcaggca--tggatc-ct---ccagctcact---------------------------tggccacttccggtg----cca-ccctttggaggaggggaatcattctgtggttttctggctagggtagagtgtgggattctcagtgaggctctctatggtcttgtttgccaaggctcactgcagagccatttcctttctaaagctgtgtggc---ctccggggG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905117 260 + 135337776 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGCCTGGTTCTCCATGCG-TC-TGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCATTGCAGAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCCGGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3120613 260 -  32808036 acaatgtcaagctggtgtggag----tctgg--gatgtgcctggttctccatgcg-tc-tgtctttgccgagtcatctgtgggccc---------tcaggca--tggatc-ct---ccagctcact---------------------------tggccacttccggtg----cca-ccctttggaggaggggaatcattctgtgGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACTGCAGAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCCGGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7310615 260 +  34552619 ACAACGTCAGGCTGGTGTGGAG----TCTGG--GATGTGCCTGGTTCTCCATGCG-TC-TGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCGTTCTGTGTTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGTCTCTCTATGGCCTTGTTTGCCAAGGCTCACTGCAGAGCCACTTCCTTTCTAAAGCTCTGTGGC---CTCCGGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104616590 260 - 133663169 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGTCTGGTTCTCCATGCG-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016170 260 - 137757926 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGTCTGGTTCTCCATGCG-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394114 260 -   7948249 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGTCTGGTTCTCCATGCG-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAAGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294680 260 -  10730278 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGTCTGGTTCTCCATGCG-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCCGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCTAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100785600 260 - 128539186 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GAAGTGTCTGGTTCTCCATGCA-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGGAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181210 260 +    435186 ACAATGTCAAGCTGGTGTGGAG----TCTGG--GATGTGTCTGGTTCTCCATGCG-TC-CGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCCGCTCACT---------------------------TGGCCACTTCCGGTG----CCA-CCCTTTGGAGAAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCAGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAAAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575069 260 +   9309688 ACAATGTCAAGCTGCTGTGGAG----TCTGG--GATGTGCCTGGTTCTCCATGAG-TC-TGTCTTTGCCGAGTCATCTGTGGGCCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTGCCGGTG----CCA-CCCTTTGGAGCAGGGGAATCATTCTGTGGTTTTCTGGCTAGGGTAGAGTGTGGGATTCTCGGTGAGGCTCTCTATGGCCTTGTTTGCCAAGGCTCACGGCAGAGCCATTTCCTTTCTAAAGCTGTGTGGC---CTCTGGGGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406424 260 -  29834108 ACAAGGTCAGGCTGGTGTGGAG----TCTGG--GATGTGCCTGGTTCTCCATGTG-TC-TGTCTTTACCGAGTCATCTGTGGACCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----TCA-CGCTTTGGAGGCAGGGAATCATTCTGTGGTTTTCTGGTTATGGTAGAGTGTGTGATTCTCGGTGAGGCTCTCTGTGGCCTTGTTTGCCAAGGCTCATGGAAGAACCCTTCCCTTTCTAAAGCTGTGTGGC---CTGGGGTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858701 260 -   1015025 ACAAGGTCAGGCTGGTGTGGAG----TCTGA--GAGGTGCCTGGTTATCCATGCG-TC-TGTCTTTACGGAGTCATCTGTGGAGCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----TCATTGCTTTGGAGG-AGGGAATCATTCTGTGGTTTTCTAGTTACGGTAGAGTATGGGATTCTCGGTGAGGCTCTCTGTGGCCTTGTTTGCCAAGGCTCATGGAAGAACCCTTCCCTTTCTAAAGCCGTGTGAC---CTGGGGTAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878353 260 -   2295209 ACAACGTCAGGCTGGTGTGGAG----TCTGG--GATGTGCCTGGTTCTCCACGTG-TC-TGTCTTTACCGAGTCACCTGTGGACCC---------TCAGGCA--TGGATC-CT---CCAGCTCACT---------------------------TGGCCACTTCCGGTG----TCA-CACTTTGGAGGCGGGGAATCATCCTGTGGTTTTCTGGTTAGAGTAGAGTGTGGGATTCTTGGTGAGGCTCTCTGTGGGCTTGTTTGCCAAGGCTCATGGAAGAACCCTTCCCTTTCTAAAGCTGTGTGGC---CTGGGGTGG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5106194 287 +  13104022 acagtctcaagccggtgcggag----cctgaa-gatgtgcctgggtctcagtgtg-tc-tgtgtttgctgagtcatctgtgg-ccc---------tcaggca--tggatc-ct---ccaACTCATTCCTCAGACAGCCAGAGCTCCAGTCTCCTGGCCACTTCCGGTG----CCA-CCCTTTGGAGCAGCGCAAACATCCTGTGGCTTTCTTGCTAGGGTGGAGTGTGGCATTCTCTGTGTGGCTCTCTGTAGCCTTCTTTGCCAAGACTCACTGCGCAGCCATTCCCTGTCTAAGGCTGCGTGGT---CTCCGGGGG
i proCoq1.NW_012140524v1    I 21 I 66
s otoGar3.GL873576            4578473 283 -  12054995 GTGGTGTCGAGCTGGTGTGGAG----CCTGAAGGAGGTGTCTGGGTCTCAGTGTG-TC-TG----TGCTGAGTCATCTGTGGCCCC---------TCACACA--TGGATC-CT---CCAGCCCACT-CTGAGACAGCTAGAGTTCCAGTCTCCTGGCCACTTTCGGTG----CCA--CCTTTGGAGCAGTGCAGACACTCTGTGGCTTTCTTGCTAGGGTGGAGTGTGGGATTCTCTGTGTGGCTCTCGATAGCCTTCTTTGCCAAGACCAAATGCACAGCCATTCCCTTCCTAAGGCTGGATGGC---CTGCAGGAG
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2419653 243 - 149736546 -----------CTACTATAAAGGTATTTCAT--GACAGCCCTCATTCTCAGTGTG-AC-CTTGGTTCTTGACTC-TCTGAGACCGC---------TCTAGCC--TGAGCAGCT---TCAGGTTGCA----------------------------GCCTGGTTTCGG-G----CCA-C----TGGAGCAA--CAACCATTCTGTGGCTTTCTTACTGAGGCTCAGCATGGGATTCTCTGTGCAGCTCT-TGTGACTCTGCCTGCTAAGACTCAAAGCACAGCCATGGTATTTCCACGGCCATATGGCGCACTCCA----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19732510 287 +  45876710 ccaatatcaagctgttgtagtg----tctggg-gaagtatctggttctcCAAGTG-CCGTGTCCTTGCTTAGCGATCTATGGCCCT---------TCCGGCA--TTCTTC-TC---CCAGCTCAGCCCTGAGACAGCCTGAGCCCCTGTCTCCTGGCCATTTTAGGTGAGCTCCA-CCCTTTGGAGCAGCTCAGTCATTCTGTGGCTTTCTTG-TAAATTAGAGTATGGGATTCTCTGTGGG----TCTGTAGCCCTGTTTGCCAATACTCACTGCAAAG-CAGTTCCCTTCTTAGGCTAAGTAGC---TTTCAGGGA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             932803 248 -   1687904 GCAACACCGAGCTGCTGTGGGG----ATGAA----------CTGTTCTCTGCGTGTTC-TTTCTCTGCTAAGTAATCCATGGGTCCATCAGCCGTTCGGGCAGTTTGGCC-TTAAGACAGCCCCAC---------------------------CGGCCG--GCCGTGG----TCA---CTTCAGGGAAGGGCCAGCACCCTGGGGTCTCCTTGCCCAGGTATTCCGTGGTATTGTCCGTGTGGCTCTCCACGGCCCCATTTGC-------------AGAGCCA-TCCCCGTCCGGGGCCGC-CAGC---CTCCAGGGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3016359 605 +  31815103 I

a score=989582.000000
s hg38.chr12_GL383549v1_alt     90080 109 +    120804 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----AGTTTTAGAGCTCACCTGTCAAGGAGGC-TGTGCGG------GCCC-TGCTGTCAAGGACCACTGCCTCAATACCCCCACCCT
s panTro5.chr12              62781640 109 + 137163284 TGGG---GGTCCAGGCACATGTCCTTCAGAGAAGGTG----AGTTTTAGAGCTCACCTGTCAAGGAGGC-TGTGCGG------GCCC-TGCTGTCGAGGACCACTGCCTCAATACCCCCACCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905377 109 + 135337776 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----AGTTTTAGAGCTCACCTGTCAAGGAGGC-TGTGCGG------GCCC-TGCTGTCGAGGACCACTGCCTCAATACCCCCACCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3120873 109 -  32808036 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----AGTTTTAGAGCTCACCTGTCAAGGAGGC-TGTGCGG------GCCC-TGCTGTCGAGGACCACTGCCTCAATACCCCCACCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7310875 109 +  34552619 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----AGTTTTAGAGCTCACCTGTCAAGGAGGC-TGTGCGG------GCCC-TGCTGTCGAGGACCACTATCTCAATACCCCCACCCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104616850 108 - 133663169 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCAG------GGCC-TGCTGTCTAGGACCACTGCCTCAATACCCCCACCC-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016430 108 - 137757926 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCGG------GGCC-TGCTGTCTAGGACCACTGCCTCAATACCCCCACCC-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394374 108 -   7948249 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCGG------GGCC-TGCTGTCTAGGACCACTGCCTCAATACCCCTACCC-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8294940 108 -  10730278 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCGG------GGCC-TGCTGTCTAGGACCACTGCCTCAATACCGCCACCC-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100785860 108 - 128539186 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAAAGGC-TGTGCGG------GCCC-TGCTGTCTAGGACCACTGCCTCAATACCCCCACCC-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181470 108 +    435186 TGGG---GGTCCAGGCACATGTCCTTTAGAGAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCGG------GGCC-TGCTGTCTAGGACCACTGCCTCAATACCGCCACCC-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575329 108 +   9309688 TGGG---GGTCCAGGCACATGTCCTTTAGACAAGGTG----GGTTTTAGAACTCACCTGTCAAAGAGGC-TGTGCGG------GCCC-TGCTGTCTGGGGCCACTGCCTCAATACCCCCACCC-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406684 111 -  29834108 GGGGACAGGTCCAGGCACATGTCCTTTAGAGAAGGTG----TGTTTTAGAGCTCACCTATCAAAGAGGC-TGTGCAG------GTCC-TGCTGTCTAGGACCACTGCCTCAATACCCCCACTT-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       858961 111 -   1015025 GGGGACAGGTCCAGGCACATGTCCTTTAGAGAAGGTG----TGTTTTAGAGCTCACATGTCAAAGAGGC-TGTGCAG------GCCC-TGCTGTCTAGGACCACTGCCTCAATACTCCCACTT-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878613 111 -   2295209 GGGGACAGGTCCAGGCACATGTCCTTTAGAGAAGGTG----TATTTTAGAGCTCACCTGTCAAAGCGGC-TGTGCAG------GCCC-TGCTGTCTAGGACCACTGTCTCAATACCCCCACTC-
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4578756  82 -  12054995 -GGG---GGTCCAAGCCCTTGTCCTCTGGACAAGGTG----GGTTTCAGAGCTCACCTGGCA-------------------------------CCTAGCACCAGTGCCTCATTACCCTGCC---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2419896  88 - 149736546 --GA---GTTCTCAACGAAGGTCCTCTGGAG--GGTG----------AGCGTGCAAAGGTCAAGGAGGC-TAGGAAGAACCCTGATC-TGCTGC------CCTCCCCCACAAT-----------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19732797  96 +  45876710 --------CTTTATCCACATGTCC-----ACCTCCTG----AGTTTTATAGCTCACCTATCGAGGAGGC-CAAGTGG------AACCTTGCTGTGTAGGACCAGTGCCTCACTCTCTCCA----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933051  94 -   1687904 --------CTCTACCCAC-TGTCCT--------GGTCCCCTGGGCTCACGGCCCCCCTGCCAAGGAGGAGTGGGTGGA-----GCCC-TGCTACCTGGGAACCGTGCCCCG-----CCCGCC--
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3016359 605 +  31815103 I
e proCoq1.NW_012140524v1      5106481  66 +  13104022 I

a score=1558012.000000
s hg38.chr12_GL383549v1_alt     90189 126 +    120804 TG--CCCCATCTTTCCTGGGGTCAATCCAGGTG-------ACAATCTGGAGAAACCTAATATTCATCAAACTCTCAACAATTTAAATAA---------TTCCAGAGTCCTTGC-CATTTCCCTAAGGCTGTGGGGTTTTGAA--ACa-
s panTro5.chr12              62781749 126 + 137163284 TG--CCCCATCTTTCCTGGGGTCAGTCTAGGTG-------ACAATCTGGAGAATCCTAATATTCATCAAACTCTCAACAACTTAAATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGGTTTTGAA--ACa-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905486 125 + 135337776 TG--CCCCATCTTTCCTGGGATCAATCCAGGTG-------ACAATCTGGAGAATCCTAATAGTCATCAAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CAttcccctaaggctgtggggttttgaa--ac--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3120982 126 -  32808036 TG--CCCCATCTTTCCTGGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCAAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCACCTAAGGCTGTGGGGTTTTGAA--ACa-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7310984 125 +  34552619 TG--CCCCATCTTTCCTGGGGTCAATCCAGGTG-------ACAATCTGCAGAATCCTAATATTCATCAAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CAttcccctaaggctgtggggttttgaa--ac--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104616958 124 - 133663169 TA--CCCCATCTTTGC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTGAA--AC--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016538 124 - 137757926 TA--CCCCATCTTTCC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTGAA--AC--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394482 124 -   7948249 TA--CCCCATCTTTCC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTGAA--AC--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295048 126 -  10730278 TACCCCCCATCTTTCC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTGAA--AC--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100785968 126 - 128539186 TA--CCCCATCTTTCC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTGAAACAG--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181578 127 +    435186 TACCCCCCATCTTTCC-GGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCATCGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CATTCCCCTAAGGCTGTGGGATTTTCAAA-AC--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575437 125 +   9309688 TG--CCCCATCTTTCCTGGGGTCAATCCAGGTG-------ACAATCTGGAGAATCCTAATATTCACTGAACTCTCAACAATTTAGATAA---------TTCCAGAGTCCTTGC-CAttcccctaaggctgtgggattttgaa--ac--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406795 125 -  29834108 GG--CCCCATCTTTCTTGGGGGCAATCCAGGTG-------ACAATCTGGAAAATCCTAATATTCATCAAGCTCGCAACAATTTAGAAAA---------TTCCAGAGTACTTGC-CATTTCCCTAAGGCTGTGGGATTTTGAA--AG--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859072 123 -   1015025 GG--CCCCATCTTTCTTGGGGGCAATCCAGGTG-------ACAATCTGGAAAATCCTAATGTTCATCAAACTCTCAACAATTTAGAAAA---------TTCCAGAGTACTTGC-CATTTCCCTAAGGCTGTGGGATTTTGAA------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878724 123 -   2295209 GG--CCCCATCTTTCTTGGGGGCAATCCAGGTG-------ACAATCTGAAAAATCCTAATATTCATCAAGCTCTCAACAATTTAGAAAA---------TTCCAGAGTACTTGC-CATTTCCCTAAGGCTGTGGGATTTTGAA------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3016964 125 +  31815103 TG--CCCCACCTTCCCTGGAGGGAATCCAGGTG-------ACAACCTAGAGAACCCTAATACTCATCTGGCTCTCAACAATTTGGATAA---------TTACAGAGTCCTTTC-CATTCCCCTAAGGCTGTGGGATTTTGAA--AC--
i micMur3.chr21             I 605 I 289
s proCoq1.NW_012140524v1      5106547 124 +  13104022 TG--CCCCCTCTTCCCTGGAGGGAATCCAGGTG-------ACAATCTAGAGAACTCTAATACTCATCTGGCTCTCAACAGTTTGGATAA---------TTTCAGAGTCCTTTC-CATTCCCC-AAGGCTGTGGGATTTTGAA--AC--
i proCoq1.NW_012140524v1    I 66 I 359
s otoGar3.GL873576            4578838 132 -  12054995 TG--CCCCAGCTCTCCTGGAGGGAATCCAGGTG-------ACAATCTAGAAAACCCTACCATTCACCTTGCTCTCAACAATTTGGATAGAGGTTTTTTTTTTAATTTTTTTTCACATTCCCC-TAACCTAAGGA--TTTGAA--AC--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2419984 128 - 149736546 ---CCCCTACATTCCCTGGAGGGAG---GGGTGTGTTGTATCAATCCGGACTACCCTGATATCAATCAAATTCCCAACAGTTTGGGTAA---------TTCCCAAATCCCTTC-TGTTCCCCTAAGGCTGTGGGATTTAGGA--AC--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19732893 122 +  45876710 ----CTCCACCTTTCCTGGGGGGAATCCAAGTG-------ATAATCTAGAGAGTTCTAACATT-ATCAGACTCTCAGAAATGTGGATAA---------ttccacagtctttcc-cattcccctaaggtggtgggatttggaa--at--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933145  91 -   1687904 -------------------GGGGGATCTGGGGG-------GCCA-CTGGAGAAGCTTGCCTTCCCGCTAACT--CAGAAATTTGGGTAA---------CGCTATCGTCTTT-C-CATTCC--------------ATTTCTCA--AC-A
i dasNov3.JH562883          C 0 C 0

a score=494706.000000
s hg38.chr12_GL383549v1_alt     90315 58 +    120804 gagagagagagagagagagagagaCTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
s panTro5.chr12              62781875 58 + 137163284 gagagagagagagagagagagagaCTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905611 51 + 135337776 -------agagagagagagagagactccc---ttttttctctcctttgtgctctgccacat--------------------------------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121108 58 -  32808036 gagagagagagagagagagagagaCTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311109 55 +  34552619 ---agagagatagagagagagagactccc---ttttttctctcctttgtgctctgccacat--------------------------------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617082 47 - 133663169 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016662 47 - 137757926 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394606 47 -   7948249 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295174 47 -  10730278 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786094 47 - 128539186 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCATAT--------------------------------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181705 47 +    435186 -----------AGAGAGAGAGAGACTCCC---TTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575562 47 +   9309688 -----------agagagagagagactccc---ttttttctctcctttgtgctctgccacat--------------------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406920 52 -  29834108 ---------AGAGAGAGAGAGAGACTCCCTTTTTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859195 45 -   1015025 -------------AGAGAGAGAGACTCCC---CTTTTTCTCTCCTTTGTGCTCTGCTTCAT--------------------------------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878847 43 -   2295209 ---------------AGAGAGCGACTCCC---CTTTTTCTCTCCTTTGTGCTCTGCCACAT--------------------------------------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4578970 42 -  12054995 ---------------AAGAAGACACTCCC---CTTCACCCCT-CTATGTGCCCTGCCATAC--------------------------------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2420112 43 - 149736546 ---------------TGGAAGAGACTCAT---TTTTTTCTCTCCTCTGTGGTCTGACACAT--------------------------------------------
i mm10.chr6                 C 0 I 216
s canFam3.chr27              19733015 43 +  45876710 ---------------gggaagatactccc---ttttttctcttctttctgctctgccacat--------------------------------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933236 94 -   1687904 -------CACAGGTCGGGAAGAGACTTC----TCGTTTGTCTCCGTTTTGCTCTGCCACGTTCTTTTTCTCTCCTTTCCTTTCCACCTACTGCCCCCACCCCCAT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=1954298.000000
s hg38.chr12_GL383549v1_alt     90373 196 +    120804 TCTTGC--------------CCTGTG----------------------GCCAGGAGAACAGGC--------CAGGA------GTAGGAAGAGAAAAGTGGAAATTGTGGAGGGCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTTCAAAAAtgatctagccacagta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcgaggaagctgag
s panTro5.chr12              62781933 196 + 137163284 TCTTGC--------------CCTGTG----------------------GCCAGGAGAACAGGC--------CAGGA------GTAGGAAGAGAAAAGTGGAAATTGTGGAGGGCAG--ATGGAGAAGGGAGGtgggcatctgttaatatttcagaaatgatctagccacagta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcgaggaagctgag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905662 196 + 135337776 tcttgc--------------cctgtg----------------------gccaggagaacaggc--------cagga------gtaggaagagaaaagtggaaattgtggagggcag--atggagaagggaggtgagcatctgttaatatttcaaaaatgatctagccacaGta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcaaggaagctgag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121166 196 -  32808036 TCTTGC--------------CCTGTG----------------------GCCAGGAGAACAGGC--------CAGGA------GTAGGAAGAGAAAAGTGGACATTGTGGAGGGCAG--ATGGAGAAGGGAGGtgggcatctgttaatgtttcaaaaatgatctagccacagta----cactcattggtctcatgtaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcgaggaagctgag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311164 191 +  34552619 tcttgc--------------cctgtg----------------------gccaggagaacaggc--------cagga------gtag-----gaaaagtggaaattgtggcgggcag--atggagaagggaagtgggcatctgttaatatttcaaaaatgatctagccacaGTa----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcgaggaagctgag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617129 196 - 133663169 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAGGA------GTAGGAAGAGAGAAGTGGAAATTGTGGAGGTCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTTCAAAAAtgatctagccacagta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcccttttcaggcgaggaagctgag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016709 196 - 137757926 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAGGA------GTAGGAAGAGAGAAGTGGAAATTGTGGAGGTCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTTCAAAAAtgatctagccacagta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcccttttcaggcgaggaagctgag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394653 196 -   7948249 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAGGA------GTAGGAAGAGAGAAGTGGAAATTGTGGAGGTCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTCCAAAAATGATCAAGCCACAGta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcccttttcaggcgaggaagctgag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295221 196 -  10730278 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAGGA------GTAGGAAGAGAGAAGTGGAAATTGTGGAGGTCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTTCAAAAAtgatctagccacagta----cactcattggtctcatttaactgtcatgacagctgtgtga-gt--agaagacctcccttttcaggcgaggaagctgag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786141 196 - 128539186 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAGGA------GTAGgaagagagaagtggaaattgtggagggcaa--atggagaagggagGTGGGCATCTGTTAATATTTCAAAAATGATCTAGCCACAGTG----AACTcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcccttttcaagcgaggaagctgag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181752 196 +    435186 TCTTGC--------------CCTGTG----------------------GCCAGGAGAATGGGC--------CAAGA------GTAGGAAGAGAGAAGTGGAAATTGTGGAGGTCAG--ATGGAGAAGGGAGGTGGGCATCTGTTAATATTTCAAAAAtgatctagccacagta----cactcattggtctcatttaactgtcacaacagttgtgtga-gt--agaagacctcccttttcaggcgaggaagctgag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575609 196 +   9309688 tcttgc--------------cctgtg----------------------gccaggagaatgggc--------cagga------gtaggaagagagaagtggaaattgtggagggcaa--atggggaagggagatgggcatctgttaatatttcaaaaatgatctagccacaGta----cactcattggtctcatttaactgtcacgacagctgtgtga-gt--agaagacctcacttttcaggcgaggaagctgag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11406972 197 -  29834108 GTTTGC--------------CCTATG----------------------GCCGGGAGAATGGGC--------CAGGA------GTATAAAGAGAGAATCAGAAATTGCGGAGGGCAG--ATAGAGAAAAGAGGTGGGCATCTGTTCATATTTCAAAAATGATCTAGCCAGAAta----cactcattagtatcatttaactgtcacgacagctgtgtgaagt--agaagacctcacttttcaggtgaggaagctgag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859240 197 -   1015025 GCTTGC--------------CCTATG----------------------GCCAGGAGAATGGGC--------CAGGA------GTATAAAGAGAGAATCGGAAATTGTGGAGGGCAG--ATAGAGAAAAGAGGtgggcacctgctaatatttcaaaaatgatctagccacaata----cactcattggtatcatttaactgtcacgacagctgtgtgaggt--agaagacctcatttttcgggtgaggaagctgag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1878890 197 -   2295209 GCTTGC--------------CCTATG----------------------GGCAGGAGAATGGGC--------CAGGA------GTATAAAGAGAGAATGGGAAATTGTGGAGGGCAG--ATAGAGAAAAGAGGTGGGCATCTGTTAATATTTCAAAAATGATCTAGCCACAAta----cactcattggtatcatttaactgtcacgacagctgtgtgaggt--agaagacctcacttttcaggtgaggaagcagag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4579012 213 -  12054995 TCTTACTTGGATGCAAGGAGCAGGCT----------------------GCCAGGAGAA-AGGC--------CAAAA------GTCTGAACAGAGAAGGGAAATGAGCAGAGGG-GG--GCAGTGGAGAAAGGCAGCCATCAGTTAAGATTACAAAACTCACCTTGGCATCTTGGCTCAGCCCATttgtctcatttaattgtcatggcagctttgtga-gttaggagggcctcacttttcaggtatggacgctg-g
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19733058 211 +  45876710 tcttgc--------------cctgagacaaggaacaggtctagctactgcaaggagaaggtgg--------tagga------ataaagacagaggaggggaaCTTATGGACAGCAGTAGTGGGGAA-------GGACCTCAGGTAATACATAAAAAATTAGCTTGCCACAGTa----tacatatt-gtctcatttgattctcataacagttctgtgaggt--aaacaatcttacttcacaggtgaggaaac--ag
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933330 174 -   1687904 TCTTGC--------------CCTGGA----------------------GCAAAGAGCAGATGCAGTCTATGCAGAAGACAGGGCAAGGAAGGAGAAGGGGGGATTGTGGAGGG-AG--GTGGGGGGGAGATG---------GCGAATATTTCTAAAATGTTCTGGCCGCCAGG----CAGCC---------------------------TTGTCTGAGGT--CGCTCTCCCCGCCTTTCAGACGAGGGCACCGAG
i dasNov3.JH562883          C 0 I 154
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=3302123.000000
s hg38.chr12_GL383549v1_alt     90569 380 +    120804 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttactgggaaggtggcagaacggaaacccagtctccacaccccacatgcagtgctctttctgccacacactgcgttccaggtgaactggactcctcgctgtctt-cattcacagcttcttcctgcatatctttgcgcctttctccatgctc-----------tggaatgttcccctcaccatcaccacctgtcagagtcctccccatcatacattcca---gaaggcttttctcgtcacttgcggcagcagtga-cttctccctccaaaacctttggacagcggct--c--ccctcacgctgcctc-tgctatgctgctctgtcag---ggtcatgtgtgctcagatctta
s panTro5.chr12              62782129 380 + 137163284 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttactgggaaggtggtggaacggaaacccagtctccacaccccacatgcagtgctctttctgccacacactgcgttccaggtgaactggactcctcgctgtctt-cattcacagcttcttcctgcatatctttgcgcctttctccatgctc-----------tggaatgttcccctcgccatcaccacctgtcagagtcctccccatcatacattcca---gaaggcttttcttgtcacttgcggcagcagtga-cttctccctccaaaacctttggacagcggct--c--ccctcacgctgcctc-tgctatactgctctgtcag---ggtcatgtgtgctcagatctta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60905858 380 + 135337776 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttactgggaaggtggcggaatggaaacccagtctccacaccccacacgcagtgctctttctgccacacactgcgttccaggcaaactggactcctcgctgtctt-cattcacagcttcttcctgcatatctttgcgcctttctccatgctc-----------tggaatgttcccctcaccatcaccacctgtcagagtcctccccatcatacattcca---gacggcttttctcgtcacttgcggcagcagtga-cttctccctccaaaacctttggacagcggct--c--ccctcacgctgcctc-tgctatgctgctctgtcag---ggtcatgtgtgctcagatctta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121362 379 -  32808036 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttg-tttttactgggaaggtggcagaacggaaacccagtctccacacgctacacgcagtgctctttctgccacacactgcgttccaggtgaactggactccttgctgtctt-cattcacagcttcttcctgcatatctttgcgcctttctccatgctc-----------tggaatgttcccctcgccatcaccacctgtcagagtcctccgcatcatacattcca---gaaggcttttctcgtcacttgcggcagcagtga-cttctccctccaaaacctttggacagcggct--c--ccctcacgctgcctc-tgctatgctgctctgtcag---ggtcatgtgtgctcagatctta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311355 380 +  34552619 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggcggaacagaaacccagtctccacaccctacacccagtgctctttctgccacacactgcGTTCCAGGCTAACTGGACTCCTCGCTGTCTT-CATTCACAGCTTCTTCCTGCATATCTTTGCGCCTTTCTCCATGCTC-----------TGGAATGTTCCCCTCGCCATCACCACCTGTCAGAGTCCTCCCCATCATACATTCCA---GGAGGCTTTCCTCGTCACTTGGGGCAGCAGTGA-CTTCTCCCTCCAAAACCTTTGGACAGCGGCT--C--CCCTCACGCTGCCTC-TGCTATGCTGCTCTGTCAG---GGTCATGTGTGCTCAGATCTTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617325 363 - 133663169 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacacccagcgctcttcccaccacacactgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccatgctc-----------tggaatgttctcctcgccatcaccacccgtcagagtcctccccatcatatggtccc---gaaggcttttctcatt------------------cttctccctccaaaaccttTGGACAGCGGCT--C--CCCTCACGCTGCCTC-TGCTTTGCCACTCTGTCAG---GGCcatgtgtgctcagatctta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109016905 363 - 137757926 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacacccagcgctcttcccaccacacactgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccacgctc-----------tggaatgttctcctcGCCATCACCACCCGTCAGAGTCCTCCCCATCATATGGTCCC---GAAGGCTTTTCTCATT------------------CTTCTCCCTCCAAAACCTTTGGACAGCGGCT--C--CCCTCACGCTGCCTC-TGCTTTGCCACTCTGTCAG---GGCCATGTGTGCTCAGATCTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1394849 363 -   7948249 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacccccagcgctcttcccaccacacactgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccatgctc-----------tggaatgttctcctcgccatcaccacccgtcagagtcctccccatcATATGGTCCC---GAAGGCTTTTCTCATT------------------CTTCTCCCTCCAAAACCTTTGGACAGCGGCT--C--CCCTCACACTGCCTC-TGCTTTGCCACTCTGTCAG---GGCcatgtgtgctcagatctta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295417 363 -  10730278 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacactcagcgctcttcccaccacatactgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccatgctc-----------tggaatgttctcctcgccatcaccacctgtcagagtcctccccatcatatggtccc---gaaggcttttctcatt------------------cttctccctccaaaacctttggacagcagct--c--ccctcacgctgcctc-tgctttgccactctgtcag---ggccatgtgtgctcagatctta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786337 363 - 128539186 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-ttttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacacccagcgctcttcccaccacacaccgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccatgctc-----------tggaatgttctcctcGCCATCACCACCTGTCAGAGTCCTCCCCATCATATGGTCCC---GAAGGCTTTTCTCATT------------------CTTCTCACTCCAAAACCTTTGGACAGCGGCT--C--CCCTCACGCTGCCTC-TGCTTTGCCACTCTGTCAG---GGCCATGTGTGCTCAGATCTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       181948 363 +    435186 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactg-tcttgttttttattgggaaggtggtggaacggaaacccagtctccacaccccacactcagcgctcttcccaccacacactgcgttccaggcgaaccggactcctcactgtctt-cattcacagcttcttcctgcatatctttgcacttttctccatgctc-----------tggaatgttctcctcGCCATCACCACCTGTCAGAGTCCTCCCCATCATATGGTCCC---GAAGGCTTTTCTCATT------------------CTTCTCCCTCCAAAACTTTTGGACAGCAGCT--C--CCCTCACGCTGCCTC-TGCTTTGCCACTCTGTCAG---GGCCATGTGTGCTCAGATCTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3575805 364 +   9309688 acttagaaaggctaagtcatctgttcag--------tgccagtct--------ggcactgttttttttttttattgcgaaggtggtggaacggaaacccagtctccacatcccacacccagcgctcttcccaccacacactgcgttccaggcgaactggactcctcactgtctt-cattcacagcttcttcctgcatatctttggacctttctccatgctc-----------tggaatgttctcctcACCATCACCACCCTTCAGAATCCTCCCCATCATATGTTCCA---GGAGGCTTTTCTCATT------------------CTTCTCTCTCCAAAACCTTTGGACAGCGGCT--C--CCCTCACGCTGCCTC-TGCTTTGCCACTCTGTCAG---GGCCATGTGTGCTCAGATGTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407169 374 -  29834108 acctagaaaggctaagtcatatgttcag--------tgccagtgt--------ggcactg-tttcgttttttatagggaaagtgggggaaggtaaaccaagtctccacaccccagacccagtgctcttttcacaacacgcagcGTTCCAGTTGAACTGGATTCCTCCCTCTCTT-CATTCACAGCTTCTTCCTGCATATCTTTGGACCTTTCTCCATGCTC-----------CGGAATGTTCTCCTTGCCATCGCAACCTGTCAGAGTCCTCCCCATCATACGTTCTG---GAAGGCTTTTCTCATCACTTAGGGCAGCAGTGA--------TGAGAAAACCTTTAGACATCAGCT--C--CCCTCACACTGCCTCTTGCTATGCCGCTCTGTCAG---GGTCATGTGTACTCAGATCTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859437 367 -   1015025 acttagaaaggctaagtcttatgttcag--------tgccagtct--------ggcactg-ttttgttttttatcgggaaggtgggggaaggtgaaccaagtctccacaccccagacccagtgctctttccataacacgcagcGTTCCAGGTGAACTGGATTTCTCCCCATCTT-CATTCACAG-------CTGCATATCTTTGGACCTTTCTCCATGCTC-----------CAGAATGTTCTCCTTGCCACAGCAACCTGTCAGAGTTCTCCCCATCATATGTTCTG---GAAGGCTTTTCTCATCACTTAGGGCAGCAGTGA--------TGAGAAAACTTTTAGACATCGGCT--C--CCCTCACACTGCCTCTTGCTATGCCGCTCTGTCAG---GGTCATGTGTACTCAGATCTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879087 374 -   2295209 acttagacaggctaagtcatatattcag--------tgccagtgt--------ggcactg-tcttgttttttatcgggaaggtgggggaaggtaaaccaagtctccacaccccagacccagtgctctttccataacacTCAGCGTTCCAGGTGAACTGGATTCCTCCCGGTCTT-CATTCACAGCTTCTTCCTGCATATCTTTGGACTTTTCTCCATGCTC-----------TGGAATGTTCTCCTTGCCATGGCAACCTGTTAGAGTCCTCCCCATCATATGTTCTG---GAAGGCTTTTCTCATCACTTAGGGCAGCAGTGA--------TGAGAAAACCTTTAGATGTTGGCT--C--CCCTCACACTGCCTCTTGCTATGCCGCTCTGTCAG---GGTCATGTGTACTCAGATTTTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4579225 382 -  12054995 acttagaaaggctaagtgatatgccTGG--------TGCCTGTCTCCCAGCTCAGCACCA-TTTCTTCCTTCTTCTGGAAGGTGGAGG-------ATGCGATCTCCAC-CGCCAGACCCTGCACTCTTCCCACCACACCCTGCCTTCCA--------GGACTCCCCACCATCTC-CCTTCTCGGCTCATATCCACCCACCTTCACACCTTTCTCCACACTCTCCTCTCCCTGTGGAATGCCCTCCCCACCTTCTCAACATGTCAAGAGCCTATCTAACACGTGGTCTCCGGGACGCCTTTTCTCACCATTCGGGGCAGCAGTGACTTTCCCGCTGCAAACCCACGAGACATGGGCT--CCTCCCTCAGGTGGCCTT-CA---------TCTG-CAGACAGGCTGTTCATGCTCACATCTGG
i otoGar3.GL873576          C 0 I 13
s canFam3.chr27              19733269 345 +  45876710 atttagaaagcttaagtaaTACATCGGGCATTTGCATCCCAGTTT--------GGCACTG-TTTTATTCTCCATCCAGAAGGC-CTGGGATCCAAACCCTGTCTCCACACCACAGACCTGCTTCTTT-----------------------GCACACTGGACTTGTCTCCATCTTCCATCCACGGCCTTCTCCCACTTCTTCATGTTCTCCTCACCTTG--------------TAAAAGGTCCATCTCACTATTTTAACCTGATAAAATCCTCCCCATCATACATTTTCCACAAAGCCTTTTCTGATCACTTCAGGCAGCAATGACCTTCTTTTTCCAAACCCTTGGAACACTGGCTGCC--ACCTCCCACTGCCTC-TCCTACACTGCTCT-TCAT-------------------------
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             933504 154 -   1687904 I

a score=853461.000000
s hg38.chr12_GL383549v1_alt     90949 119 +    120804 ttgcacccacaat-----------ttt-tttttga--cagagtctggctctgtctcccaggctg----------------------------------------gagtgcaatggtgcgatctcagctcactgcagcctctgcttcctaggttcaagtgattctcatgcctca
s panTro5.chr12              62782509 119 + 137163284 ttgcacccacaat-----------ttt-tttttga--cagagtctggctctgtctcccaggctg----------------------------------------gagtgcagtggtgcgatcccagctcactgcagtctctgcttcctaggttcaagtgattctcatgcctca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906238 119 + 135337776 ttgcacccacaat-----------ttt-tttttga--cagagtctggctctgtctcccaggctg----------------------------------------gagtgcagtggtgcgatctcagctcactgcagcctctgcttcctaggttcaagtgattctcatgcctca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121741 119 -  32808036 ttgcacccacaat-----------ttt-tttttga--cagagtctggctctgtctcccaggctg----------------------------------------gagtgcagtggtgcgatctcagctcactgcagcctctgcttcctaggttcaagtgattctcatgcctca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311735 119 +  34552619 TTGCACCCACAAt-----------ttt-tttgtga--cagagtctgactctgttgcccaggctg----------------------------------------gagtgcagtggtgcgatctcagctcactgcagcctctgcttcctaggttcaagtgattctcatgcctca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617688 118 - 133663169 ctgcacccaacat-----------ttt-tttttga--cagggtctggctctgtcacccaggctg----------------------------------------gagggcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017268 118 - 137757926 CTGCACCCAACAt-----------ttt-tttttta--cagggtctggctctgtcacccaggctg----------------------------------------gagggcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395212 118 -   7948249 ctgcacccaacat-----------ttt-tttttga--cagggtctggctctgtcacccaggctg----------------------------------------gagggcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295780 118 -  10730278 ctgcacccaacat-----------ttt-tttttga--cagggtctggctctgtcacccaggctg----------------------------------------gagggcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786700 119 - 128539186 CTGCACCCAAAAt-----------tttctttttga--cagggtctggctctgtcacccaggctg----------------------------------------gagtgcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattcttgtgcctca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182311 158 +    435186 CTGCACCCAACAt-----------ttt-tttttga--cagggtctggctctgtcacccaggctggagggcagtggtgcaatctcagctcatgcagcctcTGTCAgagggcagtggtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576169 118 +   9309688 CTGTACCCATAAT-----------CTC-tttttga--ccaggtctggctctgtcacccaggctg----------------------------------------gagtgcagcagtgcaatctcagctca-tgcagcctctgtctcctaggttcaagtgattctcgtgcctca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407543 132 -  29834108 CTGCACACACTAGATGACAAGAGCCtt-tttttgacacagagtctcgctgtttctcccagggtg----------------------------------------gagtgcagtggtgcgatctcagctcactgcagcctctgcctcctgggttcaagtgattctcgtgcctca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859804 132 -   1015025 TTGCATGCGCTAGATGACAAGACCttt-tttttgacacaaagtctggctgtttcttccaggttg----------------------------------------gagtgcagtggtgcagtctcagctcactgcagcctctgcctcctgggttcaaatgattcttgtgcctca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879461 130 -   2295209 CTGCATGCACTAGATGGCAAGA--ttt-tttttgacccagagtctggctgtttctcccaggttg----------------------------------------gagtgcagtggtgcgatctcagctcactgcagcctctgcctcctgggttcaagtgattcttgtgcctca
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19733614  25 +  45876710 --------------------------------------------------------------------------------------------------------------------------------------CACCATTATTT--------------ATGCTCATGTCTCA
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4579607  13 -  12054995 I
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             933504 154 -   1687904 I

a score=826568.000000
s hg38.chr12_GL383549v1_alt     91068 92 +    120804 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatgtctgta-tttttgttaatagtagagaggaggctttgccatgt
s panTro5.chr12              62782628 92 + 137163284 gcctcccaagtagctgggattacaggcatgcgccaccatgcctggctaatgtctgta-tttttgttaatagtagagaggaggctttgccatgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906357 92 + 135337776 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatgtctgta-tttttgttaatagtagagaggaggctttgccatgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121860 92 -  32808036 gcctcccaagtagatgggattacaggcatgcgccaccatgcctggctaatgtctgta-tttttgttaatagtagagaggaggctttgccatgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311854 92 +  34552619 accgcccaagtagctgggattacaggcatgcgccaccatgcctggctaatttctgta-tttttgttaatagtagagaggaggctttgccatgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617806 92 - 133663169 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatttctgta-tttgtcttaatagtagagaggaggctttgccatgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017386 92 - 137757926 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatttctgta-tttgtcttaatagtagagaggaggctttgccatgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395330 92 -   7948249 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatttctgta-tttgtcttaatagtagagaggaggctttgccatgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295898 93 -  10730278 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatttctgtattttttcttaatagtagagaggaggctttgccatgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786819 92 - 128539186 gcctcccaagtagctgagattacaggcatgcaccaccatgcctggctaatttctgta-tttttcttaatagtagagaggaggctttgccatat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182469 93 +    435186 gcctcccaagtagctgggattacaggcatgcaccaccatgcctggctaatttctgtattttttcttaatagtagagaggaggctttgccatgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576287 92 +   9309688 gcctcccaagtagctgggatcacaggcatgcaccaccacgcctggctaatttctgta-tttttcttaatagtagagaaaaggctttgccatgt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407675 92 -  29834108 gcctcccaagtagctgggattacaggcatatgccaccatgcctggctaatttttgta-ttcttattaatagtagagaggaggcttggccatgt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       859936 92 -   1015025 gcctcccaagtagctgggattacaggcatatgccaccatgcctggctaatttttgta-tttttattaatagcagagaggaggcttggccatgt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879591 92 -   2295209 gcctcccaagtagctgggattacaggcatatgccaccatgcctggctaatttttgta-ttcttattaatagtagagaggaggcttggccatgt
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4579607 13 -  12054995 I
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e canFam3.chr27              19733639  0 +  45876710 C
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             933504 154 -   1687904 I

a score=256427.000000
s hg38.chr12_GL383549v1_alt     91160 28 +    120804 tggccaggctggtcttgaatgcctggcc
s panTro5.chr12              62782720 28 + 137163284 tggccaggctggtcttgaatgcctggcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906449 28 + 135337776 tggccaggctggtcttgaatgcctggcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121952 28 -  32808036 tggccaggctggtcttgaatgcctggcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311946 28 +  34552619 tggccaggctggtcttgaatgcctggcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617898 28 - 133663169 tggccaggctggtcttgaacacctggcc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017478 28 - 137757926 tggccaggctggtcttgaacacctggcc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395422 28 -   7948249 tggccaggctggtcttgaacacctggcc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8295991 28 -  10730278 tggccaggctggtcttgaacacctggcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786911 28 - 128539186 tggccaggctggtcttgaacacctggcc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182562 28 +    435186 tggccaggctggtcttgaacacctggcc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576379 28 +   9309688 tgaccaggctggtcttgaacacctggcc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407767 28 -  29834108 tggccaggctgttctcaaatgcctggcc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860028 28 -   1015025 tggccaggatgttctcaaatgcctggcc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879683 28 -   2295209 tggccgggctgttctcaaatgcctggcc
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             933658 23 -   1687904 TGAGCAGGCAGCCCTT-----CCCGGCC
i dasNov3.JH562883          I 154 C 0
e otoGar3.GL873576            4579607 13 -  12054995 I
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e canFam3.chr27              19733639  0 +  45876710 C
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=529047.000000
s hg38.chr12_GL383549v1_alt     91188 68 +    120804 tcaagtgatcc---------gcctgcctcggcctcccaaagtgctggaattacaggtgtc-agccaccgcacctgccc
s panTro5.chr12              62782748 68 + 137163284 tcaagtgatcc---------gcctgcctcggcctcccaaagtgctggaattacaggtgtg-agccaccgcacctgccc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906477 68 + 135337776 tcaagtgatcc---------gcctgcctcggcctcccaaagtgctggaattacaggtgtg-agccaccgcacctgccc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3121980 68 -  32808036 tcaagtgatcc---------gcctgcctcggcctcccaaagtgctggaaatacaggtgta-agccactgcacctgccc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7311974 68 +  34552619 tcaagtgatcc---------gcctgcctcggcctcccaaagtgctggaattacaggtgtg-agccactgcacctgccc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617926 68 - 133663169 tcaagtgatcc---------acctgcctcagcctcccaaagtactggaattgcaggtgtg-aaccaccgcacctccgc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017506 68 - 137757926 tcaagtgatcc---------acctgcctcagcctcccaaagtgctggaattgcaggtgtg-aaccaccgcaccTCCGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395450 68 -   7948249 tcaagtgatcc---------acctgcctcagcctcccaaagtgctggaattgcaggtgtg-aaccaccgcacctccgc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296019 68 -  10730278 tcaagtgatcc---------acctgcctcagcctcccacagtgctggaattacaggtgtg-aaccaccgcacctgccc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100786939 68 - 128539186 tcaagtgatcc---------gcctgcctcagcctcccaaagtgctggaattacaggtgtg-aaccaccgcacctgccc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182590 68 +    435186 tcaagtgatcc---------acctgcctcagcctcccaaagtgctggaattacaggtgtg-aaccaccgcacctcccc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576407 68 +   9309688 tcaagtgatcc---------acctgcctcggcctcccaaagtgctggaattacaggtgtg-aaccaccacacctgccc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407795 67 -  29834108 tcgagtgacct---------gcctgccttggcctcccaaagtgctagaattacaggtgtg-agccactgcacctgc-c
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860056 67 -   1015025 tcaagtgacct---------gcctgccttggcctcccaaagtgctagaattacaggtgtg-agccaccgcaccggc-c
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879711 67 -   2295209 tcgagtgatct---------gcctgccttggcctcccaaaatgctagaatgacaggtgtg-agccaccgcaccggc-c
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19733639  9 +  45876710 TCAA------------------------------------------------------------------ACCTA---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933681 75 -   1687904 TCCACCCACCCTCGCTGGCTGCCTGGCGCTGCTGCC---GGCACCAGGGTCACTCGTGGGCAGCCCCCGTCTCCCCGC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4579607 13 -  12054995 I
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=1385615.000000
s hg38.chr12_GL383549v1_alt     91256 134 +    120804 ctagactgcaagctctttgaacccaggaaccctatcttattTTCTTT----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAATAGGTGCTCCATGACTCCA----------AAGAGAAAGGAAGAGTCTTGGCAGCCT
s panTro5.chr12              62782816 134 + 137163284 ctagactgcaagctctttgaacccaggaaccctatcttattTTCTTT----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAATAGGTGCTCCATGACTCCA----------AAGAGAAAGGAAGAGTCTTGGCAGCCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906545 134 + 135337776 ctagactgcaagctctttgaacccaggaaccctatcttattTTCTTT----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAATAGGTGCTCCATGACTCCA----------AAGAGAAAGGAAGAGTCTTGGCAGCCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122048 133 -  32808036 ctagactgcaagctctttgaa-ccaggaaccctatcttatattcttt----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAATAGGTGCTCCATGACTCCA----------AAGAGAAAGGAAGAGTCTTGGCAGCCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312042 134 +  34552619 CTAGACTGCAAGCTCTTTGAACCCAGGAACCCTATGTTATTTTCTTT----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAATAGGTGCTCCATGACTCCG----------AAGAGAAAGGAAGAGTCTTGGCAGGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104617994 144 - 133663169 ctagactgcaagctctttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTGA----GCGGAAATAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017574 144 - 137757926 ctagactgcaagctctttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTGA----GCGGAAATAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395518 144 -   7948249 ctagactgcaagctctttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTGA----GCGGAAATAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296087 144 -  10730278 ctagactgcaagctctttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTAA----GCGGAAATAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787007 143 - 128539186 ctagactgcaagctc-ttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTGA----GTGGAAACAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182658 144 +    435186 ctagactgcaagctctttgaacccaggaaccctatcttatattcttt----AAAAG---------AATGAACAAATGAATGGATGGATGGGTGA----GCGGAAATAGGTGCTCCATGACTCCAaagagaaaggaagagaaaggaagagTCTTGGCAGCCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576475 144 +   9309688 ctagactgcaagctctttgaacccaggaaccctatcttattttcttt----AAAAG---------AATGAACAAATGAAAGAATGGATGGGTGA----GTGGAAATAGGTGCTCCATGACTCCAAAGAGAAGGGAAGAGAAAGGAAGAGTGTTGGCAGCCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407862 130 -  29834108 ctagactgcaagctctttgaactcaggaaacttatcttattttcttt----AAAAG---------AATGAACAAATGAATGGATGGGTAGGTAA----GTGGAAAGTGCTGCTTAGTGACTCCA----------AAGAGA----AAGAGTCTTGGCAGCCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860123 125 -   1015025 CTAGACTGCAAGCTCTTTGAACTCTGGAAA-----CTTATTTTCTTT----AAAAG---------AATGAACAAATGAATGGATGGGTGGGTGA----GTGGAAAGTGGTGCTTCGTGACTCCA----------AAGAGA----AAGAGCCTTGGCAGCCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879778 130 -   2295209 ctagactgcaagctctttgaactcaggaaacttgtcttattttcttt----AAAAG---------AACGAACAAATGAATGGATGGGTGGGTGA----GTGGAAAGTGGTACTTCATGACTCCA----------AATAGA----AAAAGTCTTGGCAGCCT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4579620 137 -  12054995 CTGGACTGCAAGATTTCTGAGCCCAGGAACACTATAGTTTTTCCTTT----AAAAG-----AAC-AACGAATGAATGAAGGGATGGCTGGGTGG----GTGGAAATGGGTGCTCTGGGACTCTA----------AGGAGCAAGGAAGAGTCTTCACAGCCC
i otoGar3.GL873576          I 13 I 361
s canFam3.chr27              19733648 151 +  45876710 TTAGACTGCTAACTCTTGGATCCCAAGAACCCTATCGTTTTTTTTTTTCTCAAAAGTGATGAACAAATATACAAATGAATGAATAGATGGGTGATTAGATGGAAATAGATGCTCCATGACTCCA----------AAGAGGAAGGAAGAGTCTTAGCAGCCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933756  95 -   1687904 CTAGGCTGTGAGCCCTGTGAGCTCAGGAATCCTAGC---TGCTTCCT----GGATG------------------------------------------GAGGAAATAGGTGC-CCGTGACCCCG----------------AGGGCGGGAGCGGGCCAGCCT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=3403626.000000
s hg38.chr12_GL383549v1_alt     91390 354 +    120804 --TACATCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTACAGGGCAAGACGGATGGGAAGAAG-----CCCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGTTGGCAGCATATGTATTGAAGAG---AAAAAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAGGATGGTCCTTCCAAGTGAGGAGTGTTCATATGTCTACCACTGGTTATTCCTCCTGAATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAAACAGTGTAATAATATTATTACACTAGCTTCCACTTACTGGG
s panTro5.chr12              62782950 357 + 137163284 --TACATCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTACAGGGCAAGACAGATGGGAAGAAG-----CCCTGCGAACT---AGTTGG-CTAGTCTCGAAG-AATGATGGCAGCATATGTATTGAAGAGAAAAAAAAAAA--AACAGAATCATGGAAAGTCAA---AAAAGGTCTTCACCCTAGACAGGATGGTCCTTCCAAGTGAGGAGTGTTCATATGTCTACCACTGGTTATTCCTCCTGGATTCTCTGTCCA--CGTAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAAACAGTGTAATAATATTATTACACTAGCTTCCACTTACTGAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60906679 357 + 135337776 --TACATCTCAAGTCAGGTCATAG---------GATGA---------GCTCTCGAATTACAGGGCAAGACGGATGGGAAGAAG-----CCCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCATATGTATTGAAGAGAAAAAAAAAAA--AACAGAATGATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAGGATGGTCCTTCCAAGTGAGGAGTGTTCATATGTCTACCACTGGTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAAACAGTGTAATAATATTATTACACTAGCTTCCACTTACTGAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122181 355 -  32808036 --TACATCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTACAGGGCAAGACGGATGGGAAGAAG------TCTGCAAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCATATGTATTGATGAG-AAGAGAAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAGGATGGTCCTTCCAAGTGAGAAGTGTTCATATGTCTACCACTGGTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAAACAGTGTAATAATATTATTACACTAGCTTCCACTTACTGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312176 356 +  34552619 --CACATCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTGTAGGGCAAGGCGGATGGGAAGAAG-----CTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCATATGTATTGAGGAG-AAGAGAAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAGGATGGTCCTTCCAAGTGAGGAGTGTTCATATGTCTACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CACAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAAACACTGTAATAATATTATTACACTAGCTTCCACTTACTGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618138 354 - 133663169 --CACGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTATAGGGCAAGGCGGATGGAAAGAAG-----CTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAACCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109017718 354 - 137757926 --CACGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTATAGGGCAAGGCGGATGGAAAGAAG-----CTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAACCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1395662 354 -   7948249 --CACGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTATAGGGCAAGGCGGATGGAAAGAAG-----CTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAACCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296231 354 -  10730278 --CACGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTATAGGGCAAGGTGGATGGGAAGAAG-----CTCTGCGAACT---AATTGG-CTAGTCTAGAAG-AATGATGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CATAAATA-CAGAAATAACAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCACAGGGTCATTTTGAGGAAATCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787150 354 - 128539186 --CATGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTTGAATTATAGGGCAAGGCGGATGGGAAGAAG-----CTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGTTGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTTTCTGTCCA--CATAAATG-CAGAAATAATAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAACCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       182802 354 +    435186 --CACGTCTCAAGTCAGGCCATAG---------GATGA---------GCTCTCGAATTATAGGGCAAGGCGGATGGGAAGAAG-----TTCTGCGAACT---AGTTGG-CTAGTCTAGAAG-AATGATGGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---AAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCAGG-GTGAAACAATCACCTCACAGGGTCATTTTGAGGAAACCACTGTAATAATATTATTACAGTAGCTTCCACTTACTTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576619 355 +   9309688 --CACATCTCAAGTCAGGCCATAT---------GATGA---------GCTCTCGAATTATATGGCAAGGCGGATGGGAAGAAG-----CTCTGTGAACT---AGTTGG-CTAGTCTAGAAG-AATGATAGCAGCCTACGTATTGAGGAG-AAGAGGAAAA--AACAGAATCATGGACAGTCAA---CAAAGGTCTTCACCCTAGACAAGGTGGTCCTTCC-AGTGAGGGGTGTTCATATGCCCACCACTGCTTATTCCTCCTGGATTCTGTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGATGTGAAACAATCACCTCGCAGGGTCATTTTGAGGAAACCACTGTAATAATAGTATTACAGTAGCTTCCACTTACTTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11407992 354 -  29834108 --CATGTCTCAAGTCAGTCCATGC---------GAAGA---------GCGATCAAATTATAGGGCAAGATGGATGGGAAGAAG-----CTCTGTGAACT---AGCTGGCCTAGTCTAGAAG-AATGATGGCAGCCTATGTATTAAGGA--AAGAGAAAAAACAACAGGATCATGGACAGTCAA---AATAGTTGTTCACGCTAGACAAGGTTGTCCTTCC-AGTGAGGGGTGTTCATATGT---CCACCGCTTATTACTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATCACAGGGCCTGAGCATGA--ACTGTTGTGAAATAATCACCTTGCAGGATCATTTTGAGGAAAACACTATAATAATATTATTTCAGTAGCTTCTACTTACTCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860248 352 -   1015025 --CACATCTCAAGTCACTCCATGG---------GAAGA---------GCTATCAAATTATAGGGCAAAATGGATGGGAAGAAG-----TTCTGTGAACT---AGCTGG-CTAGTCTAGAAG-AATGATGGCAGCCTATGTATTAAGGA--AAGAGAAAAAA-AACAGGATCATGGACAGTCAA---AATAGTTCTTCACGCTAGACAAGGTTGTCCTTCC-AGTGAGGGGTGTTCTTATGT---CCACTGCTTATCACTCCTGGTTTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGTTGTGAAATAATCACCTCGCAGGATCATTTTGAGGAAAACACTACAATAATATTATTTCAGTAGCTTCTACTTACTCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1879908 351 -   2295209 --CACGTCTCAAGTCAGTCCATGG---------GAAGA---------GCTATCAAATTATAGGGCAAGAAGGATGAGAAGAAG-----CTCTGTGAACT---AGCTGG-CTAGTCTAGAAG-AATGATGGCAGCCTATGTATTAAGGA--AAGAGAAAAA--AACAGAATCATGGGCAGTCAG---AATAGTTCTTCACTCTAGACAAGGTTGTCCTTCC-AGTGAGGGGTGTTCATATGT---CCACTGCTTGTTACTCCTGGATTCTCTGTCCA--CATAAATG-CAGAAATAACAGGGCCTGAGCATGA--GCTGTTGTGAAATAATCACCTCGCAGGATCATTTTGAGGAAAACACTACAATAATATTATTTCAGTAGCTTCTACCTACTCAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4580118 331 -  12054995 --CCCATCTTGGGTTAGTCCACAGGAAGAGAAAGAAGA---------GCACTTGGGTTTCAGG-----ACGGACAGTGAGAAG-----CTCTGTGAACT---GGTTAT-CTGGTCTGGCAG-AATGATGAGCGCCCACGTGCCCAGGTG-AAGAG-AAGA--AATGGAATCAT-AACAGCTAAAACAAAAGATTTTCACCCGGGAAGCAGTGGCCCTTAC----------------------------TGCTTAGTACTCTGGAATTCTCTTACCA--GATAAATGTTAGAAATAACAGGACATGAGC-TTA--GCTGTCATGAAACAATTGC--TGGAGGATCATTTTTAAAAAAGCATTGGAATAACATTATTACAGTAGTTTCCACTTAGAGGG
i otoGar3.GL873576          I 361 C 0
s canFam3.chr27              19733799 356 +  45876710 --CAAACCTAAAGTTGCTCTGTAG---------GAGGAACAAAGAACACTCTGGAACTGTAGGGTGAGATGGATGGTAAGAAG-----TTCTGTGAACTGTCAGTTGG-CTAGTCTAGCAG-AATGATGAGAGCCTATGT-----TGGA-AAGAGAAGAA--AGCA--ATCATGGACAGCAAA---AAAAGGCCTACACCCCAGGCAGGGTGGCCTTTTG-AGCAAGGGGCTTTCACATGC---CTACTGCTTACTATCCTAGAATTCTCTGTAGATGTATAAATG-CATAAATAACAGAGCATGATCATTA--GCTGCTATGAAACAATCAA--GAGGGGATTGTTTTTTGGAAAA-AGCATAGTAATATTATTACAGTAGCTTGCATTTATTGGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             933851 333 -   1687904 CACGCTCCGCAGGAGAG---ACGG---------GGAGT---------GCTGCGGCATTGCGGGGCGAG---------AGGAAGGTCTTCTCTGGGGACC---CTCCGG-ATGCTCTAGCAGAAATGAGACCCACTTGACAACACACAGG-AAGAGAAGAA--AACAGAATCAC-GCCGGCGAG---GAAAGGTCTGCACCC-AAACAGGGCG--CCTTCG-AGT---GGCTGCCCATGC-----CTACGGCTTGCTACTCCCAGATTCGCTGCCCG--TATGTGTG-CGCGAGAAACAGGGCGTGACCCCAACTGCTG--GTGAAGCCATCCCACGGCAGGTCC--CCCGAGGAAAGC----TTGTAATATCACCGCAGGAGCTTCCGGGGACTGGG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=422731.000000
s hg38.chr12_GL383549v1_alt     91744 42 +    120804 GGTCTATGGTCTACCAAGCTTATGCTTAAGATTGTGAAAAAg
s panTro5.chr12              62783307 42 + 137163284 GGTCTATGGTCTACCAAGCTTATGCTTAAGATTGTGAAAAAg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907036 42 + 135337776 GGTCTATGGTCTACCAAGCTTATGCTTAAGATTGTGAAAAAg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122536 42 -  32808036 GGTCTATGGTCTACCAAGCTTACGCTTAAGATTGTGAAAAAg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312532 42 +  34552619 GGTCTATGGTCTACCATGCTTGTGCTTAAAATTGTGAAAAAg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618492 42 - 133663169 GGTCTATGGTCTACCATGCTTATGCCTAAGATTGTGAAAAAg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018072 42 - 137757926 GGTCTATGGTCTACCATGCTTATGCCTAAGATTGTGAAAAAg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396016 42 -   7948249 GGTCTATGGTCTACCATGCTTATGCCTAAGATTGTGAAAAAg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296585 42 -  10730278 GGTCTATGGTCTACCATACTTATGCCTAAGATTGTGAAAAAg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787504 42 - 128539186 GGTCTATGGTCTACCATGCTTATGCCTAAGATTGTGAAAAAg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183156 42 +    435186 GGTCTATGGTCTACCATGCTTATGCCTAAGATTGTGAAAAAg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3576974 42 +   9309688 GGTCTATGGTCTACCATGCTTACGCCTAAGATTGTGAAAAAg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408346 42 -  29834108 GGTCTATAGTCTACCATGCTTATGCTTAAGACTGTGAAAAAg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860600 41 -   1015025 GGTCTATAGTCTACCATGC-TATGCTTAAGATTGCGAAAAAg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880259 42 -   2295209 GGTGTATAGTCTACCATGCTTATGCTTAAGATTGTGAAAAAg
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19734155 42 +  45876710 GATCTATTGTGTAGCATTCCTATGCCTAAGATTATGGAAAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             934184 40 -   1687904 -GTCTGTTTTGGAACATTCTGATGC-TAAGATGGTGAAAGGA
i dasNov3.JH562883          C 0 I 519
e otoGar3.GL873576            4580449  0 -  12054995 C
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=1118999.000000
s hg38.chr12_GL383549v1_alt     91786 134 +    120804 gccaggcacggtggctcatgcctctaatcctggtactttgggaggctgaggcgtgaggatggtttgaggccaggagttcaagaccagcctgggcaacgtagcaaaaccccatctctacaaaaaatacaaaaatt
s panTro5.chr12              62783349 134 + 137163284 gccaggcacggtggctcatgcctctaatcctggcactttgggaggctgaggcgtgaggatggtttgaggccaggagttcaagaccagcctgggcaacatagcaaaaccccatctctacaaaaaatacaaaaatt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907078 134 + 135337776 gccaggcacggtggctcatgcctctaatcctggcactttgggaggctgaggcgtgaggatggtttgaggccaggagttcaagaccagcctgggcaacatagcaaaaccccatctctacaaaaaatacaaaaatt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122578 134 -  32808036 gccaggcacggtggctcatgcctctaatcctggcactttgggaggctgaggcgtgaggatggtttgaggccaggagttcaagaccagcctgggcaacatagcaaaaccccatctctacaaaaaatacaaaaatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312574 134 +  34552619 gccaggcatggtggctcatgcctgtaatcctagcactttgggaggctgaggtgtgaggatcatttgaggccaggagttcaggaccagcctgggcaacatagcaaaaccccctctctacaaaaaatacaaaaatt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618534 133 - 133663169 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018114 133 - 137757926 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396058 133 -   7948249 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296627 133 -  10730278 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787546 133 - 128539186 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttccagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183198 133 +    435186 gccaggcatggtggttcttgcctctaatcctggcactttgggagaccgaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577016 133 +   9309688 gccagacatggtggcttttgcctctaatcctggcactttggcagaccaaggtgtgaggatcatttgaggccaggagttcaagaccagcctgggcaatatagcaaaaccccatctctac-aaaaatacacaaatt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408388 134 -  29834108 gccaagcacagtggctcattcctctaatcctggcactttgggaggctgaggcatgaggatcgtttgaggccaagagttcaagactggcctgagcaacataacaaaaccccatttctacaaaaaatacaaacatt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860641 134 -   1015025 gccaggcacagtggctcatgcctctaatcctggcactttgggaggctgaggcatgaggattgtttgaggccaagagttcaagactggcctgagcaacataacaaaaccccatctctacaaaaaatacaaacatt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880301 134 -   2295209 gccaggcacagtggctcatgcctctaatcctggcactttgggaggctgaggcatgaggatcgtttgaggccaggagttcaagactggcctgagcaacataacaaaaccccatctctacaaaaaatacgaacatt
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19734197  45 +  45876710 AC---------------ACTTCCTCAATCCT---ACCT------------------------------ACCAATGGTT-----------------------------------------AAAAATTTAAAAATT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4580449   0 -  12054995 C
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             934224 519 -   1687904 I

a score=1745851.000000
s hg38.chr12_GL383549v1_alt     91920 221 +    120804 aacctggca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggcaagaggatcacctgagcctggaagattgagactgcagtgagctgtgattgcatcactgccctccagcctgggcaacagagcaagaccctgtct---c------------------------------aaaacaaaac-aaaaaa-------aaaaaGGATTGTGAAAGAAAAAATTCTCAGTTTCACTTATCAACAGTTAAAGATTTAA
s panTro5.chr12              62783483 219 + 137163284 agcctggca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggcaagaggatcacctgagcctggaagattgagactgcagtgagctgtgattgcatcactgccctccaacctgggcaacagagcaagaccctgtct---c------------------------------aaaacaaaac---aaaa-------aaaaaGGATTGTGAAAGAAAAAATTCTCAATTTCACTTATCAACAGTTAAAGATTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907212 220 + 135337776 agcctggca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggcaagaggatcacctgagcctggaagattgggactgcagtgagctgtggttgcatcactgccctccagcctgggcaacagagcaagaccctgtct---c------------------------------aaaacaaaac--taaac-------aaaaaGGATTGTGAAAGAAAAAATTCTCAATTTCACTTATCAATAGTTAAAGATTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122712 221 -  32808036 agcctggca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggcaagaggatcacctgagcctggaagattgagactgcagtgagctgtgattgcatcactgccctccagcctgggcaacagagcaagaccctgtct---c------------------------------aaaacaaaac-aaaaaa-------aaaaaGGATTGTGAAAGAAAAAATTCTCAATTTCACTTATCAACAGTTAAAGATTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312708 222 +  34552619 agcctggca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggcaagaggatcacctgagcctggaagattgagactgcagtgagctgtgattgcaccactgcactccagcctgggcaacagagcaagacactgtat---c------------------------------aaaaaaaaaaaaaaaaa-------aaaaaGGATTGTGAAAGAAAAAATTCTCAATTTGACTTATCAACAGTTAAAGATTTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618667 219 - 133663169 agcctgaca------------tgttggtgtgtgccagtagtcccagctactcaggagactgaggtaagaggatcacctgagcctagaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgggcaacagagtaagaccctgtct---c--------------------------------aaaaaaaa-aaaaaa-------aaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTATCAGCAGTTAAAGATTTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018247 219 - 137757926 agcctgaca------------tgttggtgtgtgccagtagtcccagctactcaggagactgaggtaagaggatcacctgagcctagaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgggcaacagagtaagaccctgtct---c--------------------------------aaaaaaaa-aaaaaa-------aaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTACCAGCAGTTAAAGATTTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396191 223 -   7948249 agcctgaca------------tgttggtgtgtgccagtagtcccagctactcaggagactgaggtaagaggatcacctgagcctagaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgggcaacagagtaagaccctgtct---c----------------------------aaaaaaaaaaaa-aaaaaa-------aaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTACCAGCAGTTAAAGATTTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296760 230 -  10730278 agcctgaca------------tgttggtgtgtgccagtagtcccagctactcaggagactgaggtaagaggatcacctgagcctagaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgggcaacagagtaagatcctgtct---c----------------------------caaaaaaaaaaa-aaaaaaccaaaacaaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTATCAGCAGTTAAAGATTTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787679 251 - 128539186 agcctgaca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggtaagaggatcacctgagcctggaagattgaggctgcagtgagctgtgattgcaccactgcactccaggctggggaacagagcgagactctgtct---caaaaaaaaaaaaaaaaaaaaactcaaaaaaaaaaaaaaaa-aaaaaa-------aaaaaGGATTATGAAAGAAAATATTCTCAATTTCACTTATCAGCAGTTAAAGATTTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183331 222 +    435186 agcctgaca------------tgttggtgtgtgccagcagtcccagctactcaggagacggaggtaagaggatcacctgagcctagaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgggcaacagagtaagaccctgtct---c-----------------------------aaaaaaaaaaa-aaaaaa-------aaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTATCAGCAGTTAAAGATTTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577149 218 +   9309688 agcctaaca------------tgttggtgtgtgcctgtagtcccagctactcaggagactgaggtaagaggatcacctgagcctggaagattgaggctgcagtgagccgtgattgcaccactgcactccaggctgcgcaacagagcaagaccctgtct---c---------------------------------aaaaaaa-aaaaaa-------aaaaaGGATTGTGAAAGAAAATATTCTCAATTTCACTTATCAACAGTTAAAGATTTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408522 226 -  29834108 agcctggcatgttggtgtgcgtgttggtgtgtgcctgcagtcccagctactcaggaggctgagg-aagaggacaacctgagcctggaaagttgtggctacagtgagctgcgattgcaccactgcactccagcctgggcaacaaagcaagaccctgt-----c----------------------------------aaaaaa-aaaaGG-------GGGGGGGATTGTGAGAGAAAATATTCTCAATTTTACTTATCAACAGTTAAAGATTTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860775 223 -   1015025 agcctggcatgttgatgtgcatgttggtgtgtgcctgtagtcctagctactcaggaggctgagg-aagaggactacctgagcgtggaaggttgtggctgcagtaagctgcgattgcaccactgcactccagcctgggcagcaaagcaagatcctgtcacaac----------------------------------aacaac-aacaac-------aaaaaGGATTGTGAGAGAAAAAAATCTCAATTTTACTTATCAACAG--------ATAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880435 225 -   2295209 agcctggcatggtggtgtgcatgttggtatgtgcctgtagtcccagctactcaggaggatgagg-aagaggactacctgagtctggaaggttgtggctgcagtgagctgggattgcaccactacgctccagcctgggcaacaaagcaagaccctgt-----c-----------------------------------acaaa-aaaaaa-------aaaaaGGATTGTGAGAGAAAATATTCTCAATTTTACTTATCAACAGTTAAAGATTTAA
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4580449   0 -  12054995 C
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e canFam3.chr27              19734242   0 +  45876710 C
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             934224 519 -   1687904 I

a score=52770.000000
s hg38.chr12_GL383549v1_alt     92141 5 +    120804 AAATA
s panTro5.chr12              62783702 5 + 137163284 AAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907432 5 + 135337776 AAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122933 5 -  32808036 AAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312930 5 +  34552619 AAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618886 5 - 133663169 AAATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018466 5 - 137757926 AAATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396414 5 -   7948249 AAATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296990 5 -  10730278 AAATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787930 5 - 128539186 AAATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183553 5 +    435186 AAATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577367 5 +   9309688 AAATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408748 5 -  29834108 AAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       860998 5 -   1015025 AAATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880660 5 -   2295209 AAATA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4580449 5 -  12054995 AAGTA
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e canFam3.chr27              19734242 0 +  45876710 C
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             934224 519 -   1687904 I

a score=935212.000000
s hg38.chr12_GL383549v1_alt     92146 94 +    120804 GCTATTAGGGGCTGCTTTAACGACTTCTAAGCATCAGCATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTGAATTTGTGAGAGTGGAA
s panTro5.chr12              62783707 94 + 137163284 GCTATTAGGGGCTGCTTTAATGACTTCTAAGCATCAGCATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTGAATTTGTGAGAGTGGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907437 94 + 135337776 GCTATTAGGGGCTGCTTTAACGACTTCTAAGCATCAGCATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTGAATTTGTGAGAGTGGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3122938 94 -  32808036 GCTATTAGGGGCTGCTTTAACGACTTCTAAGCATCAGCATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTGAATTTGTGAGAGTGGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7312935 94 +  34552619 GCTATTAGGGGCTGCTTTAACGATTTCTAAGCATCAGCATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTAAATTTGTGAGAGTGGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618891 94 - 133663169 GCTATTAGGGGCTGCTTTAATGACTTCTAAGCGTCAACATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAATGGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018471 94 - 137757926 GCTATTAGGGGCTGCTTTAATGACTTCTAAGCGTCAACATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAATGGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396419 94 -   7948249 GCTATTAGGGGCTGCTTTAATGACTTCTAAGCGTCAACATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAATGGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8296995 94 -  10730278 GCTATTAGGGGCTGCTTTAATGACTTCTAAGCGTCAACATGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAATGGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100787935 94 - 128539186 GCTATTAGGAGCTGCCTTAATGACTTCTAAGCATCAACATGGAAGAAGATGTTCAAAATAACAACACGGAAAATTTAAATTTGTGAGAATGGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183558 90 +    435186 GCTATT-GGGGCTGCTTTAATGACTTCTAAGCATCAACATG---GAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAATGGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577372 91 +   9309688 GCTATTAGGGGCTGCTGTAATGACTTCTAAGCGTCAACATG---GAAGATGTTCAAAATAACAACAGGGAAAATTTATATTTGTGAGAATGGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408753 92 -  29834108 GCTATT--GGGCTGCTTTAATCACTTCTAAACATCAACGTGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGCGAGAGTGGAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861003 93 -   1015025 GCTATT-GGGGCTGCTTGAATGACTTCTAAACATCAACGTGGAAGAAGATGTTTAAAATAACAATAGGGAAAATTTTAATTTGTGAGAGTGGAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880665 93 -   2295209 GCTATT-GGGGCTGCTTTAATGACTTCTAAACATCAACGTGGAAGAAGATGTTCAAAATAACAACAGGGAAAATTTTAATTTGTGAGAGTAGAA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4580454 93 -  12054995 GCTCCCAAGGACTACTCTAATGACTTCTAACCATCAATA-AGAAGAGGATGTTTAAAAGAACATGGGGAAACATTTAAATCTGTGAGCCTGGAC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19734242 91 +  45876710 GCAATCAGATACTGCTTTAATAATTTCTAGCCATCAACATG---AAAGATGTTTAAAAGAACATGGAGGAAAACTAACATTTGTGAGACTAGAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I
e dasNov3.JH562883             934224 519 -   1687904 I

a score=4467436.000000
s hg38.chr12_GL383549v1_alt     92240 446 +    120804 GGAGGCATACAGATATTTTCTAAGTGG---------------------CCTGCAGAAAGACTTCGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATATCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAGCTAAAGGCTTGTCTGAGGGAAGTTCATCCCAGATG-CCTAGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTGAACCATGGTTA-CAACCAGATGTATACAACCACATGCTATGTCAG---------------AAAAGGTGAG--TCTTAACTGGTTAATTA-----TAATTTCTCCTTTTCTTTTAAATGAAGTACCAGGTAATAATTTTTAAAAGGTACACCAAGTTTATGCTAGGGCTTTTCTTTCCACAGTTTAAAGAGGGAATAGACTATGACAGGGAGAACA
s panTro5.chr12              62783801 446 + 137163284 GGAGGCATACAGATATTTTCTAAGTGG---------------------CCTGCAGAAAGACTTCGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATATCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAGCTAAAGGCTTGTCTGAGGGAAGTTCATCCCAGATG-CCTAGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTGAACCATGGTTA-CAACCAGATGTATACAACCACATGCTATGTCAG---------------AAAAGGTGAG--TCTTAACTGGTTAATTA-----TAATTTCTCCTTTTCTTTTAAATGCAGTACCAGGTAATAATTTTTAAAAGGTACACCAAGTTTATGCTAGGGCTTTTCTTTCCACAGTTTAAAGAGGGAATAGACTATGACAGGGAGAACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907531 446 + 135337776 GGAGGCATACAGATATTTTCTAAGTGG---------------------CCTGCAGAAAGACTTCGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATATCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAGCTAAAGGCTTGTCTGAGGGAAGTTCATCCCAGATG-CCTAGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTGAACCATGGTTA-CAACCAGATGTATACAACCACATGCTATGTCAG---------------AAAAGGTGAG--TCTTAACTGGTTAATTA-----TAATTTCTCCTTTTCTTTTAAATGCAGTACCAGGTAATAATTTTTAAAAGGTACACCAAGTTTATGCTAGGGCTTTTCTTTCCACAGTTTAAAGAGGGAATAGACTATGACAGGGAGAACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123032 451 -  32808036 GGAGGCATACAGATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTCGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATATCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAGCTAAAGGCTTGTCTGAGGGAAGTTCATCCCAGATG-CCTAGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTAATCAACTTAAACCATGGTTA-CAACCAGATGTATACAACCACATGCTATATCAG---------------AAAAGGTAAG--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCAGGTAATAATTTTTAAAAGGTACACAAAGCTTATGCTAGGGCTTTTCTTTCCACAGTTTAAAGAGGGAATAGACTATGACAGGGAGAACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313029 451 +  34552619 GGAGGCATACAGATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATCCTTATGAGCCATGAACTAAAGGCTTCTCTGAGGGAAGTTCATCCCAGATG-CCTAGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTAAACCATGGTTA-CAACCAGATGTATACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAAATGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCAGGTAATAATTTTTAAAAGGTACACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACTATGACAGGGAGAACA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104618985 437 - 133663169 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTAGGAGCCATGAACTAAAGGCTTCCCTGAAGGAAGTTCATCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAATACAAAGCTTATGCTAGGGCTTTTCTTTCCACAGTTTAAAGAGGGAATAGACCATGACAAGGAGAACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109018565 437 - 137757926 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAACTAAAGGCTTCCCTGAAGGAAGTTCATCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAATACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACCATGACAAGGAGAACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396513 437 -   7948249 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAACTAAAGGCTTCCCTGAAGGAAGTTCATCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAATACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACCATGACAAGGAGAACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297089 437 -  10730278 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAACTAAAGGCTTCCCTGAAGGAAGTTCATCTCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGTAGTACCATGTAATAATTTTTAAAAGGAATACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACCATGACAAGGAGAACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788029 437 - 128539186 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTACGAGCTATGAACTAAAGGCTTCCCTGAAGGAAGTTCTTCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCGCATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAACACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACCATGACAGGGAGAACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       183648 437 +    435186 GGAGGCACACAGCTATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGTACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGAACTAAAGGCTTCCCTGAAGGAAGTTCATCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCAGCTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAATACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGAATAGACCATGACAAGGAGAACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577463 437 +   9309688 GGAGGCACACGGATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCACACAAAACAAGATTCATTCTTATGAGCCATGAACTAAAGGCTTCCCCGAAGGAAGTTCATCCCAGATG-CCTGGCATATCCGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTAAACCATGGT---------------TACAACCACATGCTATATCAG---------------AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAATTTCTCCTTTTCTTTTAAATGCAGTACCATGTAATAATTTTTAAAAGGAAGACAAAGCTTATGCTAGGGCTTTTCTTTCCACAATTTAAAGAGGGACTAGACCATGACAGGGAGAACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11408845 450 -  29834108 GGAGGCATA--GATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGCGGCTAAGCACCACCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGA-------GCTTCTCCGAGGGAAGTTCACCCCAGATG-CCCAGTATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAGCTTAAACCAGGGTTA-CAACCAAATGTATACAACCACATGCTATATCAGAAAAGGTAACTATTAAAAAGGTAAC--TCTGAACTGGTTAACTATAATCTAACTTC----TTTTTTTT-AATGTAGTACCGAGTAATAATTTTTAAAAGGAAAA-AAGGCTTATGCCAGGGC-TTTCTCTCCATGATTTAAAGAAGAAATAGGCTATGACAGGGAGAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861096 451 -   1015025 GGAGGCATA--GATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGCTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGA-------GCTTCTCTGAGGGAAGTTCAGCCCAGATG-CCTGGCATATCAGGAATTTATTTAGCCGACTGGTAGGTGGTTGATCAACTTAAACCAGGGTTA-CAACCAAATGTATACAACCACATGCTATATCAGAAAAGGTAACTATT-AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAACTTC----TTTTTTTTAAATGCAGTACCAAATAATAATTTTTAAAAGGAACA-AAGGTTTATGCCGGGGCTTTTCTCTCCATGATTTAAAGAGGAAATAGACTATAACAGGGAGAATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1880758 447 -   2295209 GGAGACATG--GATATTTTCTAAGTGG---------------------CCTGCAGAGAGACTTAGTGGTTACCCTGTAGGAAGAC-----TAAAGAAAATAAGTAGTTGGTTGCTAAGCACCATCTTTCCATCAGCATACCTCCACACTCAATGACATCATACAAAACAAGATTCATTCTTATGAGCCATGA-------GCTTCTCTGAGGGAAGTTCACCCCAGATG-CCCGGCATATCAGGAATTTATTTAGCCAACTGGTAGGTGGTTGATCAACTTAAACCAGGGTTA-CAACCAAATGTATACAATCACATGCTATATCAGAAAAGATAACTATT-AAAAGGTAAC--TCTTAACTGGTTAATTATAATCTAACTTC----TTTTTTTAAAATGCAGTACCTAGCAATAATTTTTAAAAGGAAC-----TTTTATGCCAGGGCTTTTCTCTCCATTATTTAAAGAGGAAATAGACTATGACAGGGAGAATA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4580547 424 -  12054995 AGGAGCATACAGACAGTTTCTG-----------------------------------------TATGGTTGCCCTGTTGGAAG-C-----TAAAGAAAAGAAGTAGTTGTCTGCTAAG--ATATCTTTCCATCAGTTTACCTCCACATGCTACAACATTATAC-AAACAAGATCCACTCTGAGGAGCCATGAACTCAGGG-GTCTCTGAGGGAAGTTCATCCCTAGAG--CTGGCATGTCAGGAGTTTATTTAGCCAACCGGTAGGTGGTTGATCAGCTCAAACCACAGTTA-CGATCAGATGCATACAACCACGTGCTATATCAG---------------AAAAGATATTCGTCTTCATTGGTTAATCACAATTTAATTTCTC--TTTCTTTCAAATGCAGCAACATGAAATGATTTTTAAAAGGAACACAAAGTTCATGCTAGGCGTTTTCTTTCTCTAA-AGAAAGAGGGAGTGGACTATGTCAGTGAGGAAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19734333 411 +  45876710 G----------GATATTTTCTAAGTGG---------------------TCTACCCAGGGATTTTGTGGTTACTCTGCAAGAAGACTAAAATAAAGAAAATAAGTAGCTGGCTACTAAGCATTATCTTTCCACCAGCATCTCTCCATACTCAATGACATCAGATGAAACAAGATTTCTGCCCAGGACTCATAAGCCCAGGGATTTTCTGAGGGAGGTTCATCCCAGGAGCCCTGGGATATTAGGAATTTATTTAGCCAGCTATTAGGAGATTGATCAGCACAAGCCATGGTTA-CAATCAGATGTATACAACCAGGTGCTATATCAT---------------AGGAGATATCTGTCTTAACTGGTT----ATCATTTGAATTCTC--TTTCCCTTAAATGTAGCAACATCTAACAA-GTTTAGAAGGAATACAAAGTTCATTCT-----CTTTCTTCACACTAAGCAAAAG--------------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             934743 416 -   1687904 GGGGGTGTACCCACATTTTCTAAGTGGGAAATGTTTCGCCTTTGTGATCCCCTACAGGGACTTTGTGATTACCCTGTAGGAGGACGGAAATAAGGGAAACGAGTGAGTGGCTGCCGGGCACCATCTTTCC-TCAGCATCCCTCCCTGCTCCGTTACCTCACACAAAACACGGCTCCATCTTAGGAGCCAAAAGCCA---GCCTCTCTGA-GGAAGCTCATCACAGGAG-CCTGGCA--------------TCGGCCAGCCGGTGGGAGGCTGACAGCCACACACCATGGCCACCAGGCCCACGTTTACCACGATACGTCCT---AA---------------AGGAGCTTTG--CCTGGCCTAGCTCATTAGAATGTGCTTTCTC--TTTCCCTGAAATGCA-CAGCATTTAATGATCTTT--------------GTTTA--CTGG---TGTAGACCCCACAATTCAAAGAGGAGACCG------------------
i dasNov3.JH562883          I 519 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017089 289 +  31815103 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=876630.000000
s hg38.chr12_GL383549v1_alt     92686 75 +    120804 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCCTACACGCTATCCGGCAGTC
s panTro5.chr12              62784247 75 + 137163284 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCTTACACGCTATCCAGCAGTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60907977 75 + 135337776 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCTTACACACTATCCGGCAGTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123483 75 -  32808036 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCTTACACGCTATCCGGCAGTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313480 75 +  34552619 TTTTAGATAAATAAGTGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCTTACACGCTATCCGGCAGTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619422 75 - 133663169 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AGTC-TTCTTCTTACATGCTATCCGGCAGTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019002 75 - 137757926 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AGTC-TTCTTCTTACATGCTATCCGGCAGTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1396950 75 -   7948249 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AGTC-TTCTTCTTACATGCTATCCGGCAGTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297526 75 -  10730278 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AGTC-TTCTTCTTACATGCTATCCGGCAGTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788466 75 - 128539186 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATATGTTTT-AGTC-TTCTTCTTACACGCTATCCGGCAGTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184085 75 +    435186 TTTTAGATAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AGTC-TTCTTCTTACATGCTATCCGGCAGTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577900 75 +   9309688 TTTTAGGTAAATAAATGATGTGTGTAAATTTCCCCCATTTGTTTT-AATC-TTCTTCTTACATGCTATCCGGCAGTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409295 75 -  29834108 TTTTAGATAAATAAATGATGTGTGTCAATTTCCACCATTTGTTTT-AACC-TTCTTCATACACGCTATTCAGCAGTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861547 75 -   1015025 TTTTAGATAAATAAATGATGTGTGTCAATTTCCCCCATTTGTTTT-AACC-TCCTTCATAGATGCTATTCGGCAGTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881205 75 -   2295209 TTTTAGATAAATAAATGATGTGTGTCAATTTCCCCCATTTGTTTT-AACC-TTCTTCATAGACGCTATGCGGCAGTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3017378 73 +  31815103 TTTTAGATAAACAAATGATGTGAGTGAATTTCCCCCATT--TTTT-AACC-TTCTTTGCACATGCTAGCGGGCGGTC
i micMur3.chr21             I 289 C 0
s otoGar3.GL873576            4580971 74 -  12054995 TTGCAGATAAACACGTGGTGTGAGTGGGTTTCCCACATT--TTTTGAACC-TTCTTTGCATGTGCTAGCTGGCGATC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19734744 74 +  45876710 TTTCAGGTAAGTAACTGATATATGTAAATTTCCCCCATT--TTTA-AATCTTTCTTCATGCATGCTATCTGGGAGTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             935159 72 -   1687904 TGCTAGGTAAGTAAGGGGCCTGTGTCCA---CGCCCAATTTTCCC-ACCT-TTCCTCGCGCGTGCTCTGAGGCAGCT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e proCoq1.NW_012140524v1      5106671 359 +  13104022 I

a score=1070335.000000
s hg38.chr12_GL383549v1_alt     92761  91 +    120804 CATCCCACCT---GTCCCAAACG-GTGGGACAGGCTGCAGG-----------------------------------CTACATTCTTCCACC---TTTCATGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
s panTro5.chr12              62784322  91 + 137163284 CATCCCACCT---GTTCCAAATG-GTGGGACAGGCTGCAGG-----------------------------------CTACATTCTTCCACC---TTTCACGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908052  91 + 135337776 CATCCCACCT---GTCCCAAATG-GTGGGACAGGCTGCAGG-----------------------------------CTACATTCTTCCACC---TTTCATGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123558  78 -  32808036 ----------------CCAAACG-GTGGGACAGGCTGCAGG-----------------------------------CTACATTCTTCCACC---TTTCATGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313555  91 +  34552619 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGCAGG-----------------------------------CAACATTCTTCCACC---TTTCATGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619497  91 - 133663169 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGTGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019077  91 - 137757926 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGTGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397025  91 -   7948249 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGTGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297601  91 -  10730278 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGTGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788541  91 - 128539186 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGCGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGGCTTGCCTT-GGTAATTACTGTTCCCTTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184160  91 +    435186 CATCCCACCT---GTCCCAAAGG-GTGGGACAGGCTGTGGG-----------------------------------CAACACTCTTCCACC---TTTCATGATGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3577975  91 +   9309688 CATCCCCCCT---GTCCCAAAGG-GTGGGACAGGCTGCGGG-----------------------------------CAACATTCTTCCACC---TTTCATGATGTCTTACCTT-TGTAATTGCTGTTCACTTAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409370  94 -  29834108 CATCCCACCT---GTCCCAAAGA-GTGGGACAAGCTGTGGA-----------------------------------CAACATTCTTCCACCAATTACCAAGGTGACTTGCCTT-GCTAATTGCTGTTCCCTTAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861622  94 -   1015025 CATCCCACCT---GTCCCAAAGG-GTGGGACAAGCTGTGGA-----------------------------------CAATATTCTTCCACCAATTACCAAGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881280  94 -   2295209 CATCCCACCT---GTCCCAAAGG-GTGGGACAAGCTGTGGA-----------------------------------CAACATTCTTCCACCAATTACCAAGGTGTCTTGCCTT-GGTAATTGCTGTTCCCTTAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3017451  91 +  31815103 CATCTCACCT---GTTACAAAGG-GTGGGACAGGCCGCTGC-----------------------------------CAGCATTCTTCCCCC---TTCCATGGTGTCTTGCTTT-GGGAATTGCTGCTCCCCTAA
i micMur3.chr21             C 0 I 65
s proCoq1.NW_012140524v1      5107030  91 +  13104022 CATCCCACCT---GTTACAAAGG-GTGGGACAGGCCGCTGC-----------------------------------CAGCATTCTTCCCCC---TTCCATGGTGTCTTGCTTT-GGAAATTGCTGCTCCCCTAA
i proCoq1.NW_012140524v1    I 359 C 0
s otoGar3.GL873576            4581045  88 -  12054995 CCGCCCACTC---GCTAGGGAGG-GTGGGACAGGCCACTAC-----------------------------------CAGCATTCTTCCCTC---TTCC-TTGTGTCTTGCTTT-GGTAATGTCTGTTCCC--AA
i otoGar3.GL873576          C 0 I 1
s canFam3.chr27              19734818  92 +  45876710 CATCCCTCCC---GTTACAAAGATGTGAGGCAGGCCGCTGC-----------------------------------CAATATCCTTCTACC---TTTTGTGGGTTCATGCTTT-GGTAATAGCTATTACCCTAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             935231 128 -   1687904 --CGCCCCCTGAGGTGCcagggt-ggggggcagggtggggggcagggtggggggcagtgtgggggacaggCTGTTCCAGAAGCCCTCGGCC---TCTCCGCGGGTCAGGCCTCGGGGAAGAGCCGCTCCTCTGA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I

a score=1578986.000000
s hg38.chr12_GL383549v1_alt     92852 130 +    120804 AATAGAGCAATGAAATCAATGCTATGTGGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAACA-TTGAAA
s panTro5.chr12              62784413 130 + 137163284 AATAGAGCAATGAAATCAATGCTATGTGGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908143 130 + 135337776 AATAGAGCAATGAAATCAATGCTATGTGGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123636 130 -  32808036 AATAGAGCAACGAACTCAATGCTATGTGGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313646 126 +  34552619 AATAGAACAACAAAATCAATGCTA--TGGGCAACTGACAATGAGGAA--TCTCATA-TTTCCCAGAACGAAGAAAA---TCTGAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTGTGTCAAGCA-TTGAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619588 130 - 133663169 AATAGAACAACAAAATCAACGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCTTAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-CTGAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019168 130 - 137757926 AATAGAACAACAAAATCAACGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCTTAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397116 130 -   7948249 AATAGAACAACAAAATCAACGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCTTAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297692 130 -  10730278 AGCAGAACAACAAAATCAATGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCTTAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788632 130 - 128539186 AATAGAACAACAAAATCAATGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184251 130 +    435186 AATAGAACAACAAAATCAACGCTATGTGGGCAATTAACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCTTAGGGGTAAGATTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578066 130 +   9309688 AATAGAACAACAAAATCAATGCTGTGTGGGCAATTGACAATGAGGAATCTCTCATA-TTTCCCAGAATGAAGAAAA---TCTTAGCCATAGGGGTAAGATTGTGTTGAGCCAGATACTATGTGAAGCA-TTGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409464 129 -  29834108 AATAGAACAACAAAAACAATGCTATGTGGGCAACTGACAATGA-GAATCTCTCATA-TTTCCCAGAACAAGGAAAA---TCTTAGCCATAGGGGTAAGGTTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861716 130 -   1015025 AATAGAACAACAAAAACAATGCTATGTTGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACAAGGAAAA---TCTTAGCCATAGGGGTAAGGTTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881374 130 -   2295209 AATAGAACAACGGAACCAATGCTATGTGGGCAACTGACAATGAGGAATCTCTCATA-TTTCCCAGAACAAGGAAAA---TCTTAGCCATAGGGGTAAGGTTGTGTTGAGCCAGATACTATGTCAAGCA-TTGAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5107121 132 +  13104022 GGTGTAACAACAAAAACAACACTGTGTGGGCAACCGATAATTAAGACTCTCTCACACTTTCCTAGAACTAAGACAA---TCTTAGCCATAGATGTAAGGATTTGTTGAGCCAGATACTGCGTCAGGCATTTGAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4581134 128 -  12054995 GGTAGAACAACGAAAACAACACTGTGTGGGCAACTGATAATTAAGA--CTCTCATTCTTTCCCA-AACTAAGAAAA---TCTTTTCCATAGGGGAAAAGATTTGTTGAGCCAGATACTGCATCAGGCA-CTGAAA
i otoGar3.GL873576          I 1 C 0
s canFam3.chr27              19734910 130 +  45876710 GGAGGAAGAACAAAAACAATGCTGTGTAGGTAGCCGATAACTAAGAATCTCTCATA-CTTTCCAGAACTAAGAAAAAGTTCTTAGCTATAGG-GTAAGGATCTATTGAGCC--ATGTCATGCCATGCA-TTGAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             935359 130 -   1687904 GGCGAAACACCAGAAACAAAACTGCGTGGGCAGCTGATAACTAAGACGCTCTCATA-CTTTCCAGGGCTGAGAAAA---TCGTAGTCACGGGGCTGAGGATTTGTCGAGCCAGATGCCACGCCAGGCA-TCGAAA
i dasNov3.JH562883          C 0 I 958
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017542  65 +  31815103 I

a score=88513.000000
s hg38.chr12_GL383549v1_alt     92982 7 +    120804 ATATAAA
s panTro5.chr12              62784543 7 + 137163284 ATATAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908273 7 + 135337776 ATATAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123766 7 -  32808036 ATATAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313772 7 +  34552619 ATATAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619718 7 - 133663169 ATATAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019298 7 - 137757926 ATATAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397246 7 -   7948249 ATATAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297822 7 -  10730278 ATATAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788762 7 - 128539186 ATATAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184381 7 +    435186 ATATAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578196 7 +   9309688 ATATAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409593 7 -  29834108 ATATAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861846 7 -   1015025 ATATAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881504 7 -   2295209 ATATAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5107253 7 +  13104022 ACATAAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4581262 7 -  12054995 ACATAAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735040 7 +  45876710 ACATAAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017542 65 +  31815103 I
e dasNov3.JH562883             935489 958 -   1687904 I

a score=283856.000000
s hg38.chr12_GL383549v1_alt     92989 24 +    120804 AACACAAACATTAGTAAATAAGCT
s panTro5.chr12              62784550 24 + 137163284 AACACAAACATTAGTAAATAAGCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908280 24 + 135337776 AACACAAACATTAGTAAATAAGCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123773 24 -  32808036 AACACAAACATTAGTAAATAAGCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313779 24 +  34552619 AACACAAACATTAGTAAATAAGCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619725 24 - 133663169 AACACAAAAATTAGTAAACAAGCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019305 24 - 137757926 AACACAAAAATTAGTAAACAAGCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397253 24 -   7948249 AACACAAAAATTAGTAAACAAGCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297829 24 -  10730278 AACACAAAAATTAGTAAACAAGCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788769 24 - 128539186 AACACAAAAATTAGTAAACAAGCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184388 24 +    435186 AACACAAAAATTAGTAAACAAGCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578203 24 +   9309688 AACACAAAAATTAGTAAACAAGCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409600 24 -  29834108 AACACAAAAATTAGCAAATAAACT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861853 24 -   1015025 AACACAAAAATTAGCAAATAAGCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881511 24 -   2295209 AACACAAAAATTAGCAAATAAGCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3017607 24 +  31815103 AACACAAAAATTAGTAAATAAGCT
i micMur3.chr21             I 65 C 0
s proCoq1.NW_012140524v1      5107260 24 +  13104022 AACACAAAAATAAGTAAGTAAGCT
i proCoq1.NW_012140524v1    C 0 I 1323
s otoGar3.GL873576            4581269 16 -  12054995 CACACAAAAATTAGTA--------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735047 18 +  45876710 --AACAAAAATTTGGA----GGCT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e dasNov3.JH562883             935489 958 -   1687904 I

a score=87244.000000
s hg38.chr12_GL383549v1_alt     93013 7 +    120804 ACAGCCC
s panTro5.chr12              62784574 7 + 137163284 ACAGCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908304 7 + 135337776 ACAGCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123797 7 -  32808036 ACAGCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313803 7 +  34552619 ACAGCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619749 7 - 133663169 ACAGCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019329 7 - 137757926 ACAGCCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397277 7 -   7948249 ACAGCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297853 7 -  10730278 ACAGCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788793 7 - 128539186 ACAGCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184412 7 +    435186 ACAGCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578227 7 +   9309688 ACAGCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409624 7 -  29834108 ACAGCCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861877 7 -   1015025 ACAGCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881535 7 -   2295209 ACAGCCC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3017631 7 +  31815103 TCAGCCC
i micMur3.chr21             C 0 I 1325
s otoGar3.GL873576            4581285 5 -  12054995 --AGCTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735065 7 +  45876710 CCAGCCC
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e proCoq1.NW_012140524v1      5107284 1323 +  13104022 I
e dasNov3.JH562883             935489 958 -   1687904 I

a score=4221875.000000
s hg38.chr12_GL383549v1_alt     93020 461 +    120804 CATTTTTCCCaggtggcctctaaaatgcacctccc----c-----taccccccacagtgatctccacctcctggtattcatgcctttgtgtaatttcctggttttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgacattagagggcaaaa---------aaatctgtggcttctggctttggcctcccctctcactctcccactggcttgttctgagggaagtgagctgccatgttgtgagctgccctgttgtgagctgccctacagaggggcccatgtggcaaggaactgatgtctccggtcaacagcagcaagggcctgatgcctgccaacagtcacttgagcgagcttggaagtgtatcctc-cccagttgaactctaagatgactgcagccctgttgaatatcttagttgaagccttgtgagaaaccctgagt
s panTro5.chr12              62784581 461 + 137163284 CATTTTTCCCaggtggcctctaaaatgcacctccc----c-----taccccccacagtgatctccacctcctggtattcatgcctttgtgtaatttcctggttttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatggcaaaa---------aaatctgtggcttctggctttggcctcccctctcactctcccactggcttgttctaagggaagtgagctgccatgttgtgagctgccctgttgtgagctgccctacagaggggtccatgtggcaaggaactgatgtctccggtcaacaacagcaagggcctgatgcctgccaacagtcacttgagcgagcttggaagtgtatcctc-cccagttgaactctaagatgactgcagccctgttgaatatcttaattgaagccttgtgagaaaccctgagt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908311 461 + 135337776 CATTTTTCCCaggtggcctctaaaatgtacctccc----c-----taccccccacagtgatctccacctcctggtattcatgcctttgtgtaatttcctggttttgaccatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatggcaaaa---------aaatctgtggcttctggctttggcctcccctctcactctcccactggcttgttctaagggaagtgagctgccatgttgtgagctgccctgttgtgagctgccctacagaggggcccatgtggcaaggaactgatgtctccggtcaacaacagcaagggcctgatgcctgccaacagtcacttgagcgagcttggaagtgtatcctc-cccagttgaactctaagatgactgcagccctgttgaatatcttaattgaagccttgtgagaaaccctgagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3123804 461 -  32808036 CATTTTTCCCaggtggcctctaaaatgcacctccc----c-----taccccccacagtgatctccacctcctggtattcatgtctttgtgtaatttcctggttttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatggcaaaa---------aaagctgtggcttctggctttggcctcccctctcactctcccactggcttgttctgagggaagtgagctgccatgttgtgagctgccctgttgtgagctgccctacagaggggcccatgtggcaaggaactgatgtctccggtcaacagcagcaagggcctgatgcctgccaacagtcacttgagcgagcttggaagtgtatcctc-cccaggtgaactctaagatgactgcagccctgttgaatatcttaattgaagccttgtgagaaaccctgagt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7313810 446 +  34552619 CATTTTTCCCaggtggcctctaaaatgcacctccc----c-----taccccccacagtgatctccacctcctggtgttcatgcctttgtgtaatttcctggttttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccaagattagatggcaaaa---------aaatctgtggcttctggctttggcatcccctctcactcccccactggcttgttctgagggaagtgagctgcca---------------tgttgtgagctgccctacagaggggcccatgtggcaaggaactgatgtctccagtcaacagcagcaagggcctgatgcctgccaacagtcacctgagtgagcttggaagtgtatcctc-cccagctgaactctaacatgactgcagccctggccaatatcttaattgaagccttgtgagaaaccctgagc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104619756 459 - 133663169 CATTTTTCCCAGGTGGCCTCTAACATGCACCCCCC----TACACACACCCcccacagtgatctccacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatgacaaaaaaaaacca-aaaactgtggcttctgactttggcatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tggtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019336 460 - 137757926 CATTTTTCCCAGGTGGCCTCTAACATGCACCCCCC----TACACACACCCcccacagtgatctccacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatgacaaaaaaaaaaaacaaaactgtggcttctgactttggcatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tggtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397284 460 -   7948249 CATTTTTCCCAGGTGGCCTCTAACATGCACCCCCC----TACACACACCCcccacagtgatctccacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatggtctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatgacaaaaaaaaaaaacaaaactgtggcttctgactttggcatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tggtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8297860 456 -  10730278 C-TTTTTCCCAGGTGGCCTCTAACATGCACCCCCC----TACACACACCCcccacagtgatctccacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcatttccgagattagatgacaaaaaaataa---aaatctgtggcttctgactttggcatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tggtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100788800 452 - 128539186 CATTTTTCCCAGGTGGCCTCTAACATGCACCCCCC------CACATACCCcccacagtgatctccacctcctggtgtttatgcctttgtgtaatatcctggtcttgagcaagagctagacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcacttccgagattagatggcaaaaa---aa---aaatctgtggcttctgactttggaatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tagtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttgtaagtgtatcctc-cccagctgagctctaaaatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccttgaac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184419 457 +    435186 CATTTTTCCCAGGTGGCCTCTAACATGCACTCCCC----TACACACACCCcccacagtgatctccacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagctgtcatttccgagattagatgacaaaaaaataa---aaatctgtggcttctgactttggcatcccctctcactctcccactggcttgttctgagggaagtgagctgcca---------------tggtgtgagctgccctacagaggggcccatgtggcaaggaaatgatgtctccagtcaacagcagcaagtgcctgatgtctgccaacagtcacttgagtgagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578234 452 +   9309688 CATTTTTCACAGATGGCCTCTAACATGCACTCCCC----CCCACACA-CCcccacagtgatctctacctcctggtgttcatgcctttgtgtaatatcctggtcttgagcatgagctggacct--agtgactcac------ttctaatgaacagaa-taaagtcgaaaatgatgagctgtcacttccgagattagatggcaaaaa--------aaatctgtggtttctgactttggcatctcctctcactcttgcactggctcgttctgagggaagtgagctgcca---------------tgttgtgagctgccctacagaggggcccatgtggcaaggaactgatatctccagtcaacagcagcaagtgcctgatgtctgccaacagtcgcttgagtaagcttggaagtgtatcctc-cccagttgagctctaagatgactgcagccctggcgaatatcttaactgaagccttgtgagaaaccctgaac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11409631 447 -  29834108 CATTTTTCCCAGGTGGACTCTAAAATGCACCCCCC----CT----CCCATCACAcaatgatttccacctcctggtgttcatgcctttgtgtaatttcctggtcttgagaatgagctggacct--aatgactcac------ttctaatgaacagaatt-aagtcaaaaatgatgagctgtcacttccgagattagatggcaaaa---------aaatctgtggcttctagctttggcatcccctctcactctcccactggcttgttctgagggaagcgagctgcct---------------tgtcatgagctgccctacagaggggcccacgtagcaaggaactgatgtctccagtcaagagcagcaaggg--tgatgcctgcctacagtcacttgagtgagcttggaagtgtatcctcccccggttgagctctaagatgactgcagccctggccaatatcttaattacagccttgcgagaaaccctgagt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       861884 447 -   1015025 CATTTTTCCCAGGTGGACTCTAAAATGCACCCCCC----C-----CCCATCACAcaatgatttccacctcctggtgttcatgcctttgtgtaatttcctggtcttgagcatgagctgaacct--aatgactcac------ttctaatgaacagaa-t-aagtcgaaaattatgagctgtcacttccgagattagatggcaaaa---------aaatctgtggcttctggctttggcatcccctctcactctcccactggcttgttctgagggaagcgagctgcct---------------tgtcatgagctgccctacagaggggcccatgtagcaaggaactgatgtctccagtcaaaagcagcaatggtctgatgcctgcctacagtcacttgagtgagcttggaagtgtatcctcccctggttgagctctaagatgactgcagtcctggccaatatcttaattgcagccttgtgagaaaccctgagc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881542 451 -   2295209 CATTTTTCCCAGGTGGACTCTAAAATGCACCCCCCGCCGC-----CCCATCACAcaatgatttccacctcctggtgttcatgcctttgtgtaatttcctggtcttgagcatgagctggacct--aatgactcac------ttctaatgaacagaa-t-aagtcgaaaatgatgagccgtcacttccgagattagatggcaaaa---------aaatctgtggcttctggctttggcatcccctctcactctcccactggcttgttctgagggaagcgagctgcct---------------tgtcatgagctgccctacagaggggcccatgtagcaaggaactgatgtctccagtcaagagcagcaagggtctgatgcctgcctacagtcacttgagtgagcttcgaagtgtatcctctcccggttgagccctaagatgactgcagccctggccaatatcttaactgcagccttgtgagaaaccctgagc
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4581290 389 -  12054995 CATCCTTCCT-----------------------------T-----TTGccctgacag---tctctgtctctttgtattca----tttgtttaacttcctcgctttgagtgtgggacagacct--gatggctcac------ttctaataaatagat-a-atgtcaaaaa---------atcgcttctgagat----------aa---------aaa---gtggcttccatcttgggcaccccttctcagtcttccactagattgctctgtgggaagctggccgcca---------------tggtagga---gacctgcagagtggcccatgtggcaaggaactgaggactttggtcaacaacagcaaggatccaacgccttcccacagtcacatgaatgaacttggaaatgtatcctcccccatttaagcccagggaagactgtagccccagacaatatcttaattgcagctttgt-ataaatcctgggc
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735072 353 +  45876710 TCCTtgtgctaggcagtatctgagatg-----acc----c--------------caatgatttcttcctcctgatattcagaaatttgtgtcatttcttcaccttgaatgtgaactggacctagagtaatggactttgtattctaacaaatacaa-g-aaataaaaaatgatgggctg--------atgattgtattacaaaacaaaaaacaaaaaccataacttctgtcttgggtataccttct--------cactggcttg---taaaagaggctaactgctg---------------tactgtgaactgccct-------------tgagacaaggaacagatggagtggcccatgag--acaagggcctga-----------------------------------------------------------agatgg----agccctagccaatatcttaattaaagtcttttgaaaaactctgagc
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017638 1325 +  31815103 I
e proCoq1.NW_012140524v1      5107284 1323 +  13104022 I
e dasNov3.JH562883             935489 958 -   1687904 I

a score=3785189.000000
s hg38.chr12_GL383549v1_alt     93481 424 +    120804 cacagtgatagagtttggatgtgtgtccccacccaaatctcatattgaaatgtaatccccagtgttggaggtggggcctggtgggatgtgattggatcat-ggggcagatttctcatgaatgatttaacgccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgacatctggtcatttaaaagtgtgtggcacctcccc-----------tcccactctcttgctcctgctttccccaggtgacgtgcaagctccagctttgccttctgccacgattgtaagctttcagaggcctccccagaagtagatgccagtgttaggctttttgtacagcctatggaactatgagccaattaaacctatcttcttataaatgacccagtctcagaaatttctttatagcaatgcaagaacagactaataca
s panTro5.chr12              62785042 425 + 137163284 cacagtgatagagtttggatgtgtgtccccacccaaatctcatattgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttctcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgatatctggtcatttaaaagtgtgtggcacctcccc-----------tcccactctcttgctcctgctttccccaggtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttaggctttttgtacagcctatggaactatgagccaattaaacctatcttcttataaatgacccagtctcagaaatttctttatagcaatgcaagaacagactaataca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60908772 425 + 135337776 cacagtgatagagtttggatgtgtgtccccacccaaatctcatattgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttctcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgatatctggtcatttaaaagtgtgtggcacctcccc-----------tcccactctcttgctcctgctttccccaggtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttaggctttttgtacagcctatggaactataagccaattaaacctatcttcttataaatgacccagtctcagaaatttctttatagcaatgcaagaacagactaataca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3124265 425 -  32808036 cacagtgatagagtttggatgtgtgtccccacccaaatctcatattgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttctcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgatatctggtcatttaaaagtgtgtggcacctcccc-----------tcccactctcttgctcctgctttccccaggtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagcagatgccagtgttaggctttttgtacagcctatggaactatgagccaattaaacccatcttcttataaatgacccagtctcagaaatttctttatagcaatgcaagaacagactaataca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7314256 425 +  34552619 catagtgatagggtttggatgtgtgtccccacccaaatcttatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttctcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgatatctggtcatttagaagtgtgtggcacctcccc-----------tcccactctcttgctcctgctttccccaggtgacgtgcaagctccagctttgtcttctgccatgactgtaagctttcagaggcctccccagaagtagatgccagtgttaggctttttgtacagcctatggaactatgatccaattaaacctatcttcttataaatgacccagtctcagatatttctttatagcaatgcaagaacagactaataca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104620215 425 - 133663169 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttagactttttgtatagcctatggaaccatgaaccaattaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaagaacagactaataca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109019796 425 - 137757926 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttagactttttgtatagcctatggaaccatgaaccaattaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaagaacagactaataca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1397744 425 -   7948249 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagcttttagaggcctccccagaagtagatgccagtgttagactttttgtatagcctatggaaccatgaaccaattaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaagaacagactaataca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8298316 425 -  10730278 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttaacaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttagactttttgtacagcctatggaaccatgaaccaattaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaggaacagactaataca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100789252 425 - 128539186 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaaggtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgctctcatgagacctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttagactttttgtacagcctatggaaccatgaaccaactaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaagaacagactaataca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       184876 425 +    435186 cacagtgatagagtttggatgtgtgtccccacccaaacctcatgttgaaatgtaatccccagtgttggaggtggggcctggtgggaagtgattggatcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctgtcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcggcagctcccc-----------tcccactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgattgtaagctttcagaggcctccccagaagtagatgccagtgttagactttttgtatagcctatggaaccatgaaccaattaaatctatcttcttataaattacccactctcagatatttctttatagcaatgcaagaacagactaataca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3578686 435 +   9309688 cacagtgatagagtttggatgtgtgtccctacccaaatctcatgttgaaatgt-atccccagtgttggaggtgggccctgatgggaagtgattggagcatgggggcagatttatcatgaatgatttagcaccatccccttggtgctctcctcatgatagtgagtgtgttctcatgagatctggtcatttaaaagtgcgcagcagctcccctctttctcctttctcactctcttgctcctgctttccccatgtgacgtgcaagctccagctttgccttctgccatgactgtaagctttcagaggccaccccagaagtagatgccagtgttagactttttgtacagcctatggaaccattaaccaattaaacctatcctcttagaaattacccagtctaaggtatttctctatagcaatgcaagaacagactaataca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11410078 410 -  29834108 cacagcgatagcgtttggatgtgtgtgcccacccaaatctcatgttgaaatgtaatccccagtgttggatgtggggcttggtgggaagtgattggatcatggaggcagatttctcttgaatgatttagcaccatccccttggtgctgtcctcacgatagtgagtgcattctcatgagatctggtcacttaaatgtg-------------------------tagcac-ctcttgctcctgctttctccatgtgacttgcaagctccagctttgccttctgccatgactgtaagcttccagaggcctccccagaagtagatgccagtgttaggctttttgtacagcttacagaaccatgagccaattaaacctatcttcttataaattactcagtgtcagatatttctttatagcaaggcaagaacagactaataca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       862331 410 -   1015025 caCGGTGACAGCgtttggatgtgtgtccccacccaaatctcatgttgaaacgtaatccccaatgttggaggtggggcttggtgggaagtgattggatcatgggggcagatttctcttgaatgatttagcaccatccccttggtgctgacctcacgatagtgagtgcgttctcatgagatctggtcatttaaatgtg-------------------------tagcac-ctcttgctcctgctttctccatgtgacttgcaagctccagccttgccttctgccatgactgtaagcttccagaggcctccccagaagtagatgccagtgttaggctttttgcacagcctacagaaccataagccaattaagcctatcttcttataaattacccagtctcagatatttctttacagcaatgcaagaacagactaataca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1881993 410 -   2295209 cacagtgatagagtttggatgtgtgtccccacccaaatctcatgttgaaatgtaatccccagtgctggaggtggggtttggtgggaagtgattggatcgtgggggcagatttctcttgaatgatttagcaccatctccttggtgctgtcctcacaatagtgagtgcgttctcatgagatctggtcacttaaatgtg-------------------------tagcac-ctcttgctcctgctttctccatgtgacttgcaagctccagctttgccttctgccatgactgtaagcttccagaggcctccccagaagtagatgccagtgttaggctttttgtacagcctacagaaccatgagccaattaaacctatcttcttataaattacccagtctcagatacttctttatagcaatacaagaacagactaataca
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4581679   0 -  12054995 C
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017638 1325 +  31815103 I
e canFam3.chr27              19735425   0 +  45876710 C
e proCoq1.NW_012140524v1      5107284 1323 +  13104022 I
e dasNov3.JH562883             935489 958 -   1687904 I

a score=1764762.000000
s hg38.chr12_GL383549v1_alt     93905 163 +    120804 cacaggcacccaaataatctgcatccaggtttctgatccacagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatctgtt--------------ctgcagcaatagctaactaa---tGGGGTAAT-----------------------AGTTATAGAAACAaagagtaacccgcatccacaa
s panTro5.chr12              62785467 163 + 137163284 cacaggcacccaaataatctgcatccaggtttctgatccacagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatctgtt--------------ctgcagcaatagctaactaa---tGGGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909197 162 + 135337776 cacaggcacccaaataatctgcatccaggtttctgatccacagaaactaagaaaataaatgttagttgttttaagcca-caagttttggggtaatctgtt--------------ctgcagcaatagctaactaa---tGGGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3124690 163 -  32808036 cacaggcacccaaataatctgcatccagttttctgatccacagaaactaagaaaataaatgttagttgttttaagccaccaagttttggagtaatctgtt--------------ctgcagcaatagctaactaa---tGGGGTAAT-----------------------AGTCATAGAAACAaagagtaaccagcatccacaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7314681 163 +  34552619 cacaggcacccaattaatctgcatccaagtttctgatccacagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatctgtt--------------ctgcagcaatagctaactaa---tGGGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccgcaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104620640 163 - 133663169 cacaggcacccaaataatccgtatccaggtttctgatccccagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020221 163 - 137757926 cacaggcacccaaataatccgtatccaggtttctgatccccagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398169 163 -   7948249 cacaggcacccaaataatccgtatccaggtttctgatccccagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8298741 163 -  10730278 cacaggcacccaaataatccgtatccaggtttctgatccccagaaactaagaaaatacatgttagttgttttaagccaccaacttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTATT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100789677 163 - 128539186 cacaggcacccaaataatctgcatccaggtttctgatccccagaaactaagaaaataaatgttagttgttttaagccaccaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcattcacaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185301 163 +    435186 cacaggcacccaaataatctgtatccaggtttctgatccccagaaactaagaaaataaatgttagttgttttaagccacaaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAaagagtaaccagcatccacaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579121 163 +   9309688 cacaggcacccaaataatctgcatccaggtttctgatccccagaaactaagaaaataaatgttaattgttttaagccaccaagttttggggtaatttgtt--------------ctgcagcaatagataactaa---tGAGGTAAT-----------------------AGTTATAGAAACAGAGagtaaccagcatccacaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11410488 163 -  29834108 cacaggcacccaaataatctgaatccaggtttctgattcacagaaaccaagaaaataaacgttagctgttttaagtcaccacgttttggggtaatttgtt--------------ctgcagcaatagataactaT---TGGGGTAAT-----------------------AGTCATAGAAACAaagagtaaccagcatccacag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       862741 163 -   1015025 cacaggcacccaaataatctgaatccaggtttctgattcacagaaactgagaaaataaacattagttgttttaagtcaccaagttttggggtaatttatt--------------ctgcagcaatagataacgaa---tGGGGTAAT-----------------------AGTCATAGAAACAAAGAGTAACCAGCATCCACAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1882403 163 -   2295209 cacaggcacccaaataatctgaatccaggtttctgattcacagaaactgagaaaacaaacgttagttgttttaagtcaccaagttttggggttatttgtt--------------ctgcagcaatagataactaa---tGGGGTAAT-----------------------AGTCATAGAAACAAAGAGCaaccggcatccacag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4581679 200 -  12054995 cacaagcacccaactaattggcaccctgatttctgatccataaaaactcagaaaatagatgtttatcgttttcagccaccaaattttgggagaatttgttatcctgttatccagcagtagaaatagataaccaa---GGGGGTAATAATCATATACTATTACTAGAGAGAATTATAGAAACAAAGAGTAACCAGGATATGCAT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735425 162 +  45876710 cataagcatccaactaggctgcactcagattcctga-ccatagaaatggaaataataggtgtttgttattctaagtcatccagttttggggca--ttttt--------------atgaaacaatagacagctGGGGTGGGGGAAAT-----------------------GGTTATAT-AACAAAAAGTAACTAGCATATGTCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             936447 159 -   1687904 caggggcacccagctcagctgcacccagattcctgacccaaagaaaccaagatagtagcggctccttgttgtaagtcaccaaggttgggagtaactggaa--------------atgcagcaacagataaGGAA---GGGGGG--------------------------AGCTCTATAAGCAAAGAGCAACGAGCCCAGGCT-
i dasNov3.JH562883          I 958 C 0
e mm10.chr6                   2420155 216 - 149736546 I
e micMur3.chr21               3017638 1325 +  31815103 I
e proCoq1.NW_012140524v1      5107284 1323 +  13104022 I

a score=971624.000000
s hg38.chr12_GL383549v1_alt     94068 69 +    120804 tgtctttattatgtgtctgaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
s panTro5.chr12              62785630 69 + 137163284 tgtctttattatgtgtctgaaactgggctagatgtttaacatgcatcatttcatttatttctcacaatg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909359 61 + 135337776 tgtctttattatgtgtctgaaactggactagatgtttaacatg--------catttatttctcacaatg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3124853 69 -  32808036 tgtctttattatgtgtctgaaactggattagatgtttaacatgcatcatttcatttatttctcacaatg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7314844 69 +  34552619 tgtctttattatgtgtctgaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104620803 69 - 133663169 cgtctttattatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020384 69 - 137757926 cgtctttattatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398332 69 -   7948249 cgtctttattatgtgtcagaaactggactagatgtttaacatgtatcatttcatttatttctcacaatg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8298904 69 -  10730278 cgtctttatcatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100789840 69 - 128539186 cgtctttattatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185464 69 +    435186 cgtctttattatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacaatg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579284 69 +   9309688 cgtctttattatgtgtcagaaactggactagatgtttaacatgcatcatttcatttatttctcacagtg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11410651 69 -  29834108 tgtctttattatatgtcacaaactggactagatgtttaacatgcatcatttcatgtatttctcacaaTG
i saiBol1.JH378123          C 0 I 656
s cebCap1.NW_016107911v1       862904 69 -   1015025 TGTCTttattatgtggcagaaactgggctagatgtttaacatgcatcatttcatacatttctcacaaTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1882566 69 -   2295209 tgtctttattatgtgtcagaaactggactagatgtttaacatgtatcatttcatatatttctcacaaTG
i aotNan1.NW_018488218v1    C 0 I 558
s micMur3.chr21               3018963 69 +  31815103 tgtctttattatgtgtcagaaactggactaaatgtttactatgcatcatttaatttacttctcacaata
i micMur3.chr21             I 1325 I 3
s proCoq1.NW_012140524v1      5108607 69 +  13104022 tgtctttattatgtgtcagaaactggactaaatgtttaacatgcatcatttcatttatttctcacaata
i proCoq1.NW_012140524v1    I 1323 I 3
s otoGar3.GL873576            4581879 64 -  12054995 TATCTttattatgtgtaaaaaactggaataaatgttgaacatgcatc-----atttatttcccacaata
i otoGar3.GL873576          C 0 I 3
s canFam3.chr27              19735587 66 +  45876710 TGTCTct---atgtgtcagaaactagattaaatgtttaatatgcatcatctcacttatttctcaaaata
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             936606 68 -   1687904 Tgtatttgctgtgtgtcaagacctgg-ctaaatgctgagcgtgcgccatctcatttaattctcctagct
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I

a score=48773.000000
s hg38.chr12_GL383549v1_alt     94137 3 +    120804 cta
s panTro5.chr12              62785699 3 + 137163284 cta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909420 3 + 135337776 cta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3124922 3 -  32808036 cta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7314913 3 +  34552619 cta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104620872 3 - 133663169 cta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020453 3 - 137757926 cta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398401 3 -   7948249 cta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8298973 3 -  10730278 cta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100789909 3 - 128539186 cta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185533 3 +    435186 cta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579353 3 +   9309688 cta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11411376 3 -  29834108 cta
i saiBol1.JH378123          I 656 C 0
s cebCap1.NW_016107911v1       862973 3 -   1015025 CTA
i cebCap1.NW_016107911v1    C 0 I 559
s aotNan1.NW_018488218v1      1883193 3 -   2295209 cta
i aotNan1.NW_018488218v1    I 558 C 0
s micMur3.chr21               3019035 3 +  31815103 cta
i micMur3.chr21             I 3 C 0
s proCoq1.NW_012140524v1      5108679 3 +  13104022 cta
i proCoq1.NW_012140524v1    I 3 C 0
s otoGar3.GL873576            4581946 3 -  12054995 cta
i otoGar3.GL873576          I 3 C 0
s canFam3.chr27              19735656 3 +  45876710 tca
i canFam3.chr27             I 3 C 0
s dasNov3.JH562883             936674 3 -   1687904 cta
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I

a score=3137459.000000
s hg38.chr12_GL383549v1_alt     94140 243 +    120804 tgagatattatcgttatccccgtcttacaggtaagaaaactgagacataaagaggctgcttgacttattcaaggttgcactgctaataaatggaagagctaggactgaagcccatgtctgatttaagagtccttgctccaaaatcaatgaatacctcctcccaGGCACATGCAATGAGCTTCATGCAACAGAGAAAGTGTAT---AATTCCCCAGGTGACCAAGGGAGAGAGTCAGGCATTAATGC
s panTro5.chr12              62785702 243 + 137163284 tgagatattattgttatccccgtcttacaggtaagaaaactgagacataaagaggttgcttgacttattctaggttgcactgctaataaatggaagagctaggactgaagcccatatctgatttaagagtccttgctcCAAAATCAATGAATACCTCCTCTCAGGCACATGCAATGAGCTTCATGCAACAGAGAAAGTATAT---AATTCCCCAGGTGACCAAGGGAGAGAGTCAGGCATTAATGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909423 243 + 135337776 tgagatattattgttatccccgtcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcactgctaataaatggaagagctaggactgaagcccatgtctgatttaagagtccttgctccaaaatcaatgaatacctcctcccaGGCACATGCAATGAGCTTCATGCAACAGAGAAAGTGTAT---AATTCCCCAGGTGACCAAGGGAGAGAGTCAGGCATTAATGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3124925 243 -  32808036 tgagatattattgttatccccgtcttacagttaagaaaattgagacataaagaggttgcttgacttattcaaggttgcactgctaataaatggaagagctaggactgaagcccatgtctgatttaagagtccttgctccaaaatcaatgaatatctcctcccaGGCACATGTAATGAGCTTCATGCAACAGAGAAAGTATAT---AATTCCCCAGGTGACCAAGGGAGAGAGTCAGGCATTAACGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7314916 243 +  34552619 tgagatattattgttatccccatcttacaggtaagaaaactgagacataaagaggttgcttgatttattcaaggttgcactgctaataaatggaagagctaggactgaagcccatgtctgatttaagagtccttgctccaaaatcaatgaatacctcctcccaGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTCCCCAGGTGACCAAGGGAGAGAGTCAGGCATTAATGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104620875 241 - 133663169 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctaatttaagagtccttgctcCAAAATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGG--GAGAGTCAGGCATTAATGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020456 241 - 137757926 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctaatttaagagtccttgctcCAAAATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGG--GAGAGTCAGGCATTAATGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398404 241 -   7948249 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctaatttaagagtccttgctcCAAAATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGG--GAGAGTCAGGCATTAATGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8298976 241 -  10730278 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctaatttaagagtccttgctcCAAAATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAGGG--GAGAGTCAGGCATTAATGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100789912 241 - 128539186 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctgatttaagagtccttgctcCAAAGTCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGG--GAGAGTCAGGCATTAATGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185536 241 +    435186 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgttaataaatggaagagctaggactgaagcccatgtctaatttaagagtccttgctctaaaATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGG--GAGAGTCAGGCATTAATGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579356 243 +   9309688 tgagatattattgtcatccccatcttacaggtaagaaaactgagacataaagaggttgcttgacttattcaaggttgcattgccaataaatggaagaactaggactgaagcccatgtctaatttaagagtccttgctcCAAAATCAATGAATACCTCCTACCAGGCACATGCAATGAACTTCATGCAACAGAGAAAGTATAT---AATTACCCAGGTGACCAAGGGAGAGAGTCAGGCATTAATGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11411379 235 -  29834108 tgagatgttattgttatccccattttacaggtaagaaaactgagacataaaaaggttgcctgacttattcaaggctacattgctagtaaatggaagagggagggctgaagcccatatctgatttaagagtccttgctccaaggtcagtaaatacttcctctgaggcacatgcAATGAGCTTCACGCAACAAA--------GT---AACTCCTGAGGTGATCAAGGGAGGGAGTCAGGCATTAATGC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       863535 235 -   1015025 tgagatagtattgttatccccatttaacaggtaagaaaactgagacataaagaggttgcttggcttattgaaggctacactgctagtaaatggaagagctagggctgaagcccatgtctgatttaagagtccttgctcCAAGGTCAGTGAATACTTCCTCCCAGGCACATGCAATGAGCTTCACGCAACAAA--------GT---AACTCCTGAGGTGACCAATGGAAGGAGTCAGGCATTAATGC
i cebCap1.NW_016107911v1    I 559 C 0
s aotNan1.NW_018488218v1      1883196 243 -   2295209 tgagatattattgttatccccattttacagttaagaaaactgagacataaagaggttgcttgacttattcaacgctacactgctaataaatggaagcgctagggctgaagcccatgtctgatttaagagtccttgctccaaggtcagtaaatacttcctctgaggcacatgcAATGAGCTTCACGCAACAAAGAAAGTATGT---AACTCCCGACGTGACCAAGGGAGGGAGTCAGGCATTAATGC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3019038 246 +  31815103 tcagatactattgttatccccattttacaggtgagaaaattcagacgtagagaggtcacttgacttgctgaaggctacattgctagtaaatggagaagctagaactcaagtttgcatttgatttaagagtccttgctcCAAAGTCAGTGAATACTGCCTCCCAGGCACATGCAAAGGGTTTCACGCAGCAGAGAAAGTGTATAAAAACTccagaggtgaccaagggagagagtcaggcaatggtgc
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5108682 246 +  13104022 tgagatactattgttatccccattttacaggtgagaaaactgagacatagagaggtcacttgacttgctcaaggctacattgctagtaaatggaggagctagaactcaagtctgcatctgatttaagagtccttgctccaaagtcagtgaatactgcctcccAGGCACATGCAATGGGTTTCGTGCAACAGAGAAATTATATAAAACCTCCAGAGGTGACCAAGGGAGAGAGTCAGGCAATAATGC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4581949 229 -  12054995 ggagatactactgttatacccattttataggtggtaaaaccgagacat----atgtgatttgacttgctcaagcctacagtgctaataaatggag--gcca-----------cgtgtctgatttaagaatccttgctccaaactcaatgAATACTGCCCGCCAGGCACATACAAGGAGGTTCAGGCCATAGAGAAAGTATATATAAATTCTAGAGGTGACCAAGGGAGTCAGCCAGGCAACAATAC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19735659 242 +  45876710 taagatactattattatccccattttacagatgagaaaattgagacatggagaggtca-ttgacttgtgtaaggctcttctgctagtaaatggaagaactaggactcaagcccacaaccgatttaaaagtccttgctcCAAAGCCAGTGAATGCTGCCTCCCAGACATAGGCAATGGGTTTCATACAACAGTGAAAACATAA--AAACTCCAGAGATTACTAAGGGAAAGAGTCA-GCAATGATGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             936677 227 -   1687904 tcagatgccgttgttagtcccattttacagatgaggatgtggagactcggggagg-cgccaggc--------ggcggcgacgctggtaaatggaggagctggtactcgaggccacatctgattc--gagtccttgctccacagccagtgcCTAC-GACGCTCAGGCACGTGCACCGGGTTTCCCGCAACAAAGAAAGTGTTTACAAACTGCAGAGGTGATGGAGA--AGTAGCCGGGACCC-----
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420155 216 - 149736546 I

a score=1378936.000000
s hg38.chr12_GL383549v1_alt     94383  91 +    120804 CTGAAGGTTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
s panTro5.chr12              62785945  91 + 137163284 CTGAAGACTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909666  91 + 135337776 CTGAAGGTTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125168  91 -  32808036 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315159  91 +  34552619 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATATTGGG--------------TCTGGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621116  91 - 133663169 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020697  91 - 137757926 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398645  91 -   7948249 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299217  91 -  10730278 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790153  91 - 128539186 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185777  91 +    435186 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGGAAGTCCATTATAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579599  91 +   9309688 CTGAAGGCTTTAGAGAA-GTTTTTGTGTTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTATAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11411614  91 -  29834108 CTGAAGGCTTTAGAGAT-GTTTTTGTATTTATGTTGGG--------------TTTATAAGAATAAGAAGCTAATCAGACCTCTAAAAATTGAAAGTCCATTATAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       863770  91 -   1015025 CTGAAGGCTTTAGAGAC-GTTTTTGTATTTACGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAAGTCCATTAAAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883439  92 -   2295209 ATGAAGGCTTTAGAGACGGTTTTTGTATTTATGTTGGG--------------TCTAGAAGAATAAGAAGCTGATCAGACCTCTAAAAATTGAAACTCCGTTATAGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3019284  91 +  31815103 ctgaaggttttagagaa-gtttttgtatttatgttagg--------------tctggaaggataagaagttgatcagacctctaaaaattgaaagtccattatagg
i micMur3.chr21             C 0 I 89
s proCoq1.NW_012140524v1      5108928  91 +  13104022 CTGAATGTTTTAGAGAA-GTTTTTCTATTTATGTTAGG--------------TCTAGAAGGATAAGAAGTTAATCAAAGCTCTAAAAATTGAAAGTCCATCATAGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4582178 105 -  12054995 CTGAAGGTTTTAGAGAA-GTTTTTATATTTATGTTAAGAAATATCTAGAATATCTAGAAAGATAAGAAGCTGGTGAGACCTCTAAAAAATGAAACTCCATTATAGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2420371  84 - 149736546 CTGAAAGCTGTAGAGAT-GTTCTTGTATTTCTTTTGGG--------------TCTATAAGAATGAGAAGCTA-------TCCTAAATATTGGACATCTGTTAGAGG
i mm10.chr6                 I 216 C 0
s canFam3.chr27              19735901  91 +  45876710 CTAAAGGTTTTAGAGAA-GGTTTTGCCTTTATTTTGGG--------------TCTACAAAGATCAGAAGTTGATCAGAACTCTAAAACTTGAAAGTCCATTATAGG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             936904  77 -   1687904 CTGGAGGTTTTAGGGCA-GTTTCT-TACTCATGTGGGA--------------CCTG---GGATAAGAAGCTCATAAGAGCTCTGGGAACCG----------ACGAG
i dasNov3.JH562883          C 0 C 0

a score=1096659.000000
s hg38.chr12_GL383549v1_alt     94474 106 +    120804 AC-TTGCCTAAGCGGACTGTCATGTTC-AAAGGCATATGAGGTAGAAAAATCTCTTCAAATTTCAGAACTTCTGGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCCAT
s panTro5.chr12              62786036 106 + 137163284 AC-TTGCCTAAGCAGACTGTCATGTTC-AAAGGCATATGAGGTAGAAAAAGCTCTTCAAATTTCAGAACTTCTGGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909757 106 + 135337776 AC-TTGCCTAAGCGGACTGTCATGTTC-AAAGGCATATGAGGTAGAAAAAGCTCTTCAAATTTCAGAACTTCTGGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCCAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125259 105 -  32808036 AC-TTGCCTAAGCGGACTGTCATGTTC-AAAGGCATATGAGGTAG-AAAAGCTCTTCAAATTTCAGAACTTCTGGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCCAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315250 106 +  34552619 AC-TTGCCTAAGCAGCCTATCATGTGC-AAAGGCATATGAGGTAGAAAAAGCTCTTCAAATTTCAGAACTTCTGGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621207 104 - 133663169 AC---AGCTAAGAAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020788 104 - 137757926 AC---AGCTAAGAAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398736 104 -   7948249 AC---AGCTAAGAAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299308 104 -  10730278 AC---AACTAAGCAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790244 106 - 128539186 AC-TTACCTAAGCAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185868 104 +    435186 AC---AACTAAGCAGACTATCATGTGC-AAAGGCATGTGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAATACAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579690 106 +   9309688 AC-TTACCTAAGCAGACTATCATGTGC-AAAGGCATATGAGGTAGAAAAAGCTCTTCAAATTTGAGAACTTCTAGTATAAAGTTCAAAGCTATGGGAGAT---GAGGCTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11411705 104 -  29834108 AC-TTGCCTAAGCAGAC--TTATGTGC-AAATGCATGTGAGGTAGAAAAAACTCTTCAAATTTAAGACCTTCTAGTATAAAGTTCAAAGCTAAAGGAGTA---GAGGCTAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       863861 105 -   1015025 -C-TTGCCTAAGCAGACTATCATGTGC-AAATGCATGTGAGGTAGAAAAAGCTCTTCAAATTTAAGAACTTCTGGTATAAAGTTCAAAGCTATAAAAGAT---GAGGCTAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883531 106 -   2295209 AC-TTGCCTAAGCAGACTATCATGTGC-AAATGCATATGAGGTAGAAAAAGCTCTTCAAATTTAAGAACTTCTGGTATAAAGTTCAAAGCTATAGGAGAT---GAGGCTAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5109019  89 +  13104022 --------CAGAAAGACTAACAAATGT-AAAGGCATATGGGATAGAAAAAGATCTTCAAATTTGAGAACTTCTAATATAAAGTTCAAGGCTGTGGTAG-------------
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4582283  88 -  12054995 --------CAGAAAGACTAACAACTGC-TAAGGCACAT-GGATAGAAAAAGCTCTTCAAATTTGCAAACTTCTGAAACAAAGTTCAAAGCCGTGGTAG-------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2420455  82 - 149736546 --------CAGAAAAACTAACACA--------ATATATGGAGTAGA-------TTTCCTGATTGGCAACATGTGGTGTAAGTTTGAAAGCT---GGAGAT---GAGGCCAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19735992  97 +  45876710 --------TAGAAAGACTAACACA--C-AAAGGCATACAAGGTAGAAAAAGGTCTTCAAATGTGAGAACTTTTGGTATAAATTTCAAAGCTGTGGGAACT---GAGGCTAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             936981 109 -   1687904 -CGTCAGGTGGGAAGGCCGAGGTGTGCAAAAAGCACCCAGGGAAG-AAACGCTCTTCAAAGGTGAGGACTTCTAGCACTAAGTTCAGAGCTGTAAGAGATGAGGAGGCTAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3019375  89 +  31815103 I

a score=548222.000000
s hg38.chr12_GL383549v1_alt     94580 43 +    120804 GTAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
s panTro5.chr12              62786142 43 + 137163284 GTAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909863 43 + 135337776 GTAAATAAAT-----AAGGCTAGATTGCCAAAGAGTTTTCT-CCTGTTA---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125364 43 -  32808036 GTAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315356 43 +  34552619 GTAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621311 43 - 133663169 GTAAATGAAT-----AAGGCTAGATTGCAAAAGCGTTTTCT-CCTGTTA---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020892 43 - 137757926 GTAAATGAAT-----AAGGCTAGATTGCAAAAGCGTTTTCT-CCTGTTA---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398840 43 -   7948249 GTAAATGAAT-----AAGGCTAGATTGCAAAAGCGTTTTCT-CCTGTTA---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299412 43 -  10730278 GTAAATAAAT-----AAGGCTAGATTGCAAAAGCGTTTTCT-CCTGTTA---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790350 43 - 128539186 GTAAATAAAT-----AAGGCTAGATTACAAAAGCATTTTCT-CCTGTCA---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       185972 43 +    435186 GTAAATAAAT-----AAGGCTAGATTGCAAAAGCGTTTTCT-CCTGTTA---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579796 43 +   9309688 GTAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11411809 43 -  29834108 GCAAATAAAT-----AAGGCTAGATTGCAAAAGGGTTTTCT-CCTGTTA---
i saiBol1.JH378123          C 0 I 1547
s cebCap1.NW_016107911v1       863966 43 -   1015025 GCAAATAAAT-----AAGGCTAGATTGCAAAAGGATTTTCT-CCTGTTA---
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1883637 43 -   2295209 GCAAATAAAT-----AAGGCTAGACTGCAAAAGGGTTTTCT-CCTGTTA---
i aotNan1.NW_018488218v1    C 0 I 3
s micMur3.chr21               3019464 44 +  31815103 GTAAATAGAT-----AAGCCTAGACTGCAAAAGGATTTTTTTCCCATTA---
i micMur3.chr21             I 89 I 3
s proCoq1.NW_012140524v1      5109108 44 +  13104022 GTAAATAGAT-----AAGCCTAGACTGCAAAAGGATTTTTTCCCCATTA---
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4582371 43 -  12054995 GTAAATAGAT-----AAGCCTAGACTGCAAAAGAAGTTTCT-CCCATTA---
i otoGar3.GL873576          C 0 I 3
s mm10.chr6                   2420537 37 - 149736546 ------GTCC-----TCGGGAAGTCTGCAGGGGGCATTATC-TCAGGAA---
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19736089 48 +  45876710 GTAAATTGATAAACCAAAGCTGGCCTGCAAAAGAGTTTTCT-CCCATTA---
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             937090 44 -   1687904 GTAAGCAG-------GAGGCCAGGTGGCAAGACGATTTTCT-CCCCCTTGAC
i dasNov3.JH562883          C 0 C 0

a score=868657.000000
s hg38.chr12_GL383549v1_alt     94623 57 +    120804 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
s panTro5.chr12              62786185 57 + 137163284 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i panTro5.chr12             C 0 I 5
s panPan2.chr12              60909906 57 + 135337776 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i panPan2.chr12             C 0 I 5
s gorGor5.CYUI01000003v1      3125407 57 -  32808036 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i gorGor5.CYUI01000003v1    C 0 I 5
s nomLeu3.chr23               7315399 57 +  34552619 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATCA
i nomLeu3.chr23             C 0 I 5
s rheMac8.chr11             104621354 57 - 133663169 GAAACGC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i rheMac8.chr11             C 0 I 5
s macFas5.chr11             109020935 57 - 137757926 GAAACGC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i macFas5.chr11             C 0 I 5
s macNem1.NW_012011422v1      1398883 57 -   7948249 GAAACGC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i macNem1.NW_012011422v1    C 0 I 5
s cerAty1.NW_011999477v1      8299455 57 -  10730278 GAAACAC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i cerAty1.NW_011999477v1    C 0 I 5
s chlSab2.chr11             100790393 57 - 128539186 GAAACAC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i chlSab2.chr11             C 0 I 5
s manLeu1.NW_012101287v1       186015 57 +    435186 GAAACAC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTATCTTTCAGCTCTTAAATATAA
i manLeu1.NW_012101287v1    C 0 I 5
s colAng1.NW_012114364v1      3579839 57 +   9309688 AAAACAC-AAA--------------TTTTTAATTGAGTTACTCTTCCTTTACCTTTCAGCTCTTAAATATAA
i colAng1.NW_012114364v1    C 0 I 5
s saiBol1.JH378123           11413399 57 -  29834108 aAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTGTCTTTTAGCTATTAAATATAA
i saiBol1.JH378123          I 1547 I 5
s cebCap1.NW_016107911v1       864012 57 -   1015025 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCGTCCTTTATCTTTCAGCTCTTAAATATAA
i cebCap1.NW_016107911v1    I 3 I 5
s aotNan1.NW_018488218v1      1883683 57 -   2295209 AAAACAC-AAA--------------TTTTTAATTGGGTTACTCTTCCTTTATCTTTCAACTCTTAAATATAA
i aotNan1.NW_018488218v1    I 3 I 5
s micMur3.chr21               3019511 58 +  31815103 AAAACACTAAT--------------TTTTTAATTGGGTTACTCATCCTTTACCTTTCAGGTCTTAAATATAA
i micMur3.chr21             I 3 I 1
s proCoq1.NW_012140524v1      5109155 58 +  13104022 AAAACACTAAT--------------TTTTTAATTGGGTTACTCATCCTTTATCTTTCAGCTCTTAAATATAA
i proCoq1.NW_012140524v1    I 3 I 16
s otoGar3.GL873576            4582417 58 -  12054995 AAAACACTAAT--------------TTTTTAATTGGGTTACTCATCCTTTATTTTTCAGCCCTTAAATATAA
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2420576 71 - 149736546 AAAACAT-AGTGAGCTCATTTGTCCTTTTCACGTCCTTTTCCTCTTCCTTGTCCCTCAGTTCTCAAATATAA
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19736140 57 +  45876710 GAAACAC-TAA--------------TTTTTAATTGAGTTCTTGCTCCTTTATCTTTCATCTCTTAAATATGC
i canFam3.chr27             I 3 I 5
s dasNov3.JH562883             937134 57 -   1687904 GAAACAC-TGA--------------CTTTGCACTGGGTTACCCTTCTGTTATCTTTCAGCTCTTAACTATAA
i dasNov3.JH562883          C 0 C 0

a score=20298.000000
s hg38.chr12_GL383549v1_alt     94680 2 +    120804 AT
s panTro5.chr12              62786247 2 + 137163284 AT
i panTro5.chr12             I 5 C 0
s panPan2.chr12              60909968 2 + 135337776 AT
i panPan2.chr12             I 5 C 0
s gorGor5.CYUI01000003v1      3125469 2 -  32808036 AT
i gorGor5.CYUI01000003v1    I 5 C 0
s nomLeu3.chr23               7315461 2 +  34552619 AT
i nomLeu3.chr23             I 5 C 0
s rheMac8.chr11             104621416 2 - 133663169 AT
i rheMac8.chr11             I 5 C 0
s macFas5.chr11             109020997 2 - 137757926 AT
i macFas5.chr11             I 5 C 0
s macNem1.NW_012011422v1      1398945 2 -   7948249 AT
i macNem1.NW_012011422v1    I 5 C 0
s cerAty1.NW_011999477v1      8299517 2 -  10730278 AT
i cerAty1.NW_011999477v1    I 5 C 0
s chlSab2.chr11             100790455 2 - 128539186 AT
i chlSab2.chr11             I 5 C 0
s manLeu1.NW_012101287v1       186077 2 +    435186 AT
i manLeu1.NW_012101287v1    I 5 C 0
s colAng1.NW_012114364v1      3579901 2 +   9309688 AT
i colAng1.NW_012114364v1    I 5 C 0
s saiBol1.JH378123           11413461 2 -  29834108 GT
i saiBol1.JH378123          I 5 C 0
s cebCap1.NW_016107911v1       864074 2 -   1015025 GT
i cebCap1.NW_016107911v1    I 5 C 0
s aotNan1.NW_018488218v1      1883745 2 -   2295209 AT
i aotNan1.NW_018488218v1    I 5 C 0
s micMur3.chr21               3019570 1 +  31815103 A-
i micMur3.chr21             I 1 I 14
s otoGar3.GL873576            4582475 2 -  12054995 AT
i otoGar3.GL873576          C 0 I 6
s mm10.chr6                   2420647 2 - 149736546 AT
i mm10.chr6                 C 0 I 8
s canFam3.chr27              19736202 2 +  45876710 AT
i canFam3.chr27             I 5 C 0
s dasNov3.JH562883             937191 2 -   1687904 AT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5109213 16 +  13104022 I

a score=217246.000000
s hg38.chr12_GL383549v1_alt     94682 17 +    120804 --------ATT--AATTCAAAATCATG
s panTro5.chr12              62786249 17 + 137163284 --------ATT--AATTCAAAATCATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909970 17 + 135337776 --------ATT--AATTCAAAATCATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125471 17 -  32808036 --------ATT--AATTCAAAATCATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315463 17 +  34552619 --------ATT--AATTCAAAATCATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621418 17 - 133663169 --------ATT--AATTCAAAATCATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109020999 17 - 137757926 --------ATT--AATTCAAAATCATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398947 17 -   7948249 --------ATT--AATTCAAAATCATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299519 17 -  10730278 --------ATT--AATTCAAAATCATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790457 17 - 128539186 --------ATT--AATTCAAAATCATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186079 17 +    435186 --------ATT--AATTCAAAATCATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579903 17 +   9309688 --------ATT--AATTCAAAATCATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11413463 17 -  29834108 --------ATT--AATTCAAAATCATG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864076 17 -   1015025 --------ATT--AATTCAAAATCATG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883747 17 -   2295209 --------ATT--AATTCAAAATCATG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4582483 19 -  12054995 --------ATTCCATTTCAAAATCACG
i otoGar3.GL873576          I 6 C 0
s mm10.chr6                   2420657 17 - 149736546 --------GCC--ACCTCAAAATAATG
i mm10.chr6                 I 8 C 0
s canFam3.chr27              19736204 17 +  45876710 --------GCC--ATTTCAAAGTCATG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937193 25 -   1687904 AGAAAGAAACC--ATTTCAAAATCATG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3019571 14 +  31815103 I
e proCoq1.NW_012140524v1      5109213 16 +  13104022 I

a score=306062.000000
s hg38.chr12_GL383549v1_alt     94699 23 +    120804 TCC--------AAAAAAA--CACAATTTAAATT
s panTro5.chr12              62786266 23 + 137163284 TCC--------AAAAAAA--CACAATTTAAATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60909987 23 + 135337776 TCC--------AAAAAAA--CACAATTTAAATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125488 23 -  32808036 TCC--------AAAAAAA--CACAATTTAAATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315480 23 +  34552619 TCC--------AAAAAAT--CACAATTTAAATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621435 23 - 133663169 TCC--------AAAAAAA--CACAATTTAAATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021016 23 - 137757926 TCC--------AAAAAAA--CACAATTTAAATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398964 23 -   7948249 TCC--------AAAAAAA--CACAATTTAAATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299536 23 -  10730278 TCC--------AAAAAAA--CACAATTTAAATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790474 23 - 128539186 TCC--------AAAAAAA--CACAATTTAAATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186096 23 +    435186 TCC--------AAAAAAA--CACAATTTAAATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579920 23 +   9309688 TCC--------AAAAAAA--CACAATTTAAATT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11413480 22 -  29834108 TCC--------AAAAAA---CACAATTTAAATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864093 22 -   1015025 TCC--------AAAAAA---CACAATTTAAATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883764 22 -   2295209 TCC--------AAAAAA---CACAATTTAAATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3019585 23 +  31815103 TTC--------AAAAAAT--TAGAATTTAAATT
i micMur3.chr21             I 14 C 0
s proCoq1.NW_012140524v1      5109229 23 +  13104022 TTC--------AAAAAAA--TAGAATTTAAATT
i proCoq1.NW_012140524v1    I 16 C 0
s otoGar3.GL873576            4582502 31 -  12054995 TCCAAAAAAAAAAAAAAA--TAGAATTTAAACT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2420674 25 - 149736546 TCA--------AATAAAATCTAGGATTTAAGTT
i mm10.chr6                 C 0 I 232
s canFam3.chr27              19736221 21 +  45876710 -TC--------AAAAAA---TAGAATTTAAATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937218 20 -   1687904 -TC--------AAATA----TAGAATTTGAATT
i dasNov3.JH562883          C 0 C 0

a score=433604.000000
s hg38.chr12_GL383549v1_alt     94722 33 +    120804 TCCAGATCGTGTAAGTTAGGCTTTGCAATTGAC
s panTro5.chr12              62786289 33 + 137163284 TCCAGATCATGTAAGTTAGGCTTTGCAATTGAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910010 33 + 135337776 TCCAGATCATGTAAGTTAGGCTTTGCAATTGAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125511 33 -  32808036 TCCAGACCATGTAAGTTAGGCTTTGCAATTGAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315503 33 +  34552619 TCCAGATCATGTAAGTTAGGCTTTGCAATTGAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621458 33 - 133663169 TCCAGATCATGTAAGTTAGGCTTTGTAATTGTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021039 33 - 137757926 TCCAGATCATGTAAGTTAGGCTTTGTAATTGTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1398987 33 -   7948249 TCCAGATCATGTAAGTTAGGCTTTGTAATTGTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299559 33 -  10730278 TCCAGATCACGTAAGTTAGGCTTTGCAATTGTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790497 33 - 128539186 TCCAGATCATGTAAGTTAGGCTTTGCAATTGTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186119 33 +    435186 TCCAGATCATATAAGTTAGGCTTTGCAATTGTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579943 33 +   9309688 TCCAGATCACGTAAGTTAGGCTTTGCAATTGTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11413502 33 -  29834108 TCCAGGTCATGGAAGTTAGACTTTGCAATTGAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864115 33 -   1015025 TCCAGGTCATGGAAGTTAGGCTTTGCAATTGAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883786 33 -   2295209 TCCAGGTCATGGAAGTTAGGCTTTGCAATTGAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3019608 33 +  31815103 TATAGACTATGTAAGTTAGCCCTTGCAGCTGCC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5109252 33 +  13104022 TATAGACTATGTAAGTTAGGCCTTGCAGCTGCC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4582533 33 -  12054995 TGCAAACTATGTAAGATAAGCCTTGCAACTTCC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19736242 33 +  45876710 TACAGACTATGGAAGTTAGACCTTGCAACTGCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937238 33 -   1687904 GACAGTCTATGTAAGCTAGGCCTTGCAGCTGTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2420699 232 - 149736546 I

a score=6941773.000000
s hg38.chr12_GL383549v1_alt     94755 498 +    120804  
s panTro5.chr12              62786322 498 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910043 498 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3125544 497 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7315536 498 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621491 484 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021072 484 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399020 483 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8299592 484 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100790530 481 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186152 483 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3579976 484 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11413535 507 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864148 507 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1883819 507 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3019641 512 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5109285 516 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 154
s otoGar3.GL873576            4582566 520 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2420931 495 - 149736546  
i mm10.chr6                 I 232 C 0
s canFam3.chr27              19736275 500 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937271 503 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=84132.000000
s hg38.chr12_GL383549v1_alt     95253 5 +    120804 TAAAA
s panTro5.chr12              62786820 5 + 137163284 TAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910541 5 + 135337776 TAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126041 5 -  32808036 TAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316034 5 +  34552619 TAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621975 5 - 133663169 TAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021556 5 - 137757926 TAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399503 5 -   7948249 TAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300076 5 -  10730278 TAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791011 5 - 128539186 TAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186635 5 +    435186 TAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580460 5 +   9309688 TAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414042 5 -  29834108 TAAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864655 5 -   1015025 TAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884326 5 -   2295209 TAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3020153 5 +  31815103 TAAAA
i micMur3.chr21             C 0 I 175
s otoGar3.GL873576            4583086 5 -  12054995 TAAAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2421426 5 - 149736546 TAAAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19736775 5 +  45876710 TAAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937774 5 -   1687904 TGAAA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I

a score=275144.000000
s hg38.chr12_GL383549v1_alt     95258 24 +    120804 ACAAATGTATAGAGCTTTTAAAAT
s panTro5.chr12              62786825 24 + 137163284 ACAAATGTATAGAGCTTTTAAAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910546 24 + 135337776 ACAAATGTATAGAGCTTTTAAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126046 24 -  32808036 ACAAATGTATAGAGCTTTTAAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316039 24 +  34552619 ACAAACGTATAGAGCTTTTAAAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104621980 24 - 133663169 ACAAATGTATGGAGCTTTTAAAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021561 24 - 137757926 ACAAATGTATGGAGCTTTTAAAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399508 24 -   7948249 ACAAATGTATGGAGCTTTTAAAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300081 24 -  10730278 ACAAATGTATGGAGCTTTTAAAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791016 24 - 128539186 ACAAATGTATGGAGCTTTTAAAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186640 24 +    435186 ACAAATGTATGGAGCTTTTAAAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580465 24 +   9309688 ACAAATGTATGGAGCTTTTAAAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414047 24 -  29834108 ACAAATGTTTAGAGCTTTCAAAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864660 24 -   1015025 ACAAATGTATAGAGGTTTCAAAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884331 24 -   2295209 ACAAATGTATAGAGCTTTTAAAAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4583091 22 -  12054995 ACAAAA--ACAGAGATTTTAAAAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2421431 20 - 149736546 GCAAAAGTCCA----TTTCTAAAT
i mm10.chr6                 C 0 I 116
s canFam3.chr27              19736780 24 +  45876710 GCAAAAATAGAGAGCTTTTAAAAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937779 23 -   1687904 ACAAA-GTAGAGAGCTCATAAAAT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3020158 175 +  31815103 I
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I

a score=413155.000000
s hg38.chr12_GL383549v1_alt     95282 50 +    120804 CTAAAAGTagcctgggcaacatagggagaccccatctctacaagaaat-tt
s panTro5.chr12              62786849 50 + 137163284 ATAAAAGTagcctgggcaacatagggagaccccatctgtaccagaaat-tt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910570 50 + 135337776 ATAAAAGTagcctgggcaacatagggagaccccatctctacaagaaat-tt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126070 50 -  32808036 ATAAAAGTagcctgggcaacatagggagaccccatctctacaagaaat-tt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316063 50 +  34552619 ATAAAAGTagcctgggcaacatagggagaccccatctctacaagaaat-tt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622004 50 - 133663169 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021585 50 - 137757926 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399532 50 -   7948249 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300105 50 -  10730278 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791040 50 - 128539186 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186664 50 +    435186 ATAAAATTagcttggtcaacatagggagaccccatctctacaagaaat-tt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580489 50 +   9309688 ATAAAATTagcctggtcaacgtagggagaccccatctctataagaaat-tt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414071 50 -  29834108 ATAAAATTagcctgggcaacatagggaaaccccatctctataagaaat-tt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864684 51 -   1015025 ATAAAATTagcctgggcaacatagggaagccccatctctataagaaataaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884355 50 -   2295209 GTAAAATTagcctgggcaacatagggaaaccccatctctataagaaat-aa
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             937802  8 -   1687904 ------------------------------------------ATAAAT-TT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4583113  0 -  12054995 C
e mm10.chr6                   2421451 116 - 149736546 I
e micMur3.chr21               3020158 175 +  31815103 I
e canFam3.chr27              19736804  0 +  45876710 C
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I

a score=439045.000000
s hg38.chr12_GL383549v1_alt     95332 53 +    120804 aaaaattagctgggtgtggtggcacgtgcctgtggccctagctacttgggaag
s panTro5.chr12              62786899 53 + 137163284 aaaaattagctgggtgtagtggcacgtgcctgtggtcctagctacttgggaag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910620 53 + 135337776 aaaaattagctgggtgtggtggcacgtgcctgtggtcctagctacttgggaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126120 53 -  32808036 aaaaattagctgggtgtggtggcacgtgcctgtggtcctagctacttgggaag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316113 53 +  34552619 aaaaattagctgggtgtggtggcacgtgcctgtggtcccagctacttgggaag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622054 53 - 133663169 aaaagttagctgggtgcggtggcatgtgcctgtggtcccagctacttggaaag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021635 53 - 137757926 aaaagttagctgggtgcggtggcatgtgcctgtggtcccagctacttggaaag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399582 53 -   7948249 aaaagttagctgggtgcggtggcatgtgcctgtggtcccagctacttggaaag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300155 53 -  10730278 aaaagttagctgggtgtggtggtatgtgcctgtggtcccagctacttggaaag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791090 53 - 128539186 aaaagttagctgggtgtggtggcatgggcctgtggtcccagctacttggaaag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186714 53 +    435186 aaaagttagctgggtgtggtggcatgtgcctgtggtcccagctacttggaaag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580539 53 +   9309688 aaaagttagctgggtgtggtggcatgtgcctgtggtcccagctacttgggaaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414121 53 -  29834108 aaaaattagctgaaggagggggcacgtggctgtggtcccagctacttgggaag
i saiBol1.JH378123          C 0 I 5
s cebCap1.NW_016107911v1       864735 53 -   1015025 aaaaattagctgaaggagggggcacgtggctgtggtcccagctacttgggaag
i cebCap1.NW_016107911v1    C 0 I 31
s aotNan1.NW_018488218v1      1884405 53 -   2295209 aacaattagctgaaggagtgggcacgtggctgtggtccgagctaattgggaag
i aotNan1.NW_018488218v1    C 0 I 5
e otoGar3.GL873576            4583113  0 -  12054995 C
e mm10.chr6                   2421451 116 - 149736546 I
e micMur3.chr21               3020158 175 +  31815103 I
e canFam3.chr27              19736804  0 +  45876710 C
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I
e dasNov3.JH562883             937810  0 -   1687904 C

a score=194427.000000
s hg38.chr12_GL383549v1_alt     95385 27 +    120804 tgggaggatcacttgggtggaaaggtc
s panTro5.chr12              62786952 27 + 137163284 tgggaggatcatttgggtggagaggtc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910673 27 + 135337776 tgggaggatcatttgggtggagaggtc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126173 27 -  32808036 tgggaggatcatttgggtggagaggtc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316166 27 +  34552619 tgggaggatcatttgggtggaaaggtc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622107 27 - 133663169 tgggaggatcatttgggtgtagaggtc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021688 27 - 137757926 tgggaggatcatttgggtgtagaggtc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399635 27 -   7948249 tgggaggatcatttgggtgtagaggtc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300208 27 -  10730278 tgggaggatcatttgggtgtagaggtc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791143 27 - 128539186 tgggaggatcatttgggtgtagaggtc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186767 27 +    435186 tgggaggatcatttgggtgtagaggtc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580592 27 +   9309688 tgggaggatcacttgggtgtagaggtc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414179 27 -  29834108 ggtgagaatcctttgggcggagaagtc
i saiBol1.JH378123          I 5 C 0
s aotNan1.NW_018488218v1      1884463 27 -   2295209 ggtgagaatcctttgagtggggaggtc
i aotNan1.NW_018488218v1    I 5 C 0
e otoGar3.GL873576            4583113  0 -  12054995 C
e mm10.chr6                   2421451 116 - 149736546 I
e micMur3.chr21               3020158 175 +  31815103 I
e canFam3.chr27              19736804  0 +  45876710 C
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I
e dasNov3.JH562883             937810  0 -   1687904 C
e cebCap1.NW_016107911v1       864788 31 -   1015025 I

a score=456979.000000
s hg38.chr12_GL383549v1_alt     95412 55 +    120804 aaggatacagtgagccgtgaccgtgccactaccctccagcctgggtggcagagtg
s panTro5.chr12              62786979 55 + 137163284 aaggatacagtgagccgtgaccgtgccactaccctccagcctgggtggcagagtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910700 55 + 135337776 aaggatacagtgagccgtgaccgtgacactaccctccagcctgggtggcagagtg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126200 55 -  32808036 aaggatacagtgagccgtgaccgtgccactaccctccagcctgggtggcagagtg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316193 55 +  34552619 aaggatacagtgagccgagaccatgccactaccctccagcgtgggtggcagagtg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622134 55 - 133663169 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgacagagtg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021715 55 - 137757926 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgacagagtg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399662 55 -   7948249 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgacagagtg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300235 55 -  10730278 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgacagagtg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791170 55 - 128539186 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgagagagtg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186794 55 +    435186 aaggatacagggagccgtgactgtgccactgcactccaacctgggtgacagagtg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580619 55 +   9309688 aaggatacagggagccatgaccgtgccactgcactccaacctgggtgacagagtg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414206 55 -  29834108 agggatgcagtgagccgtgaccatgctaccgcactccagcctgcgtgacagagca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864819 55 -   1015025 aaggatacagtgagccatgaccatgctactgcactccagtatgggtgacagagcg
i cebCap1.NW_016107911v1    I 31 C 0
s aotNan1.NW_018488218v1      1884490 55 -   2295209 agggatacagtaagctgtgaccatgttactgcactccagcctgggtgacagagtg
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4583113  0 -  12054995 C
e mm10.chr6                   2421451 116 - 149736546 I
e micMur3.chr21               3020158 175 +  31815103 I
e canFam3.chr27              19736804  0 +  45876710 C
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I
e dasNov3.JH562883             937810  0 -   1687904 C

a score=206982.000000
s hg38.chr12_GL383549v1_alt     95467 24 +    120804 aaactcagtttc-aaaaagtaaaaT
s panTro5.chr12              62787034 24 + 137163284 aaactcagtttc-aaaaagtaaaaT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910755 24 + 135337776 aaactcagtttc-aaaaagtaaaaT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126255 24 -  32808036 aaactcagtttc-aaaaagtaaaaT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316248 24 +  34552619 aaactcagtttc-aaaaaataaaaT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622189 24 - 133663169 aaactcagtttc-aaaaaTTAAAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021770 24 - 137757926 aaactcagtttc-aaaaaTTAAAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399717 24 -   7948249 aaactcagtttc-aaaaaTTAAAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300290 24 -  10730278 aaactcagtttc-aaaaaTTAAAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791225 24 - 128539186 aaactcagtttc-aaaaaTTAAAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186849 24 +    435186 aaactcagtttc-aaaaaTTAAAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580674 24 +   9309688 aaactcagtttc-aaaaaTTAAAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414261 25 -  29834108 aaactcagtctcgaaaaaataaaaT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864874 24 -   1015025 aaactcagtctc-aaaaaataaaaT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884545 24 -   2295209 aaactcagtctc-aaaaaataaaaT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2421567 19 - 149736546 gagctcagtt---AAATTGCAA---
i mm10.chr6                 I 116 C 0
e otoGar3.GL873576            4583113  0 -  12054995 C
e micMur3.chr21               3020158 175 +  31815103 I
e canFam3.chr27              19736804  0 +  45876710 C
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I
e dasNov3.JH562883             937810  0 -   1687904 C

a score=79026.000000
s hg38.chr12_GL383549v1_alt     95491 9 +    120804 ATAAAGATA
s panTro5.chr12              62787058 9 + 137163284 ATAAAGATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910779 9 + 135337776 ATAAAGATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126279 9 -  32808036 ATAAAGATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316272 9 +  34552619 ATAAAGATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622213 9 - 133663169 ATGAAGATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021794 9 - 137757926 ATGAAGATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399741 9 -   7948249 ATGAAGATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300314 9 -  10730278 ATGAAGATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791249 9 - 128539186 ATGAAGATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186873 9 +    435186 ATGAAGATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580698 9 +   9309688 ATGAAGATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414286 9 -  29834108 ATAAAGTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864898 9 -   1015025 ATAAAGTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884569 9 -   2295209 ATAAAGTTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4583113 9 -  12054995 ATGAAATTC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2421586 6 - 149736546 ---AAATCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19736804 9 +  45876710 ATAAGGTTC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3020158 175 +  31815103 I
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I
e dasNov3.JH562883             937810 0 -   1687904 C

a score=1474128.000000
s hg38.chr12_GL383549v1_alt     95500 163 +    120804 TTATGCTGTAATTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGGATAGAAGGTTAATATGTATAAAGAACTCCTGAAATCTATACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAATACC-------TATTATATTCCC
s panTro5.chr12              62787067 163 + 137163284 TTATGCTGTAATTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGGATAGAAGGTTAATATGTATAAAGAACTCCTGAAATCTATACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAATACC-------TATTATATTCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910788 163 + 135337776 TTATGCTCTAATTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGGATAGAAGGTTAATATGTATAAAGAACTCCTGAAATCTACACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAATACC-------TATTATATTCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126288 163 -  32808036 TTATGCTGTAATTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGGATAGAAGGTTAATATGTATAAAGAACCCCTGAAATCTATACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAATACC-------TATTATATTCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316281 149 +  34552619 TTATGCTGTAATTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATGGGATAGAAGGTTAATATGCATAAAGAACTCCTGAAATCTATGCAGAGAA-CCCAATATGTAAAT--AAGCAGTCATAGTTATTCCCAAAATAC--------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622222 150 - 133663169 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021803 150 - 137757926 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399750 144 -   7948249 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTC------ATTCCCAAAACAC--------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300323 150 -  10730278 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791258 150 - 128539186 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       186882 150 +    435186 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTGAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAACCCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580707 149 +   9309688 TTATGCTGTAAGTTGAAAATAGGAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGTACAGAAAGTTAATATGTATAAAGAACTCCTGAAATCTAAACAGAGAA-CCCAATATGCAAAT--AAGCAGTCATAGTTATTCCCAAAACAC--------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414295 147 -  29834108 TTATGCTGTAGGTTGAAAATAGAAGAGCAACATGTTGCAGCAGTCATTTCCATTAAATAGGACAGAAGGTAAGTATGTACAAATAA---CTGGAATATATACAGAGAACACCAATATGCAAAT--AAGCAGTCACAGTTACTCCCAAAACAC--------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       864907 147 -   1015025 TTATGCTGTAAGTTGAAAACAGAAGAGCAACATGTTGCAGCAGTCATTTCCATTAAACAGGACAGAAGGTAAATATGTATAAATAA---CTGAAATCTATACAGAGAACACCAATATGCAAAT--AAGCAGTCACAGTTATTCCCAAAACAC--------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884578 147 -   2295209 TTATGCTGTAAGTCGAAAATAGAAAAGCAACATGTTGCAGCAGTCGTATCCATTAAATACGACAGAAGGTAAATATGTATAAATAA---CTGAAATCGATACAGAGAACACCAATATGCAAAT--AAGCAGTCACAGTTATTCCCAAAACAC--------------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4583122 152 -  12054995 TTATATTAGAAGTTGAA------AGAGCAACATGTTAGAGCAATCATTTCCCTCGAATAGGACACAGAGTTAATAC------AGACCTCTTCAAATCTGTAAGGAGAACAGCAGTCTTCCAATACAAGTGACCATAATTACTCTAGAAACACC-------TGTTATGTCTC-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2421592 169 - 149736546 TCATACTGTGAATTAAAACAAAAAGGGAAACATGGGGCAGGAATCATTTTCATCCAAGAGGAT-GCCAGTTAATACTTGTGAGGAAACCTTGGGGTCTAGGAGAAGACCGCCAGTGCTTTAAC--CAATGAACACAGTTGCTGCCGACGTGCTAGGTTTGTATTTGACTTCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19736813 125 +  45876710 TTCTACTGTAAATTGAAAATAGAAGAACAATACGTTGGGGGAATTATTATCACCAAATAGGACATAGGGTTAACATATGTAAAGAACTCCTTAACCCTACCAGGAAAACATCAGTATTTCAAT--AC---------------------------------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937810 137 -   1687904 TTATACTGCAGGTCGAAAG-AGGACAACAGCATGTCGGGGGAATTATTTTCATCGAATAGGACACAGGGCTAACGTGTAAAAACA-----CAAACTCTTCAAGGAAAACATCAATTTGCCAGT--AAGTGCTAATAGTTACTCAT---------------------------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3020158 175 +  31815103 I
e proCoq1.NW_012140524v1      5109801 154 +  13104022 I

a score=6836.000000
s hg38.chr12_GL383549v1_alt     95663 7 +    120804 AAAATAC
s panTro5.chr12              62787230 7 + 137163284 AAAATAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910951 7 + 135337776 AAAATAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126451 7 -  32808036 AAAATAC
i gorGor5.CYUI01000003v1    C 0 C 0
s proCoq1.NW_012140524v1      5109955 7 +  13104022 AAAACAC
i proCoq1.NW_012140524v1    I 154 C 0
s mm10.chr6                   2421761 3 - 149736546 ----TAC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19736938 6 +  45876710 ATgata-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937947 7 -   1687904 AAAATAC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4583274 0 -  12054995 C
e micMur3.chr21               3020158 175 +  31815103 I
e aotNan1.NW_018488218v1      1884725 0 -   2295209 C
e nomLeu3.chr23               7316430 0 +  34552619 C
e cebCap1.NW_016107911v1       865054 0 -   1015025 C
e saiBol1.JH378123           11414442 0 -  29834108 C
e colAng1.NW_012114364v1      3580856 0 +   9309688 C
e manLeu1.NW_012101287v1       187032 0 +    435186 C
e chlSab2.chr11             100791408 0 - 128539186 C
e cerAty1.NW_011999477v1      8300473 0 -  10730278 C
e macNem1.NW_012011422v1      1399894 0 -   7948249 C
e macFas5.chr11             109021953 0 - 137757926 C
e rheMac8.chr11             104622372 0 - 133663169 C

a score=2055076.000000
s hg38.chr12_GL383549v1_alt     95670 151 +    120804 CTATTAtattccagatgctttgtt-cattctctcatttaattttttcaataatcatgcaatgtcttg-attgttattctagtcttg-ccgctg--agaaaattgtagcttagcaagat----taactcacccaagctta--------gtt-------agtggcagaggcatcttt
s panTro5.chr12              62787237 155 + 137163284 CTATTAtattccagatgctttgtt-cattctctcatttaattttttcaataatcatgcaatgtcttg-attgttattctagtcttg-ccgctg--agaaaattgtagcttagcaagattaagtaactcacccaagctta--------gtt-------agtggcagaggcatcttt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60910958 151 + 135337776 CTATTAtattccagatgctttgtt-cattctctcatttaattttttcaataatcatgcaatgtcttg-attgttattctagtcttg-ccgctg--agaaaattgtagcttagcaagat----taactcacccaagctta--------gtt-------agtggcagaggcatcttt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126458 151 -  32808036 CTATTAtattccagatgctttgtt-cattctctcatttaattttttcaataatcatgcaatgtcttg-attgttattctagtcttg-ccactg--agaaaattgtagcttagcaagat----taactcacccaagctta--------gtt-------agtggcagaggcatcttt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316430 151 +  34552619 CTATTAtattccagatgctttgtt-cattctctcatttaattttttcaataatcatgcaatgtcttg-attgttattctagtcttg-ctgctg--agaaaattgtagcttagcaagattaagtaactcacccaagc------------tt-------agtggcagaggcatcttt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622372 155 - 133663169 CTATTAtattctacatgctttgtc-cattctctaatttaattttttcaataatcatgcaaagtcttg-cttgttattctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagttta--------gtt-------agtggcagacacatcttt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109021953 155 - 137757926 CTATTAtattctacatgctttgtc-cattctctaatttaattttttcaataatcatgcaaagtcttg-cttgttattctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagttta--------gtt-------agtggcagacacatcttt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1399894 155 -   7948249 CTATTAtattctacatgctttgtc-cattctctaatttaattttttcaataatcatgcaaagtcttg-cttgttattctagtctcg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagttta--------gtt-------agtggcagagacatcttt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300473 155 -  10730278 CTATTAtattctacatgctttgtt-cattctctaatttaattttttcaataatcatgcaaagtcttg-cttgtttttctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagttta--------gtt-------agtggcagacacatctta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791408 155 - 128539186 CTATTAtattctacatgctttgtt-cattctctcatttaattttttcaataatcatgcaaagtcttg-cttgttattctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagttta--------gtt-------agtggcagagacaTCTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187032 155 +    435186 CTATTAtattctacatgctttgtt-cattctctaatttaattttttcaataatcatgcaaagtcttg-cttgttattctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcatccaagttta--------gtt-------agtggcagagacatcttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3580856 155 +   9309688 CTATTATATTCCACATgctttgtt-cattctctcattcaattttttcaataatcatgcaaagtcttg-attgttattctagtcttg-ctgctg--agaaaactgtagcttagtaagattaagtaactcacccaagctta--------gtt-------agtggcagagacatcttt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414442 155 -  29834108 CTTTTAtattccagatgctttgtt-tattttctcatttaattttttcaataatcacgcaaggtcttg-attgttattctagttttg-ctgctg--agaaaactgtagcttagcaagattaaataactaacccaagctta--------gtt-------agtggcagaggcatcttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865054 155 -   1015025 CTTTTAtattccagatgctttgtt-cattttctcatttaattttttcaataatcacgcaagatcttg-attgttattctagttttg-ctgctg--agaaaactgtagcttagcaagaataaataactaacccaagttta--------gtt-------agtggcagaggcatcttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884725 154 -   2295209 C-TTTAtattccagatactttgtt-cattttctcatttaattttttcaataatcacgcaaggtcttg-attgttattctagttttg-ctgctg--agaaaactgtagcttagcaagattaaataactaacccaagctta--------gtt-------agtggcagaggcatgttt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3020333 156 +  31815103 CTATTAtatcccagacgttttatt-cattctctcattcaatcttgtcaataatcatgcaaagtctagtattgttattgtagttttg-ctgctg--agaaaactgtatctaagcaaggttaagtaacttacctaaactta--------gct-------actggcagaggcatcttg
i micMur3.chr21             I 175 C 0
s proCoq1.NW_012140524v1      5109962 156 +  13104022 CTATTAtatcccagatgttttatt-cattctctcatttaatcttttcaataatcatacaaaatctagtattgttattatagttctg-ttgctg--agaaaactgtagctaagcaagattaagtaacttacctaagctta--------gtt-------agtggcagaggcatcttt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583274 144 -  12054995 ------------AGATGTTTTTTTCcattctctcctttaatccttccaataattat-caaagtctactattgttattctagttttg-ctgctg--agaaaaccatagctaagcagggttaagtaacttacctaagctta--------ctc-------agtggcagaggcatcttt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2421764 115 - 149736546 -----------------CTTTATT----TCTAGATTTTGATTCTTACA---------CAA--------ACTGCCATTGTTATATTGACAGCTGAAAAAAAAATGTAGCTTAACAA-------CAACTTACCAAAGCTTA--------GTA-------AATGGCAGAGCCAACTCT
i mm10.chr6                 C 0 I 1255
s canFam3.chr27              19736944 159 +  45876710 -----atattccagatgttttact-cattctctcatttaatctttccaataatcatacaaggttaagtattgttattctaacgttg-ctgttg--ggaaaactacagcttagcaagatcagataatttaccctgatttac-------gttaccaacaaatggcaaagttgtctta
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             937954 164 -   1687904 CTGTTAtgttccaggtgctttatt-cattctttcatttaaccttttcaaagatcaatcaaggttaagtattattaatgcagtttta-cttttg--ggaaaactgtagcttagcgaaatcaagtaatttacctgagtctatgtagctagaa-------agcagcagagtcaTTTTT
i dasNov3.JH562883          C 0 C 0

a score=1101317.000000
s hg38.chr12_GL383549v1_alt     95821 86 +    120804 taaatgggactccaaggtctgtattttgtctgcCATGTCATTCCATGTAATTGAAAGCATGAAGATCACGAACAGACTCTATATAG
s panTro5.chr12              62787392 86 + 137163284 taaatgggactccaaggtctgtattttgtctgcCATGTCATTCCATGTAATTGAAAGCATGAAGATCACGAACAGACTCTATATAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911109 86 + 135337776 taaatgggactccaaggtctgtattttgtctgcCATGTCATTCCATGTAATTGAAAGCATGAAGATCATGAACAGACTCTATATAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126609 86 -  32808036 taaatgggactccaaggtctgtattttgtctgcCATGTCATTCCATGTAATTGAAAGCATGAAGATCACAAACAGACTCTATATAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316581 86 +  34552619 taaatgggactccaaggtctatattttgtctgcCATGTCATTCCGTGTAATTGAAAGCATGAAGATCACGAACAGACTCTATATAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622527 86 - 133663169 taaatgggactccaaggtctgtcttttgtctgcCATGTCATTCCACGTAATTGAAAGCATGAAGATCGTTAACAGACTCTATATAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022108 86 - 137757926 taaatgggactccaaggtctgtctTTTGTCTGCCATGTCATTCCACGTAATTGAAAGCATGAAGATCGTTAACAGACTCTATATAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400049 86 -   7948249 taaatgggactccaaggtctgcctTTTGTCTGCCATGTCATTCCAAGTAATTGAAAGCATGAAGACCGTTAACAGACTCTATATAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300628 86 -  10730278 taaatgggactccaaggtctgtcttttgtctgccatgtcatTCCACGTAATTGAAAGCATGAAGATCGTTAACAGACTCTATATAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791563 86 - 128539186 TAAATGGGACTCCAAGCTCTGTCTTTTGTCTGCCATGTCATTCCACGTAATTGAAAGCATGAAGATCGTGAACAGACTCTATATAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187187 86 +    435186 taaatgggactccaaggtctgtcttttgtctgcCATGTCATTCCACGTAATTGAAAGCATGAAGATCGTTAACAGACTCTATATAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581011 86 +   9309688 taaatgggactccaaggtctgtattttgtctgcCATGTCATTCCATGTAATTGAAAACATGAAGATCGTGAACAGACTCTATATAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414597 84 -  29834108 taaatgggactccaaggtctgtgttttgtcT--GATGTCATTCCCTGTAATTGAAAGCATGAATATCACAAACGGACTCTATATAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865209 84 -   1015025 taaatgggactccaaggtttgtgttttgtcT--CATGTCATTCCCTGTAATTGCAAGCATGAATATCACGAACAGACTCTATATAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884879 86 -   2295209 taaatgggactccaaggtctatgttttgtctaccatgtcatTCCCTGTAATTGAAAGCATGAATATCACGAACAGACTCTATATAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3020489 86 +  31815103 taaatgtgactccaatgtcagtattttttctgcCATGTATTGCCGTATAAGTGAAAGCATGAAGATCACGAACAGACTCTATATAG
i micMur3.chr21             C 0 I 293
s proCoq1.NW_012140524v1      5110118 86 +  13104022 taaatgggactccaaagtccatattttttcTGTCATGTATTGCCGTATAAGTGCAAGCATGAAGGTCATAAACAGACTCTATGTAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583418 86 -  12054995 taaaaggggctccaaatcgtctaatttttcctctgGATATTGCCTTATAAATAAAAGCACGAAGATCATGAACAGACTATGCATAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423134 84 - 149736546 TAAATGAGACTTGAAAGTCTGTTTTAACCCCACTGGGTCTCCCCACACAAGTG-AGGCCTGAAGGCTGT-AACTGAGCCAGCAAAT
i mm10.chr6                 I 1255 I 3
s canFam3.chr27              19737103 84 +  45876710 taaataagactctcaagtct-tattctttctact-TGTCCTGCCATAGAGGTGAAAGCATGAAGACCATGAACAGAATCTACACAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             938118 78 -   1687904 TACACAGGATACCAAAGTC--TATTTTTTCTGCCATGTTCTTCCGAATAAGTGAAAGC-TGAAGACCACAAACAAAATCTA-----
i dasNov3.JH562883          C 0 C 0

a score=1657140.000000
s hg38.chr12_GL383549v1_alt     95907 143 +    120804 CTTCTGTACTATATTATCCTCAAATATAACCTGAGTAAATTAAAGCAACTTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATTGATATAGGTTTGATAATGGAAGGAAGGAGTAAATC
s panTro5.chr12              62787478 143 + 137163284 CTTCTGTACTATATTATCCTCAAATATAACCTGAGTAAATTAAAGCAAATTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATTGATATAGGTTTGATAATGGAAGGAAGGAGTAAATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911195 143 + 135337776 CTTCTGTAATATATTATCCTCAAATATAACCTGAGTAAATTAAAGCAACTTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATTGATATAGGTTTGATAATGGAAGGAAGGAGTAAATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126695 143 -  32808036 CTTCTGTACTATATTATCCTCAAATATAACCTGAGTAAATTAAAGCAACTTGTAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGT---TAAC--------ACAAATATTGATATAGGTTTGATAATGGAAGGAAGGAGTAAATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316667 143 +  34552619 CTTCTGTACTATATTATCCTCAAATAGAACCTAAGTAAATTAAAGCAACTTGCAGGTGAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATTGATATAGGTTTGATAATGGAAGGAAGGAGTAAATC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622613 143 - 133663169 CTTCTGTATTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022194 143 - 137757926 CTTCTGTATTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400135 143 -   7948249 CTTCTGTATTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300714 144 -  10730278 CTTCTGTATTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---CTTTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791649 143 - 128539186 CTTCTGCACTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAAATTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187273 143 +    435186 CTTCTGTATTACATTATCCTCAAATATAACCTAAGTAAATTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---CAAC--------ACAAATATTGGTATAAGTTTGACAATAGAAGGAAGGAGTAAATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581097 143 +   9309688 CTTCTGTACTACATTATCCTCAAATATAACCTAAGTAAGTTAGAGCAACTTGCAGGTAAACGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATTGGTATAAGTTTGACAACAGAAGGAAGGAGTAAATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414681 138 -  29834108 CTTCTGTACTATATTATCCTCAAATATAACCTAAGTAA-----AGTAACTTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATCAGTATAGGTTTGAAAATGGAAGGAAGGAGTAAATC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865293 138 -   1015025 CTTCTGTACTATATTATCCTCAAATATAACCTAAGTAA-----AGTAACTTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATCAGTATAGGTTTGAAAATGGAAGGAAGGAGTAAATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1884965 138 -   2295209 CTTCTGTACTATATTATCCTGAAATATAACCTAAGTAA-----AGTAACTTGCAGGTAAATGTTAAGCATTCTAAAATAT---C-TTTA---------------GATTTAATGA---TAAC--------ACAAATATCAGTATAGGTTTGAAAATGGAAGGAAGGAGTAAATC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5110204 139 +  13104022 -----ATGTTATAATATCCTCAAATGTAACCTAAGTAAATTAAAGCAGGTCTGAGATAAATTTTAAGCAATCTAAAATATG--T-TTTT---------------AATTTAATGA---TGAC--------ACAAATATCAGTATAGTTTTGAGAATGTAGGAAAGGAAGAAATC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583504 138 -  12054995 --------ATACTATACCCTCACATGTAACCTACGTAAATTAAAGCAACTCTGCAGTCAATTTTAAGCATCCtaaaatatattt-tttt---------------aatttaGTGA---TAAC--------ACAAGTATCAGCATAGTTTTGAGAATGCAGAAAAGGAAGAAACC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423221 153 - 149736546 ATGCTGC---ATGTTATCTTCAGTTATAGTCTAAGCAAATGAAGACAAATTTGAGGCAA---------CTTTTAGAATTT---C-TTTAATGTAGAATAGGGGGAATTTTATCACCCTAACATTATTTGATAAAAATCTATCTGGAATGAAACATGGCAAGAAAGTATT----
i mm10.chr6                 I 3 I 1
s canFam3.chr27              19737187 135 +  45876710 -----ATACTATATTATCCTCAAATATAATCTAAGCAAAAGAAAGCAAATTG-AGGTAAATTTCAAGCATTCtat--ttt---t-ttaa---------------aatttaataa---taaC--------ACAAATACTGGTATAGTTTTGAAAATATAGGAAAAGAAGGAATT
i canFam3.chr27             C 0 I 15
s dasNov3.JH562883             938196 129 -   1687904 ---------CACATTATCTCCAAGTATGACCTGTATACATTAAATGAACTTTGAGGCAAATTTTAAGCATTCtaa-atat---t-tttt---------------aat----taa---aaat--------GCAAATACTGGAATAGTTTTTAAAATATAGGAAAGGAAGAAACC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3020575 293 +  31815103 I

a score=1995208.000000
s hg38.chr12_GL383549v1_alt     96050 172 +    120804 TTTTACCACAT------CAACA------------------------TTGTGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAACTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGACTGTCCGAACATCACATTCAC--C--AAAGCCTTTCCTGGTATCTCCGTGCGCAAACAGAATTATGTACCTTTCCTCTGTACCTTGAAAAtatt
s panTro5.chr12              62787621 172 + 137163284 TTTTACCACAT------CAACA------------------------TTGTGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGACTGTCTGAACATCACATTCAC--C--AAAGCCTTTCCTGGTATCTCCGTGCGCAAACAGAATTATGTACCTTTCCTCTGTACCTTGAAAAtatt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911338 172 + 135337776 TTTTACCACAT------CAACA------------------------TTGTGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGACTGTCCGAACATCACATTCAC--C--AAAGCCTTTCCTGGTATCTCCGTGTGCAAACAGAATTATGTACCTTTCCTCTGTACCTTGAAAAtatt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3126838 172 -  32808036 TTTTACCACAT------CAACA------------------------TTGTGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGACTGTCCGAACATCACATTCAC--C--AAAGCCTTTCCTGGTATCTCCGTGCGCAAACAGAATTATGTACCTTTCCTCTGTACCTTGAAAAtatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316810 172 +  34552619 TTTTACCACAT------CAACA------------------------TTGTGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGACAAGCACTTTATTAAAA-------------------------------------------AATTATT---T---GGGACTGTACGAACATCACATTCAC--C--AAAGCCTTTCCTGGTATCTCCGTGCACAAACAGAATTATGTACCTTTCCTCTGTACCTTGAAAATATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622756 172 - 133663169 TTTTACCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCCGTGCGCAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAAtatt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022337 172 - 137757926 TTTTACCATGT------CAATA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCCGTGCGCAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAATATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400278 172 -   7948249 TTTTACCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCCGTGCGCAAACAGCATTATGTCCCTTTCCCCTGTACCTTGAAAAtatt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8300858 172 -  10730278 TTTTACCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCCGTGCGCAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAATATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791792 172 - 128539186 TTTTACCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCTGTGCGCAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAAtatt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187416 172 +    435186 TTTTACCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGAAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTATGAGAATCACATTCAT--C--AAAGCCTTTCTTGGTATCTCCGTGCACAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAAtatt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581240 172 +   9309688 TTTTACCATGT------CGACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAGGACATTTGACAAGCACTTTATAAAAA-------------------------------------------AATTATT---T---GGGGCTGTCTGAGCATCACATTCAC--C--AAAGCCTTTCTTGGTATCTCCATGCGCAAACAGCATTATGTCCCTTTCCTCTGTACCTTGAAAAtatt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414819 171 -  29834108 TTTCCCCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAC--------------------CT-GAAAGAAATTTGTCAAGCACTTTATAAAAA-------------------------------------------AATTCTT---T---GGGACTGTCCGAACACTGCATTCAC--C--AAAACCTTTCCTGTTGTCACCTTGCCCAGACAGAATTATGCACCTTTCCTCTCTACTTTGAAAATATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865431 172 -   1015025 TTTCCCCATGT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGGCAAGCACTTTATAAAAA-------------------------------------------AATTCTT---T---AGGACTGTCCGAACACTGCATTCAC--C--AAAACCTTTCCTGTTGTCACCTTGCCCAGACAGAATTATGTACCTTTCCTCTCTGCTTTGAAAATATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885103 172 -   2295209 TTTCACCGTGT------CAATA------------------------TTATGATTTGATA-------------------------------AAACCTAA--------------------CTGGAAAGAAATTTGGCAAGCACTTTATTAAAA-------------------------------------------AATTATG---T---GGGACTGTCCGAACACTGTATTCAC--C--AAAGCCTTTCCTGTTGTCACCTTGCCCAGACAGAATTATGTACCTTTCCTCTCTACTTTGAAAATATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3020868 166 +  31815103 TTTTACCATAT------CAACA------------------------TTATGATTTGATA-------------------------------AAACCTAC--------------------CTGGAAAGAAATTTGATAATCACTTGTTT-------------------------------------------------TTCAT---T---GGGACTGTCCAAACATCGCATTTAC--T--GAAGCCTTTCCTGGTGTCTCCTTACCCAAGTAGAGTTATGCACTCTTCCTCTGTACCTTGAAAATATT
i micMur3.chr21             I 293 I 130
s proCoq1.NW_012140524v1      5110343 165 +  13104022 TTTTACCATAT------CGACA------------------------TTATGATGTGATA-------------------------------AAACCTAC--------------------CTGGAAAGACATTTGGTAATCACTTGTTT-------------------------------------------------TTCGT---T---GAGACTGTCCAAACATCACACTCGC--T--GAAGCCTTT-CTAGTGTCTCCTTGCCCAGGTAGAGTTATGCACCCTTCCTCTGTGCCTTGAAAAtatt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583642 145 -  12054995 TTTTGCCCTGC------CGACA------------------------TTATGATTTGATA-------------------------------AAACCTAC--------------------CTGGAAAGAAATCTGGCAATCACTTGTTT-------------------------------------------------TTCTT---T---ATGATTGTCTAAACATCACATTCAC--T--GAAGCTTTTTGGGGGGACTGCTTGCCCAGG---------GCATCCTTCC------------AAAtatt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423375 236 - 149736546 TTTTTCAATTTGTGAAGCAACAGATGGTgtggtgtgggcctgtcatccacaatttgagagactgaggcaggagggttgtgaattcaaggcaaacctgagctacacagtgagactttttctgagaaaataaaaTATAATCA-TTGTCATAAT-------------------------------------------AATTCTTCACT---GTGACTATCTGGATGTCTCATCCTC--TGGGGAGCATCTTCTGACATCTCTGGACCCACA---------------------TGAACTTTAGAGATGCT
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19737337 176 +  45876710 TTTTATAATAT------CAACA------------------------TTGTGGTCTGATA-------------------------------AAACCTAT--------------------CTGGAAAGAAATTTGGCAAGTACTTTTTTTCAT-------------------------------------------TATTATT---CTTAGGGACTATTCGAATATCACATTGTC--TGTGAAACCTTTTGTGGTATCTCCTTGCCCAAG-AAAGTTATGCATTTCTCCTCTGGACTTTGAAAAtatt
i canFam3.chr27             I 15 C 0
s dasNov3.JH562883             938325 203 -   1687904 TTACACAATAT------TGGCA------------------------TTACGATTTAATA-------------------------------AGACCTAT--------------------CTGCAAAGAAATTTGGCAAGCACTTCTTGAGAATTATGAAACTAGCAATACCCTTTGCCAAGGGCATTTTTAAGGTAATTCTT---G---GAGACGGTTCCAATATCACATTCACGGC--GAAGCCTTCC------------TGCCCAGGCAG--TCGCACACCCTTCCTCGGTATCTTGCAAAtatt
i dasNov3.JH562883          C 0 C 0

a score=491767.000000
s hg38.chr12_GL383549v1_alt     96222 49 +    120804 gacctctatgtccccaatccatcacat--gtgactgaaac-acagaaagaat
s panTro5.chr12              62787793 49 + 137163284 gacctctatgtccccaatccatcacat--gtgactgaaac-acacaaagaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911510 49 + 135337776 gacctctatgtccccaatccatcacat--gtgactgaaac-acacaaagaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127010 49 -  32808036 gacctctatgtccccaatccatcacat--gtgactgaaac-acacaaagaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7316982 48 +  34552619 GACCTC-ATGTCCCCAATCCATCACAT--GTGACTGAAAC-ACACAAAGAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622928 49 - 133663169 gacttctgtgtccccaatccatcacat--gtgactgacac-acacaaagaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022509 49 - 137757926 GACTTCTGTGTGCCCAATCCATCACAT--GTGACTGACAC-ACACAAAGAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400450 49 -   7948249 gacttctgtgtccccaatccatcacat--gtgactgacac-acacaaagaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8301030 49 -  10730278 GACTTCTGTGTGCCCAATCCATCACAT--GTGACTGACAC-ACACAAAGAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100791964 49 - 128539186 gacttctgtgtccccaatccatcacat--gtgactgacac-acacaaagaat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187588 49 +    435186 gacttctgtgtccccaatccatcacat--gtgactgacac-acacaaagaat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581412 49 +   9309688 gacttctgtgtccgcaatccatcacat--gtgactgacac-acaaaaagaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11414990 47 -  29834108 GATCTCTGTGTCCCTAATGCATCAC----GTGACTGACAC-ATACAAAGAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865603 42 -   1015025 GACCTCTGTGTCCCTAATGCATCAG----GTGACTGACAC-ACACAA-----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885275 47 -   2295209 GACCTCTATGTCCCTAATGCATCAC----GTGACTGAAAC-ACACAAAGAAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5110508 51 +  13104022 tatctctgtgttgccaatgcattgcaattgtgactgacat-gtgcaaaaaat
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583787 41 -  12054995 tatctctgtgtcgccaatgcatctcaa--gtgactgatac-act--------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423611 40 - 149736546 --CATCTCTACCCTCAATGCAA-------GTGACCAACAC-ATACTGAAA--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19737513 49 +  45876710 taactctgtgtccccagggcatagccc--atgactggcat-atgcaaaaaaa
i canFam3.chr27             C 0 I 3
s dasNov3.JH562883             938528 50 -   1687904 tacctctctgcctccagtgcctagcca--gtgactgatacaacgcacagaag
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3021034 130 +  31815103 I

a score=1295494.000000
s hg38.chr12_GL383549v1_alt     96271 101 +    120804 ttcttcataagtatttattgactaaatgaaGAA-ATAATTCCTTAGAAGTGA--AAAAA-AAATATACACATGGAGACATTCATTACAGCATTCTACACAATAGT
s panTro5.chr12              62787842 101 + 137163284 ttcttcataagtatttattgactaaatgaaGAA-ATAATTCCTTAGAAGTGA--AAAAA-ATATATACACATGGAGACATTCATTACAGCATTCTATACAATAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911559 101 + 135337776 ttcttcataagtatttattgactaaatgaagaa-ataattccttagaagtga--aaaaa-atatatacacatggagacattcattacagcattctatacaatagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127059 101 -  32808036 ttcttcataagtatttattgactaaatgaaGAA-ATAATTCCTTAGAAGTGA--AAAAA-ATATATACACATGGAAACATTCATTACAGCATTCTATACAATAGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317030 100 +  34552619 TTCTTCATAAGTATTTATTGACTAAATGAAGAA-ATAATTCCTTAGTAGTG---AAAAA-ATATATACACATGGAGACATTCATTGCAGCATTCTATACAATAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104622977 100 - 133663169 ttcttcataagtatttattgactaaatgaagaa-ataattcctcagaagtga--aaaaa-at-tatgcacatggagacattcattgcagcattctgtacaatagt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022558 100 - 137757926 TTCTTCATAAGTATTTATTGACTAAATGaagaa-ataattcctcagaagtga--aaaaa-at-tatgcacatggagacattcattgcagcattctgtacaatagt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400499 100 -   7948249 ttcttcaaaagtatttattgactaaatgaagaa-ataattcctcagaagtga--aaaaa-at-tatgcacatggagacattcattgcagcattctgtacaatagt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8301079 100 -  10730278 TTCTTCATAAGTATTTATTGACTAAATGaagaa-ataattcctcagaagtga--aaaaa-at-tatgcacatggagacattcattgcagcattctgtacaatagt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100792013 100 - 128539186 ttcttcataagtatttattgactaaatgaaGAA-ATAACTCCTCAGAAGTGA--AAAAA-AA-TATGCACATGGAGACATTCATTGCAGAATTCTGTACAATAGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187637 100 +    435186 ttcttcataagtatttattgactaaatgaagaa-ataattcctcagaagtga--aaaaa-at-tatgcacatggagacattcattgcaacattctgtacaatagt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581461 100 +   9309688 ttcttcataagtatttattgattaaatgaagaa-ataattcctcagaagtga--aaaaa-aa-tatgcacatggagacattcattgcagcattctatacaatagt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415037 101 -  29834108 TTCTTCACAAGTATTTATTGACCAAATGaagaa-ataattcctcagaagtga--aaaaacat-tatacacatagagacattcattgcagcattctatacaatagt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865645  93 -   1015025 --------AAGTATTTCTTGACCAAAGGAAGAA-ATAATTCCTCAGAAGTGA--AAAAACAT-TATACACATAGAGACATTCATTACAGCATTCTATACAATAGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885322 101 -   2295209 TTCTTCATAAGTATTTATTCACCAAATGaagaa-ataattcctcagaagtga--aaaaacat-catacacatagagacattcattgcagcattctatacaatagt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3021164 102 +  31815103 ttcttaataaatatttgttgactaaatgaaAACGATAATTCATCAGAAGTGG--AAAAA-AGGTATATTCATGGAGCCATTCATTACAGCATTCTTTACAATAgt
i micMur3.chr21             I 130 I 240
s proCoq1.NW_012140524v1      5110559 100 +  13104022 ttctcaataaatatttattgactagatgaaaa--ataattcatcagaagtga--aaaaa-acgtatatgcacggaagcattcattgcagcattctttaaaatagt
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4583828 103 -  12054995 tactcaatatatatttattgactaaatgaaAAT-ATAATTTGTCAGAAGTGGGCAAATA-AGGTATACCTATGGAGGCATGCATTACAGCATTCTTTACAATCGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423651  97 - 149736546 -CCTCAAGAGCCATTTGTTGACCAAGGGAAGA--ATAACCCCCCAGAAGAGG--CCAAA-GG-CACAGACA-GAAGGTGTTCACTACAGAATTCCACACAAGAAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19737565  87 +  45876710 --atcattaagtatttattgactgaatgaaGAA-GAAATTCGtcaggagaga--aaaaa-agttacatgcatgaa------------agcattctttacaatagt
i canFam3.chr27             I 3 C 0
s dasNov3.JH562883             938578  97 -   1687904 ttctcaataaatatttatcgactggatgaaGAA----ATTCAACAGAAGAGA--AAAAA-GT-TCTCTGCACCTCGGCACCCAGGCAAGCATCCTTTACAACGGT
i dasNov3.JH562883          C 0 C 0

a score=748495.000000
s hg38.chr12_GL383549v1_alt     96372 64 +    120804 AGAATGATGAAAACAAGGTCGACA-AAACCGAAATGGTTA----AAAGACATTATAACAACATGACTGA
s panTro5.chr12              62787943 64 + 137163284 AGAATGATGAAAACAAGGTCGACA-AAACCGAAATGGTTA----AAAGACATTATAACAACATGACTGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911660 64 + 135337776 agaatgatgaaaacaaggtcgaca-aaaccgaaatggtta----aAAGACATTATAACAACATGACTGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127160 64 -  32808036 AGAATGATAAAAACAAGGTCGACA-AAACCGAAATGGTTA----AAAGACATTATAACAACATGACTGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317130 64 +  34552619 AGAATGATGAAAACAAGGTCGACA-AAACCTAAATGGTTA----AAGGACATTATAACAACATGACTGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104623077 64 - 133663169 agagtgttaaaaacaaggtcaaca-aaactgaaatggtta----aAGGACATTATAACAACATGACTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022658 64 - 137757926 agagtgttaaaaacaaggtcaaca-aaactgaaatggtta----aaggacattataacaacatgactga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400599 64 -   7948249 agagtgttaaaaacaaggtcaaca-aaactgaaatggtta----aaggacgttataacaacatgactga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8301179 64 -  10730278 agagtgttaaaaacaaggtcaaca-aaactgaaatggtta----aaggacattataacaacatgactga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100792113 64 - 128539186 AGAGTGTTAAAAACAAGGTCAACA-AAACTGAAATGGTTA----AAGGACATTATAACAACATGACTGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187737 64 +    435186 agagtgttaaaaacaaggtcaaca-aaactgaaatggtta----aAGGACATTATAACAACATGACTGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581561 64 +   9309688 agaatgctaaaaacaaggtcaaca-aaactgaaatggtta----aAGGACATTATAACAACATGACTGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415138 61 -  29834108 agaaagttaaaaacaaggtcaaca-aaactgaaatggtta----aAGGGCATTATAACAACATGAC---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865738 61 -   1015025 AGAACGTTAAAACCAAGGTCAACA-AAACTGAAATGGTTA----AAGGGCATTATAACAACATGGC---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885423 61 -   2295209 agaatgttaaaaacaaggtcaaca-aaactgaaatggtta----aAGGGCATTATCACAACATGAC---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5110659 68 +  13104022 aaaacattagaaacaaggtcaaga-aaatggaaatggttaaatgaagggcattataacaacatgactga
i proCoq1.NW_012140524v1    C 0 I 157
s otoGar3.GL873576            4583931 69 -  12054995 AAAACATGAGAAACCAGAGCAAGATAAAGGGAGATGGTTAAATGAAGGGCATTCTAACAACATAACTGG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423748 68 - 149736546 TAAATATTAGAGACAAAAGCAGCC-CAGCAGAAGCAGATAAGTGAAAGACAAGATGCCAATGTGTTGGA
i mm10.chr6                 C 0 I 3
s canFam3.chr27              19737652 68 +  45876710 aaaatgttagaaactaggtcaaca-aaactgaaatggttaagcaaaagacattacaacaatgtgattga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             938675 64 -   1687904 ACAATGTTAGAAACAGGGTCAACA-GCACACAAAAGGCAG----GTAGAGGTACTGACAACGTGACTGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3021266 240 +  31815103 I

a score=1511404.000000
s hg38.chr12_GL383549v1_alt     96436 144 +    120804 TTATTTCATAG---CCT---AACAATTTAATAGGCAGTCACCAGTGAAACTTCAAGAATATGTAGCCATTATGGAAAAATAAAAGTTGTATACAAAATGTAGTGCGATTGATCTAATGTTAAAATGTGTTT-GTATGGG--------------------------------------------------------ACAAAGACTGCA
s panTro5.chr12              62788007 144 + 137163284 TTATTTCATAG---TCT---AACAATTTAATAGGCAGTCACCAGTGAAACTTAAAGAAAATGTAGCCATTATGGAAAAATAAAAGTTGTATACAAAATGTAGTGCGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911724 144 + 135337776 TTATTTCATAG---TCT---AACAATTTAATAGGCAGTCACCAGTGAAACTTAAAGAATATGTAGCCATTTTGGAAAAATAAAAGTTGTATACAAAATGTAGTGCGATTGATCTAATGTTAAAATGTGTTT-GTACAGG--------------------------------------------------------ACAAAGACTGCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127224 144 -  32808036 TTATTTCATAG---TCT---AACAATTTAATACGCAGTCACCAGTGAAACTTAAAGAATATGTAGCCATTATGGAAAAATAAAAGTTGTATACAAAATGTAGTGCGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317194 147 +  34552619 TTATTTCATAG---TCTAAAAACAATTTAATATGCAGTTACCAGTGAAACTTCAAGAATATTTAGCCATTATGGAAAAATAAAAGTTGAATACAAAATGTAATGCGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAAACTGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104623141 147 - 133663169 TTATTTCATAG---TCTAAAAACAATTTAACATGCAGTCACCAGTAAAACTTAAAGAATATTCAGCCATTATGGAAAAATAAAAGTTGAATACAAAATGTAGTACGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022722 147 - 137757926 ttatttcatag---tctaaaaacaatttaacatgcagtcaccagtaaaacttaaagaatattcagccattatggaaaaataaaagttgaatacaaaatgtagtacgattgatctaatgttaaaatgtgttt-gtatagg--------------------------------------------------------acaaagactgca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400663 147 -   7948249 ttatttcatag---tctaaaaacaatttaacatgcagtcaccagtaaaacttaaagaatattcagccattatggaaaaataaaagttgaatacaaaatgtagtacgattgatctaatgttaaaatgtgttt-gtatagg--------------------------------------------------------acaaagactgca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8301243 147 -  10730278 ttatttcatag---tctaaaaacaatttaacatgcagtcaccagtaaaacttaaagaatatttagccattatggaaaaataaaagttgaatacaaaatgtagtacgattgatctaatgttaaaatgtgttt-gtatagg--------------------------------------------------------acaaagactgca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100792177 147 - 128539186 TTATTTTATAG---TCTAAAAACAATTTAATATGCAGTCACCAGTAAAACTTAAAGAATATTTAGCCATTATAGAAAAATAAAAGTTGAATACAAAATGTAGTACGATTGATCTAATGTTAAAATGTCTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187801 147 +    435186 TTATTTCATAG---TCTAAAAACAATTTAACATGCAGTCACCAGTAAAACTTAAAGAATATTTAGCCATTATGGAAAAATAAAAGTTGAATACAAAATGTAGTACGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581625 147 +   9309688 TTATTTCATAG---TCTAAAAACAATTTAATATGCACTCACCAGTGAAACTTAAAGAATATTTAGCCATTATGGAAAAATAAAAGTTCAATAAAAAATGTAGTGCGATTGATCTAATGTTAAAATGTGTTT-GTATAGG--------------------------------------------------------ACAAAGACTGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415199 146 -  29834108 -TATTTCATTG---TCTAAAAACAATTTAATATGCAGTCACCAGTGAAACTTAAAGAATATTTAGCCATTTTGGAAAAATAAAAATTGAATACAAAATGTAGTATGATTGATCTAATATTAAAGTATGTTT-GTGTAGG--------------------------------------------------------ACAAAGACTGCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865799 146 -   1015025 -TATTTCATTG---TCTAAAAACAATTTAATATGCAGTCACCAGTGAAACTTAAAGAATATTTAGCCATTATGGAAAAATAAAAATTGAATACAAAATGTAGTATGATTGCTGTAATGTTAAAGGGTGTTT-GTGTAGG--------------------------------------------------------ACAAAGACTGCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885484 146 -   2295209 -TATTTCATTG---TCTAAAAACAATTTAATATACAGTCACCAGTGAAACTTAAAGAATATTTAGCCATTATGGAAAAATAAAAATTGAATACAAAATGTAGTATGATTGCTCTAATGTTAAAGTATGTTT-GTATAAG--------------------------------------------------------GCAAAGACTGCA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584000 197 -  12054995 --CTTTCACAG---TCTAAATACAGTGTAATATGCAGTCATCAGTGAAACCTGAAAGATATTTATCAATTATGGAAA---AAATGCTGAATACAAAATACA--AAGATCGTCCTAATGTTAAGGTGTGTCTAGTATAGTATCTAGTATTTACTATAGTATCAGTCTTCTAGAAGAATAGAAATTAACGTATTTCCACAAAGACTAGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423819 128 - 149736546 TTTTTTCAT-----TCT-AAAGCA---------GCAGTCATTCGTGGAGCCTGAGGAGTCTTTACCCATTGTGGGA----GAAAGATTAGCACAAAATATA-TAAGATTATTCCCATGTTAAAA--TGCTC-ACACAGG--------------------------------------------------------ACAAAGTCTGGA
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19737720 137 +  45876710 ctattatgtag---gctgaaaacaa--taatatgcagccattggtaaagtctgaaaaatatttaggcaatgaggaaaaa---------aatacaaaatacagtctgattaccctaatattaaaatatgttt-gcataggg-------------------------------------------------------gcaaaagctaga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             938739 139 -   1687904 CTATTTTGTAGGTCACTAAAAATAA--TACCATGCAGACACGGTTGAAGCCTGAAGACTCTTTACCCATCATGGAAGTAAGAGTACT---TCCACAA--CAGTGTGATTGTCCTGATGTTAAAAGAGGTTT-TAA------------------------------------------------------------CCCAAGACTGGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I

a score=152220.000000
s hg38.chr12_GL383549v1_alt     96580 12 +    120804 AGTTAATATACT
s panTro5.chr12              62788151 12 + 137163284 AGTTAATATACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911868 12 + 135337776 AGTTAATATACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127368 12 -  32808036 AGTTAATATACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317341 12 +  34552619 AGTTAATATACT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104623288 12 - 133663169 AGTTAATATACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109022869 12 - 137757926 agTTAATATACT
i macFas5.chr11             C 0 I 8779
s macNem1.NW_012011422v1      1400810 12 -   7948249 agTTAATATACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8301390 12 -  10730278 agTTAATATACT
i cerAty1.NW_011999477v1    C 0 I 6397
s chlSab2.chr11             100792324 12 - 128539186 AGTTAATATACT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187948 12 +    435186 AGTTAATATACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581772 12 +   9309688 AGTTAATATACT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415345 12 -  29834108 AGTTAATATATT
i saiBol1.JH378123          C 0 I 6
s cebCap1.NW_016107911v1       865945 12 -   1015025 AGTTAATATATT
i cebCap1.NW_016107911v1    C 0 I 6
s aotNan1.NW_018488218v1      1885630 12 -   2295209 AGTTAATATATT
i aotNan1.NW_018488218v1    C 0 I 6
s otoGar3.GL873576            4584197 12 -  12054995 AGTTAATGTATT
i otoGar3.GL873576          C 0 I 6
s canFam3.chr27              19737857 12 +  45876710 agttaatatgtt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             938878 12 -   1687904 AGCTAATATGTT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I

a score=69615.000000
s hg38.chr12_GL383549v1_alt     96592 5 +    120804 TAAAA
s panTro5.chr12              62788163 5 + 137163284 TAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911880 5 + 135337776 TAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127380 5 -  32808036 TAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317353 5 +  34552619 TAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104623300 5 - 133663169 TAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109031660 5 - 137757926 TAAAA
i macFas5.chr11             I 8779 C 0
s macNem1.NW_012011422v1      1400822 5 -   7948249 TAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8307799 5 -  10730278 TAAAA
i cerAty1.NW_011999477v1    I 6397 C 0
s chlSab2.chr11             100792336 5 - 128539186 TAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       187960 5 +    435186 TAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3581784 5 +   9309688 TAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415363 5 -  29834108 TAAAA
i saiBol1.JH378123          I 6 C 0
s cebCap1.NW_016107911v1       865963 5 -   1015025 TAAAA
i cebCap1.NW_016107911v1    I 6 C 0
s aotNan1.NW_018488218v1      1885648 5 -   2295209 TAAAA
i aotNan1.NW_018488218v1    I 6 C 0
s otoGar3.GL873576            4584215 5 -  12054995 TAAAA
i otoGar3.GL873576          I 6 C 0
s canFam3.chr27              19737869 5 +  45876710 taaaa
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             938890 5 -   1687904 TAAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I

a score=30864.000000
s hg38.chr12_GL383549v1_alt     96597 4 +    120804 GTTg
s panTro5.chr12              62788168 4 + 137163284 GTTg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911885 4 + 135337776 GTTg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127385 4 -  32808036 GTTg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317358 4 +  34552619 GTTg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104623305 4 - 133663169 GTTG
i rheMac8.chr11             C 0 I 6337
s macFas5.chr11             109031665 4 - 137757926 GTTg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1400827 4 -   7948249 GTTG
i macNem1.NW_012011422v1    C 0 I 2541
s cerAty1.NW_011999477v1      8307804 4 -  10730278 GTTg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100792341 4 - 128539186 GTTG
i chlSab2.chr11             C 0 I 6376
s manLeu1.NW_012101287v1       187965 4 +    435186 GTTG
i manLeu1.NW_012101287v1    C 0 I 6780
s colAng1.NW_012114364v1      3581789 4 +   9309688 GTTG
i colAng1.NW_012114364v1    C 0 I 12347
s saiBol1.JH378123           11415368 4 -  29834108 GTTg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865968 4 -   1015025 GTTg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885653 4 -   2295209 GTTg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584220 3 -  12054995 ATA-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19737874 4 +  45876710 agta
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895 0 -   1687904 C

a score=195421.000000
s hg38.chr12_GL383549v1_alt     96601 56 +    120804 ccaggtgcagtggctcatgcctgtaatcc--cagcactttgg--gaggccaaggcgggag
s panTro5.chr12              62788172 56 + 137163284 ccaggtgcagtggctcatgcctgtaatcc--cagcactttgg--gaggccaaggcgggag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911889 56 + 135337776 ccaggtgcagtggctcatgcctgtaatcc--cagcactttgg--gaggccaaggcgggag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127389 56 -  32808036 ccgggtgcagcggctcatgcctgtaatcc--cagcactttgg--gaggccaaggcgggag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317362 56 +  34552619 ccaggtgcagtggctcatgcctataatct--cagcactttgg--gaggccaaggcgggag
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031669 56 - 137757926 ccaagtgcagtggctcatgcctataatcc--cagcactttgg--gaggccaaggcgggag
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8307808 56 -  10730278 ccaagtgcagtggctgatgcctataatcc--cagcactttgg--gaggccaagacgggag
i cerAty1.NW_011999477v1    C 0 C 0
s saiBol1.JH378123           11415372 56 -  29834108 ccagatgtggtggctcatgcctgtaatac--cagcactttgg--gaagccaagatgggag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       865972 56 -   1015025 ccagatgtggtggctcatgcctgtaatac--cagcactttgg--gaggccaagatgggag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885657 56 -   2295209 ccagatgtggtggctcatgcctgtaatac--cagcactttgg--gaggccaagatgggag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584223 57 -  12054995 --AAAGTTAATGGTTCTggctcaccaccca-tagtacagtggttaatgcgccggccacag
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19737878 27 +  45876710 -----------------------------aaagtcattctgt--gaga--gaggtgagaA
i canFam3.chr27             C 0 I 98
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e chlSab2.chr11             100792345 6376 - 128539186 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I

a score=187170.000000
s hg38.chr12_GL383549v1_alt     96657 47 +    120804 gattgcttgagcccagaaatttaaaaccagccttggcaacatggcga
s panTro5.chr12              62788228 47 + 137163284 gattgcttgagcccagaaattcaagaccagccttggcaacatggcga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911945 47 + 135337776 gattgcttgagcccagaaattcaagaccagccttggcaacatggcga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127445 47 -  32808036 gattgcttgagctcagaaattcaagaccagccttggcaacatggcga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317418 47 +  34552619 gattgcttgagcccagaaattcaagaccagccttggcaacctggcga
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031725 47 - 137757926 gattgcttgagcccagaaattcaagaccagccttggcaacatggcga
i macFas5.chr11             C 0 I 1
s cerAty1.NW_011999477v1      8307864 47 -  10730278 gattgcttgagcccagaaattcaagaccagccttggcaacatggcga
i cerAty1.NW_011999477v1    C 0 I 99
s saiBol1.JH378123           11415428 47 -  29834108 gattgcttgagcccagaaattcaaaaccagcctcagcaacatggtga
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       866028 47 -   1015025 gattgcttgagcccagaaattcaaaaccagcctcggcaacatggtga
i cebCap1.NW_016107911v1    C 0 I 1
s aotNan1.NW_018488218v1      1885713 47 -   2295209 gattgcttgagcccagaaattcaaaaccagccttggcaacatggtga
i aotNan1.NW_018488218v1    C 0 I 1
s otoGar3.GL873576            4584280 37 -  12054995 g--cactgaggctggtgggttcaaacccagcccaggcca--------
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e chlSab2.chr11             100792345 6376 - 128539186 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I

a score=61742.000000
s hg38.chr12_GL383549v1_alt     96704 25 +    120804 actctcttctctaccaaaaaaaaaa
s panTro5.chr12              62788275 25 + 137163284 actctcttctctaccaaaaaaaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60911992 25 + 135337776 actctcttctctaccaaaaaaaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127492 25 -  32808036 actctcttctctaccaaaaaaaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317465 25 +  34552619 actctcttctctaccaaaaaaaaaa
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031773 25 - 137757926 actctcttctctacggaaaaaaaTA
i macFas5.chr11             I 1 C 0
s saiBol1.JH378123           11415476 25 -  29834108 accctcttctctaccaaaaaaaaaa
i saiBol1.JH378123          I 1 M 162
s cebCap1.NW_016107911v1       866076 25 -   1015025 accctcttctctaccaaaaaaaaaa
i cebCap1.NW_016107911v1    I 1 I 1
s aotNan1.NW_018488218v1      1885761 15 -   2295209 accctcttctctaca----------
i aotNan1.NW_018488218v1    I 1 I 1
s otoGar3.GL873576            4584317 13 -  12054995 ------------gctaaacaacaat
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e chlSab2.chr11             100792345 6376 - 128539186 I
e cerAty1.NW_011999477v1      8307911 99 -  10730278 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I

a score=-6458.000000
s hg38.chr12_GL383549v1_alt     96729 2 +    120804 -a-a
s panTro5.chr12              62788300 1 + 137163284 -a--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912017 2 + 135337776 -a-a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127517 2 -  32808036 -a-a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317490 1 +  34552619 -a--
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031798 3 - 137757926 -ata
i macFas5.chr11             C 0 C 0
s cebCap1.NW_016107911v1       866102 1 -   1015025 -a--
i cebCap1.NW_016107911v1    I 1 I 522
s aotNan1.NW_018488218v1      1885777 1 -   2295209 -a--
i aotNan1.NW_018488218v1    I 1 C 0
s otoGar3.GL873576            4584330 2 -  12054995 ga--
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895 0 -   1687904 C
e saiBol1.JH378123           11415501 162 -  29834108 M
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e chlSab2.chr11             100792345 6376 - 128539186 I
e cerAty1.NW_011999477v1      8307911 99 -  10730278 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I

a score=-21310.000000
s hg38.chr12_GL383549v1_alt     96731 41 +    120804 -----aaaaaaaaaaaaaaaaaat--------------------------------------------atatatatatatatatatatat
s panPan2.chr12              60912019 85 + 135337776 -----aatatatatatatatatatacacacatatacatatatatacatatacatatacatatatatacacatatacatatatatatacat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127519 24 -  32808036 -----aaaaaaaatatatatatat-------------------------------------------------------------tatat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317491  5 +  34552619 -------------------------------------------------------------------------------------tatat
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031801 68 - 137757926 -----ataatatatatatacacacacacacacacacacacacacacagagt-----------------agatatacttatataaatatct
i macFas5.chr11             C 0 I 4
s aotNan1.NW_018488218v1      1885778 29 -   2295209 ------aaaaggaaaaaaaaaaat-------------------------------------------------------tatatatatat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584332 21 -  12054995 caactacaataacaacaataa---------------------------------------------------------------------
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C
e cebCap1.NW_016107911v1       866103 522 -   1015025 I
e saiBol1.JH378123           11415501 162 -  29834108 M
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e chlSab2.chr11             100792345 6376 - 128539186 I
e cerAty1.NW_011999477v1      8307911 99 -  10730278 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I
e panTro5.chr12              62788301  0 + 137163284 C

a score=2592.000000
s hg38.chr12_GL383549v1_alt     96772 2 +    120804 at
s panTro5.chr12              62788301 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912104 2 + 135337776 at
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127543 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317496 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109031873 2 - 137757926 ag
i macFas5.chr11             I 4 I 5
s chlSab2.chr11             100798721 2 - 128539186 at
i chlSab2.chr11             I 6376 C 0
e otoGar3.GL873576            4584353 0 -  12054995 C
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e aotNan1.NW_018488218v1      1885807 0 -   2295209 C
e dasNov3.JH562883             938895 0 -   1687904 C
e cebCap1.NW_016107911v1       866103 522 -   1015025 I
e saiBol1.JH378123           11415501 162 -  29834108 M
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e cerAty1.NW_011999477v1      8307911 99 -  10730278 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I
e rheMac8.chr11             104623309 6337 - 133663169 I

a score=5576.000000
s hg38.chr12_GL383549v1_alt     96774 2 +    120804 at
s panTro5.chr12              62788303 2 + 137163284 at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912106 2 + 135337776 ac
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127545 2 -  32808036 at
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317498 2 +  34552619 at
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629646 2 - 133663169 at
i rheMac8.chr11             I 6337 C 0
s macFas5.chr11             109031880 2 - 137757926 at
i macFas5.chr11             I 5 C 0
s chlSab2.chr11             100798723 2 - 128539186 at
i chlSab2.chr11             C 0 C 0
s saiBol1.JH378123           11415669 2 -  29834108 AT
i saiBol1.JH378123          M 162 C 0
e otoGar3.GL873576            4584353 0 -  12054995 C
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e aotNan1.NW_018488218v1      1885807 0 -   2295209 C
e dasNov3.JH562883             938895 0 -   1687904 C
e cebCap1.NW_016107911v1       866103 522 -   1015025 I
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e cerAty1.NW_011999477v1      8307911 99 -  10730278 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I

a score=33895.000000
s hg38.chr12_GL383549v1_alt     96776 21 +    120804 atatatatatatgctttt-taa
s panTro5.chr12              62788305 21 + 137163284 atatatatatatgctttt-taa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912108 22 + 135337776 atatatatatatGCTTTtaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127547 21 -  32808036 atatatatatatgctttt-taa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317500 21 +  34552619 atatatatatacgctttt-taa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629648 18 - 133663169 atatatatatatattttt----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109031882 18 - 137757926 atatatatTTTTTTTTTT----
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8308010 18 -  10730278 atatatatatatatTTTT----
i cerAty1.NW_011999477v1    I 99 C 0
s chlSab2.chr11             100798725 18 - 128539186 atatatatatatatTTTT----
i chlSab2.chr11             C 0 C 0
s saiBol1.JH378123           11415671 21 -  29834108 AAATACATATATATTTTT-TTC
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1885807  6 -   2295209 ---------------ttt-tta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584353  3 -  12054995 -------------------caa
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C
e cebCap1.NW_016107911v1       866103 522 -   1015025 I
e colAng1.NW_012114364v1      3581793 12347 +   9309688 I
e manLeu1.NW_012101287v1       187969 6780 +    435186 I
e macNem1.NW_012011422v1      1400831 2541 -   7948249 I

a score=6559.000000
s hg38.chr12_GL383549v1_alt     96797 1 +    120804 a
s panTro5.chr12              62788326 1 + 137163284 a
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912130 1 + 135337776 a
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127568 1 -  32808036 a
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317521 1 +  34552619 a
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629666 1 - 133663169 a
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109031900 1 - 137757926 a
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403372 1 -   7948249 a
i macNem1.NW_012011422v1    I 2541 C 0
s cerAty1.NW_011999477v1      8308028 1 -  10730278 a
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798743 1 - 128539186 a
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194749 1 +    435186 a
i manLeu1.NW_012101287v1    I 6780 C 0
s colAng1.NW_012114364v1      3594140 1 +   9309688 a
i colAng1.NW_012114364v1    I 12347 C 0
s saiBol1.JH378123           11415692 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1885813 1 -   2295209 a
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584356 1 -  12054995 a
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895 0 -   1687904 C
e cebCap1.NW_016107911v1       866103 522 -   1015025 I

a score=439248.000000
s hg38.chr12_GL383549v1_alt     96798 44 +    120804 aat-tctgggcattgtggcacatgcctgaggtcccagctacttgg
s panTro5.chr12              62788327 44 + 137163284 aat-tctgggcattgtggcacatgcctgaggtcccagctacttgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912131 44 + 135337776 aat-tctgggcattgtggcacatgcctgtggtcccagctacttgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127569 44 -  32808036 aat-tctgggcattgtggcacatgcctgtggtcccagctacttgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317522 44 +  34552619 aat-tctgggcattgtggcacatgcctgtggtcccagctacttgg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629667 44 - 133663169 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109031901 44 - 137757926 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403373 44 -   7948249 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308029 44 -  10730278 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798744 44 - 128539186 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194750 44 +    435186 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594141 44 +   9309688 aat-tctgggcattgtgacatatgcctgtggtcccagctacttgg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415693 44 -  29834108 AAT-Tctgggcattgtggcacattcctgtggtcccagctacttgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866625 44 -   1015025 AAT-Tctgggcatcgtggcacatgcttgtggtcccagctacttgg
i cebCap1.NW_016107911v1    I 522 C 0
s aotNan1.NW_018488218v1      1885814 42 -   2295209 --t-tctgggcattgtggcacatgcctgtggtctcagctacttgg
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584357 43 -  12054995 aatagctgggcattgtggc--tggcatgtagttccagctacttgg
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2423947  0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19737905 98 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895  0 -   1687904 C

a score=911443.000000
s hg38.chr12_GL383549v1_alt     96842 114 +    120804 gagactaaggcaggaggattcccttgagccagagaatttgagactgcagtgagc-cgagatggcaccactgcaccccagcctgggcaacaaagcaacatgccgtctccaaaataa
s panTro5.chr12              62788371 114 + 137163284 gagactaaggcaggaggattcccttgagccagggaatttgagactgcagtgagc-cgagatggcaccactgcaccccagcctgggcaacaaagcaacatgccgtctccaaaataa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912175 114 + 135337776 gagactaaggcaggaggattcccttgagccagggaatttgagactgcagtgagc-cgagatggcaccactgcaccccagcctgggcaacaaagcaacatgccgtctccaaaataa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127613 114 -  32808036 gagactaaggcaggaggattcccttgagccagagaatttgagactgcagtgagc-cgagatggcaccactgcaccccagcctgggcaacaaagcgacatgccgtctccaaaataa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317566 114 +  34552619 gaggctaaggcaggaggattcccttgagccagggaaattgagactgcagtgagc-cgagatggcaccactgcactccagcctgggcaacaaagcaacatgccgtctccaaaataa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629711 114 - 133663169 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctaggcaacaaagcaacatgcagtctccaaaataa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109031945 114 - 137757926 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctaggcaacaaagcaacatgcagtctccaaaataa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403417 114 -   7948249 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctaggcaacaaagcaacatgcagtctccaaaataa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308073 114 -  10730278 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctgggcaacaaagcaacatgcagtctccaaaataa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798788 114 - 128539186 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctgggcaacaaagcaacatgcggtctccaaaaTAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194794 114 +    435186 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccagcctgggcaacaaagcaacatgcagtctccaaaataa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594185 114 +   9309688 gaggctgaggcaggaggattcccttgagccaggaaagttgagactgcagtgagc-caagatggcaccactgcactccaccctgggcaacaaagcaacatgcagtctccgaaataa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415737  92 -  29834108 ggagctgaggcaggagga-tactttgagccagggagattgaggctgcagtgagc-caagatggaaccactgcactccagcc---------------------ATCTCCAATATTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866669  92 -   1015025 gaggctgaggcaggagga-tgccttgagccagggagattgaggctgcagtgagc-caagatggaaccactgcactccagcc---------------------ATCTCCAAAATTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885856  92 -   2295209 gaggttgaggcaggagga-tcccttgagccagggagattgaggctgcagtgagc-caagatggaacaactgcactccagcc---------------------ATCTCCAAAATAA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4584400  63 -  12054995 gaggctgaggcaagagaa-tcacctaaacccaagagtttgaggatgatgtgagc-C-----------------------------------------------CCCCCAAAA---
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19738003  76 +  45876710 gagacacaggcagagggagaagcaggatcca-------------tgcagggagctcgacgtgggatc--------caatcctag------------------gtctccaggatca
i canFam3.chr27             I 98 I 33
e mm10.chr6                   2423947   0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895   0 -   1687904 C

a score=52752.000000
s hg38.chr12_GL383549v1_alt     96956 6 +    120804 taaaat
s panTro5.chr12              62788485 6 + 137163284 taaaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912289 6 + 135337776 taaaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127727 6 -  32808036 taaaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317680 6 +  34552619 taaaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629825 6 - 133663169 taaaaT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032059 6 - 137757926 taaaaT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403531 6 -   7948249 taaaaT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308187 6 -  10730278 taaaaT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798902 6 - 128539186 TAACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194908 6 +    435186 taaaaT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594299 6 +   9309688 taaaaT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415829 6 -  29834108 TAAAGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866761 6 -   1015025 TAAAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885948 6 -   2295209 TAAAAT
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4584463 0 -  12054995 C
e mm10.chr6                   2423947 0 - 149736546 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19738079 33 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I
e dasNov3.JH562883             938895 0 -   1687904 C

a score=54056.000000
s hg38.chr12_GL383549v1_alt     96962 7 +    120804 aacaaat-
s panTro5.chr12              62788491 7 + 137163284 aacaaat-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912295 7 + 135337776 aacaaat-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127733 7 -  32808036 aacaaat-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317686 7 +  34552619 aacaaat-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629831 7 - 133663169 CACAAAT-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032065 7 - 137757926 CACAAAT-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403537 7 -   7948249 CACAAAT-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308193 7 -  10730278 CACAAAT-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798908 7 - 128539186 CACAAAT-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194914 7 +    435186 CACAAAT-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594305 7 +   9309688 CACAAAT-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415835 7 -  29834108 AACAAAT-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866767 7 -   1015025 AACAAAT-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1885954 7 -   2295209 AACAAAT-
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2423947 7 - 149736546 AATTAAT-
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             938895 7 -   1687904 -AGAAAGG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4584463 0 -  12054995 C
e micMur3.chr21               3021266 240 +  31815103 I
e canFam3.chr27              19738079 33 +  45876710 I
e proCoq1.NW_012140524v1      5110727 157 +  13104022 I

a score=577878.000000
s hg38.chr12_GL383549v1_alt     96969 48 +    120804 aaagtaaaaGTTAATGGTTATCTTAGAGTGGTGGG------ATAAGGTTTTCTT
s panTro5.chr12              62788498 48 + 137163284 aaagtaaaaGTTAATGGTTATCTTAGAGTGGTGGG------ATAAGGTTTTCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912302 48 + 135337776 aaagtaaaaGTTAATGGTTATCTTAGAGTGGTGGG------ATAAGGTTTTCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127740 48 -  32808036 aaagtaaaaGTTAATGGTTATCTTAGAGTGGTGGG------ATAAGGTTTTCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317693 48 +  34552619 aaagtaaaaGCTAATGGTTATCTTGGAGTGGTGGG------ATAAGGTTTTCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629838 48 - 133663169 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032072 48 - 137757926 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403544 48 -   7948249 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308200 48 -  10730278 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798915 48 - 128539186 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194921 48 +    435186 AAAGTTAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594312 48 +   9309688 AAAGTAAAAGTTAATGGTTATCTTAGAGTGGTTGG------ATGAGATTTTCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415842 48 -  29834108 AAAGTAAAAGTTAACAGTTATCTTAGAGTGGTGGG------ATGAGGTTTTCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866774 48 -   1015025 AAAGTAAAAGTTAACAGTTATCTTAGAGTGGTGGG------ATGAGGTTTTCTT
i cebCap1.NW_016107911v1    C 0 I 5
s aotNan1.NW_018488218v1      1885961 48 -   2295209 AAAGTAAAAGTTAACGGTTATCGTAGAGTGGTGGG------ATGAGGTTTTCTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3021506 48 +  31815103 AAAGTAAAAACTAATGGTTCTGTTAAAGTGATGGG------ATGATATTTTCTT
i micMur3.chr21             I 240 C 0
s proCoq1.NW_012140524v1      5110884 48 +  13104022 AAAGTAAAAGTTAATGGTTCTGTTAGAGTGATGAG------AAGAGATTTTCTT
i proCoq1.NW_012140524v1    I 157 C 0
s otoGar3.GL873576            4584463 37 -  12054995 ------AAAGTTAATG-----GTTAAAATGATGGA------ATGAGATTTTCTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2423954 48 - 149736546 ATACTAAAAATGTATGGCTCTGTGGGAAGAGGAAG------AGAGGGTTTTCAA
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             938902 53 -   1687904 AAAGGGAAACTTAATAGTTCTGTT-GTGTGGCCAGAAAGGCATGAGATTGTTTT
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19738079 33 +  45876710 I

a score=47965.000000
s hg38.chr12_GL383549v1_alt     97017 4 +    120804 CAAT
s panTro5.chr12              62788546 4 + 137163284 TAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912350 4 + 135337776 TAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127788 4 -  32808036 TAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317741 4 +  34552619 TAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629886 4 - 133663169 TAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032120 4 - 137757926 TAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403592 4 -   7948249 TAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308248 4 -  10730278 TAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798963 4 - 128539186 TAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194969 4 +    435186 TAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594360 4 +   9309688 TAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415890 4 -  29834108 TAAC
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1886009 4 -   2295209 TAAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3021554 4 +  31815103 CAAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5110932 4 +  13104022 CAAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4584500 4 -  12054995 CAAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424002 4 - 149736546 CAAC
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             938955 4 -   1687904 TAAT
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19738079 33 +  45876710 I
e cebCap1.NW_016107911v1       866822 5 -   1015025 I

a score=580589.000000
s hg38.chr12_GL383549v1_alt     97021 80 +    120804 CATTTCTCACAATTTCCTTTAATGCGATTGTTAAATTACTTATGTTCATCTC-------AAAAATGACTAAAATTGCTCTTAAGATT
s panTro5.chr12              62788550 80 + 137163284 CATTTCTCACAATTTCCTTTAATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATGACTAAAATTGCTCTTAAGATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912354 80 + 135337776 CATTTCTCACAATTTCCTTTAATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATGACTAAAATTGCTCTTAAGATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127792 80 -  32808036 CATTTCTCACAATATGCTTTAATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAAGGACTAAAATTGCTCTTAAGATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317745 80 +  34552619 CATTTCTCACAATTTGCTTTAATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATGACTAAAATTGCTCTTAAGATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629890 78 - 133663169 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032124 78 - 137757926 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403596 78 -   7948249 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308252 78 -  10730278 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100798967 78 - 128539186 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       194973 78 +    435186 CATTTCTCACAATTTGCTTTCATGTGATTGTTAAATTACTTATGTTCATCTC-------AAAAATG--TAAAATTGCTCTTAAGATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594364 80 +   9309688 CATTTCTCACAATTTGCTTTCATGTGGTTGTTAAATTACTTATGTTCATCTC-------TAAAATGACTAAAATTGCTCTTAAGATT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11415894  5 -  29834108 CATTT----------------------------------------------------------------------------------
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1886013  5 -   2295209 CATTT----------------------------------------------------------------------------------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3021558 81 +  31815103 CATTTCTCACAATTTGCTTTCATGTGGTTGTTAAATTGCTTACGCTCATCTC------AAAAAATGAGGTAAATTGCTCTTAAAAAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5110936 81 +  13104022 CATTTCTCACAAGTTGGTTTAATGTGGTTGTTAAGTTGCTTATAGTCATCTC------AAAAAATGACCTAAATTGCTCTTAAAATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4584504 79 -  12054995 CATTTCTCACAGTTTGCTGTAGTGTGGCTGTTCAAT--CTCAAAAAAAAAAA------AAAAAATGACCTAAATTGCTTTTAAAATT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424006 86 - 149736546 AATTTCTCACAGATCA-TGTAATGAAGTTACTAAGTTGTCTCGAGTCATATCCAAGAAAAGAATTGGCACCTACTGCCCTTAACATG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19738112 79 +  45876710 caccacccaagGATCCCTTTAATGTTGTTATTAAATTGCTTTTACTCTTCTC-----AAAAAAATAATCTAAATTGCTC---AGGTT
i canFam3.chr27             I 33 C 0
s dasNov3.JH562883             938959 80 -   1687904 TATATGTCA-AAACTGTCTTACTATGGATGTTTTATTGATTATATTCACCTC------AAAGTATGACCTAAGTTGCTCTTCAGATT
i dasNov3.JH562883          C 0 C 0
e cebCap1.NW_016107911v1       866822  5 -   1015025 I

a score=631234.000000
s hg38.chr12_GL383549v1_alt     97101 53 +    120804 ATTTGGAGGCCAA----G--AAAAA-TAGTTTG---TTATC------AAAATTTTCTGTCTTGACCATT
s panTro5.chr12              62788630 53 + 137163284 ATTTGGAGGCCAA----G--AAAAA-TAGTTTA---TCATC------AAAATTTTCTGTCTTGACCATT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912434 53 + 135337776 ATTTGGAGGCCAA----G--AAAAA-TAGTTTG---TTATC------AAAATTTTCTGTCTTGACCATT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127872 53 -  32808036 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317825 53 +  34552619 ATCTGGAGGTCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104629968 53 - 133663169 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032202 53 - 137757926 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403674 53 -   7948249 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308330 53 -  10730278 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799045 53 - 128539186 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------CAAACTTTCTGTCTTGACCATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195051 53 +    435186 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACATTCTGTCTTGACCATT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594444 53 +   9309688 ATTTGGAGGCCAA----G--AAAAA-TATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i colAng1.NW_012114364v1    C 0 I 314
s saiBol1.JH378123           11415899 50 -  29834108 ----GGAGGCCAA----G--AAAAAAAATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866827 54 -   1015025 ATTTGGAGGCCAA----G--AAAAAGTATTTTG---TTATC------AAAACTTTCTGTCCTGACCATT
i cebCap1.NW_016107911v1    I 5 C 0
s aotNan1.NW_018488218v1      1886018 50 -   2295209 ----GGAGGCCAA----G--AAAAAATATTTTG---TTATC------AAAACTTTCTGTCTTGACCATT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3021639 56 +  31815103 ATTCAGAAGCCAA----G--AAAAA-TTTTTTTAATTTATC------AAAATTTCCTGGCTTGACCATT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5111017 57 +  13104022 ATTCAGAAGCCAA----G--AACAATTTTTTTTAATTTATC------AAAATTTCCTGGCTTGACCATT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4584583 51 -  12054995 ATTCAGAAACCAA----A--AGAAA-TTTTTTTAACTCATC------AAAACTTCCTGTCTTGA-----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424092 54 - 149736546 AGTTAGAAACCAAGAGGG--AAAAA-AAAAAAA---AGATG------AAG---TTGGGACCTGACCGTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19738191 61 +  45876710 ATTTGTAGGATAA----GTTACCAA-AATTTTG---GTAACTTGAAAAAAAATTCTTGTCTTGACTATT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             939039 55 -   1687904 ATTTGGAGGCTGA----G--AATAT-TTTTTCA-GTTTTTC------AAAACTTCTTGCCCAGACCGTG
i dasNov3.JH562883          C 0 C 0

a score=3402517.000000
s hg38.chr12_GL383549v1_alt     97154 256 +    120804 AAGAAGTTCAGAGCTACCATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTTGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTTTT-CTTTTAGTGGTTTGAGGAAT---TTA---TAACtgtgc-tttt-----taagctgcttc-aaatcatttttacaagtaggaggattataaataaataaCAATAAAGATTGCCGTGTAATAAGTAAGCTATACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
s panTro5.chr12              62788683 256 + 137163284 AAGAAGTTCAGAGCTACCATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTTTT-CTTTTAGTGGTTTGAGGAAT---TTA---TAACtgtgc-tttt-----taagctgcttc-aaatcatttttacaagtaggaggattataaataaataaCAATAAAGATTGCCATGTAATAAGTAAGCTATACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912487 256 + 135337776 AAGAAGTTCAGAGCTACCATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTTTT-CTTTTAGTGGTTTGAGGAAT---TTA---TAACtgtgc-tttt-----taagctgcttc-aaatcatttttacaagtaggaggattataaataaataaCAATAAAGATTGCCATGTAATAAGTAAGCTATACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3127925 255 -  32808036 AAGAAGTT-AGAGCTACCATAACTTTCCTTAACTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTTTT-CTTTTAGTGGTTTGAGGAAt---tta---tatctgtgc-tttt-----taagctgcttc-aaatcatttttacaagtaggaggattataaataaataaCAATAAAGATTGCCATGTAATAAGTAAGCTATACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7317878 257 +  34552619 AAGAAGTTCAGAGCTACCATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCTCACCTCGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTTTT-CTTTTAGTGGTTTGAGGAAt---tta---tatctgtgcttttt-----taagctgcttc-aaatcatttttgcaagtaggaggattataaataaataaCAATAAAGATTGCCATGTAATAAGTAAGCTCTATGTAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630021 256 - 133663169 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATGATTA-TTTTCCCCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTC-AAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032255 256 - 137757926 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTC-AAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403727 256 -   7948249 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTC-AAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308383 257 -  10730278 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCTCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTCAAAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799098 256 - 128539186 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTC-AAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACGATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195104 257 +    435186 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTCAATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTCAGTGGTTTGAGGGAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTCAAAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGCCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3594811 245 +   9309688 aagaaGTTCAGAGCTACCGTAACTTTCCTTAGCTGTTTGTTTC--------------TTTTCCCCCACCTCAATCTCTATTAACACT-----TAGTTCT-TAC-TTTTATTCTT-CTTTTAGTAGTTTGAGGAAT---TTA---TATCTGTGC-TTTT-----TAAGGTGCTTC-AAATCATTTTTGTAAGTAGGATGATTACAAATAAATAACAATAAATATTGTCATGTAATAAGTAAGCTCTACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i colAng1.NW_012114364v1    I 314 C 0
s saiBol1.JH378123           11415949 261 -  29834108 AAGAAGTTCAGAGCTACTATAACTTTCCTTACCTGTTTGTTTCT--GATATAATTA-TTTCCCCCCACCTCGATCTCTATTAATACTTAACATAGTTCA-TAC-TTTTATTCTT-TTCTAAGTGATTTGAGGAGT---TTA---TATTTGTGC-TTTT-----TAAGCTGCTTC-AAATTATTTGTGGAAGTAGAAGGTTTATAAATAAGTAACAATAAAGATTGCCATGTAATAAATAAGCTATACATTATA----CTAAGACATTATTC-AAAGAATTAAGCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       866881 256 -   1015025 AAGAAGTTCAGAGCTACTATAACTTTCCTTAGCTGTTTGTTTCT--GATATAATTA-TTTTCCCCCACCTGGATCTCTATTAATACT-----TAGTTCT-TAC-TTTTATTCTT-CTCTAAGTGATTTGAGGAAT---TTA---TATCTGTGC-CTTT-----TATGCTGCTTC-AAATTATTTGTGGAAGTAGAAGGTTTATAAATCAGTAACAATAAAGATTGCCATGTAATGAATAAGCTATACATAATA----CTAAGACATTATTC-AAGGAATTAAGCA
i cebCap1.NW_016107911v1    C 0 I 3
s aotNan1.NW_018488218v1      1886068 261 -   2295209 AAGAAGTTCAGAGCTACTATAACTTTCCCTAGCTGTTTGTTTCT--GATATAATTA-TTTCCCCCCACCTAGATCTCTATTAATACTTAACTCAGTTCT-TAT-TTTTATTCTT-CTCTAAGTGATTTGAGGAGT---TTA---TATCTATGC-TTTT-----TAAGCTGCTTC-AAATTATTTGTGGAAGTAGAAGGTTTATAAATAAGTAACAATAAAGACTGCCGTGTAATAAATAAGCTACACATAATA----CTAAGACATTATTC-AAGGAGTTAAGCA
i aotNan1.NW_018488218v1    C 0 I 3
s micMur3.chr21               3021695 267 +  31815103 AGGAAGTTCAGAGCTGTAGTAACTTTCCTTAGCTGCTTGATTCT--AATATAATTATTTTCCCCTTACCTCTACCTCTATTGATGCT-----TAGTTCT-AACTTTTTATTCTTCCTTTTAATAGTTTGAGGAAT---TTATTATATCtgtgcctttt-ataataagctgcttc-aaatcttatttggaagtagaaaggttataaataaataaCAATAAAGATTACCATACAATGAGTGAGCCATGCATAAGA----CTAAAACATTATTC-AAGGAATTAAGCA
i micMur3.chr21             C 0 I 3
s proCoq1.NW_012140524v1      5111074 267 +  13104022 AAGAAGTTCAGAGCTGTAGTAACTTTCCTTAGCTGTTTGTTTCT--AATATAATTATTTTCCCCTTACCTCTATCTCTATTAATGCT-----TAGTTCT-AACTTTTTACTCTTCCTTTTAATAGTTTGAGGAAT---TTATTATATCtgtgcctttt-ataataagctgcttc-aaatcttatttggaagtagaaggattataaataaataaCAATAAGGATTACCATATAATGAATGAGCCATGCATAAGA----CTAAGACATTATTC-AAGGAATTAAGCA
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4584634 253 -  12054995 -------GGAGAGCTATAGCAACTTTCCTTAGCTGTTTGTTTCTAAAATATAATTG--TTACCCTTATTTCTATttctattaatact-----tagttct-tatcctttattcttccttttaatagtttgagaagt---ttattgtatct-----tttt-acaataagctgtttt-aaatcttttggggaagtagaaggattataaataaataaCGATAAAGATCACCATATAATGAGTAAGCCATATACAGCA----CTATGACATTATTC-GAGGAATTAAG--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424146 253 - 149736546 GGGAAGTTTAGAATGGTGGCA--------------TTTCTTTCA--AAGGTGGCTA-TGATCCC-CATCTCAGCCTCTATCAGCGCT-----TGGTTCTGAAC-TTTTATTCTT-CTCTTAATGGTTTGCAGAGTTAATTA---TATTCATGT-CTTCTATACTAAGCTGTTT--GAATCCTTTTGGGAAGCAGAAATTTTAGAAACAAATAACAGTAAATATTATAAAATGGTAACTAAGCCAGACATAAGGCTCTCTCACACATTAGCT-GGGGAATTAAGCA
i mm10.chr6                 C 0 I 3
s canFam3.chr27              19738252 234 +  45876710 AAGAAGTTCAGAGCTATAGCAAC-TTCCTTCCCCCTTTGTTTCT--AATATAATTA--TTTCCTCTACCTCTGCTACTCCTAATACT-----TATTTTT-GAC-TTTTACTCTT-CTGTTAATGGTTTGAAGGGT---TTATGATATCtgtat-cttttatcataggttgcttc-aaatcctttttggaagtagaaggattataaatgaataaCAATAAAGATTACCATATAATAAGTAAGCCATACATAAA---------------------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             939094 253 -   1687904 -CGGAATTCAGGGCTGTGGTCACTCTCCTTAGTCATCTTTTTCT--AATA-------TTTTCCCCCCTCCCTACTTCCATCAGCACT-----TAGTGCT-TTCCTTTTACCTTT-CTTTTAATGGTTTGAGAGGttaatta---tatctgtgc-tttttattataatctatcac-aaatcctttacggaagtagga---ttataaataaataaCAATAAAGATCATCATATAATAAGTAAACCATACATAATA----CTAAGGCATTATTCAAAGGAATTAA---
i dasNov3.JH562883          C 0 C 0

a score=147088.000000
s hg38.chr12_GL383549v1_alt     97410 31 +    120804 CTAGAACACTGTATTAGGAATTAGACATCTA
s panTro5.chr12              62788939 31 + 137163284 CTAGAACACTGTATTAGGAATTAGACATCTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912743 31 + 135337776 CTAGAACACTGTATTAGGAATTAGACATCTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128180 31 -  32808036 CTAGAACACTGTATTAGGAATTAGACATCTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318135 31 +  34552619 CTAGAACACTGTATTAGGAATTAGACATCTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630277 31 - 133663169 CTAGAACACTGTATTAAGAATTAGACATCTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032511 31 - 137757926 CTAGAACACTGTATTAAGAATTAGACATCTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1403983 31 -   7948249 CTAGAACACTGTATTAAGAATTAGACATCTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308640 31 -  10730278 CTAGAACACTGTATTAGGAATTAGACATCTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799354 31 - 128539186 CTAGAACACTGTATTAGGAATTAGACATCTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195361 31 +    435186 CTAGAACACTGTATTAGGAATTAGACATCTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595056 31 +   9309688 CTAGAACACTGTATTAGGAGTTGGACATCTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416210  3 -  29834108 -----------------------GAT-----
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4584887  5 -  12054995 ---------------------TGGAT-----
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19738486 26 +  45876710 GTAGAACA--GTACT--GAGTTAGGCAGAT-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             939347  5 -   1687904 ---------------------TAGAT-----
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2424399  3 - 149736546 I
e micMur3.chr21               3021962  3 +  31815103 I
e proCoq1.NW_012140524v1      5111341  3 +  13104022 I
e aotNan1.NW_018488218v1      1886329  3 -   2295209 I
e cebCap1.NW_016107911v1       867137  3 -   1015025 I

a score=6430367.000000
s hg38.chr12_GL383549v1_alt     97441 447 +    120804 GACATCAGATGTCTAG---AA-AACCATCTGAATGC---TAATGAAAGCTAACTCCTTTACACTTCCAACCTTCATCTCCCCTTC---TCTCCCA---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACGAGCAGTGA----CTACCTCAGCACAGCATATGCTGTTAGTATTAATGTGCTGCTGAACGA----TATGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCCATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCAGATAACTCAGTTGTTCATTTTATAAGCAATTCCACTCTCAGAACAAAATTGCTCA
s panTro5.chr12              62788970 447 + 137163284 GACATCAGATGTCTAG---AA-AACCACCTGAATGC---TAATGAAAGCTAACTCCTTTACACTTCCAACCTTCATCTCCCCTTC---TCTCCCA---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGACG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGA----CTACCTCAGCACAGTATGTGCTGTTAGTATTAATGTGCTGCTGAACTA----CATGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCCATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAGTTGTTCATTTTATAAGCAATTCCCCTCTCAGAACAAAATTGCTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60912774 447 + 135337776 GACATCAGATGTCTAG---AA-AACCACCTGAATGC---TAATGAAAGCTAACTCCTTTACACTTCCAACCTTCATCTCCCCTTC---TCTCCCA---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGACG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGA----CTACCTCAGCACAGTATGTGCAGTTAGTATTAATGTGCTGCTGAACTA----TATGGCATCATCTGCTTCCACTGGGACATCAGC-TCTCCGTTCCCTTCCATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCACTTACTAAAAGCAAG---------------AGTCACATAACTCAGTTGTTCATTTTATAAGCAATTCCACTCTCAGAACAAAATTGCTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128211 447 -  32808036 GACATCAGATGTCTGG---AA-AACCACCTGAATGC---TAATGAAAGCTAACTCCTTTACACTTTCAACCTTCATCTCCCCTTC---TCTCCCA---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGACG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGA----CTACCTCAGCACAGTATGTGCTGTTAGTATTAATGTGCTGCTGAACTA----TATGGCATCATCTGCTTCCACTGGGACATCAGC-TCTCCGTTCCCTTCCATGCCACCACCCTCCTCCTCCCCCGCAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAGTTGTTCATTTTATAAGCAATTCCACTCTCAGAACAAAATTGCTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318166 447 +  34552619 GACATCAGATGTCTAG---AA-AACCAACTGAATGC---TAACGAAAGCTAACTCCTTTACACTTCCAACCTTCATCTCCCCTTC---TCTCCCA---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGA----CTACCTCAGCACAGTATGTGCTGTTAGTATTAATGGGCTGCTGAACTA----TATGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCATTCCCTTCCATGCCACCACCCTTCTCCTCCCCCACAAGATCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATCGCTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630308 453 - 133663169 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCCG---AAGAACTAACACC----CTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCGGTGACTGGCTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CATGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTCCTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032542 453 - 137757926 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCCG---AAGAACTAACACC----CTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCGGTGACTGGCTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404014 453 -   7948249 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCCG---AAGAACTAACACC----CTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCGGTGACTGGCTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8308671 453 -  10730278 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCGCCTTC---TCCCCCG---AAGAACTAACACC----CTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCGGTGACTGACTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCCGCTTCCACTGGGACATCACC-TCTCCATTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TCGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799385 453 - 128539186 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCCG---AAGAACTAACACC----CTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGACTGACTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCCCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTGAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195392 457 +    435186 GAAATCAGATGTCTAG---AA-AACCAACTGAATGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCCG---AAGAACTAACACCCACTCTTACAGAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCGGTGACTGACTACCTCAGCACAGGATGTGCTGTTAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCTCCA-TTGTAATGCTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595087 467 +   9309688 GACATCAGATGTCTAG---AA-AACCAACTGACTGCTAATAATGAAAGCTAACTCCTTTACACTTCCAACC-TCATCTCCCCTTC---TCCCCTG---AAGAACTAACACC----CTTACACAAAACTCTACTGCATTACTTCTCCATGATG-TCTTTTTA-TTTTAAACTTGTACCAGCAGTGACTGACTACCTCAGCACAGGAGGTGCTGTCAGTATTAATGGGCTGCTGAACCA----CGTGGCATCATCTGCTTCCACTGGGACATCACC-TCTCCGTTCCCTTCAATGCCACCACCCTCCTCCTCCCCCATAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTTGCT-CA-TTGTAATGTTTTGTATTTTTAGCTGTTTTGTCATTTACTAAAAGCAAGATAGTCATTTACTAAAAGCACATAACTCAATTGTTCATTTTATAAGCAATTCCACTCACAGAACAAAATTGCTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416213 447 -  29834108 GCCATTAGATGACTAG---AA-AACCAACTAAATGC---TAATAAAAGCTAGCTCCTTTACACTTCCAAACTTCATCTCCTCTTC---TCCCCAA---AAGAACTAACACC----CTTACACAAAACTCTACTGCGTTACTTATCCATGACA-TCTTTTTA-TTTTAGGTTTGTACCAGCAGTGA----CTACCTTGGCACAGGATGTGCTCTTAGTATTAACGGGCTGCTGAACTA----TATGGCATCATCAGCACCCAGTGGGTCATCACC-CCTCCGTTGCCTTCCAGGCCACCACCCTCCTCCTCCCCAACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTCACTCTA-TTGTAATGCTTTGTATTTTTAGCTGTTTCATCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCATTCACAGAACAAAATTGCTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867140 447 -   1015025 GCCATTAGATGTCTAG---AA-AACCAACTAAACGC---TCATAAAAGCTAACTCCTTTACACTTCCAACCTTCATCTCCCCTTC---TCCCCAA---AAGAACTAACACC----ATTACACAAAACTCTACTGCGTTACTTATCCATGACA-CCTTTTTA-TTTTAAATTTGTACCAGCAGTGA----CTACCTCGGCACAGGCTGTGCTCTTAGTATTAATGGGCTGCTGAACTA----TATGGCATCATCAGCTCCCAGTGGGTCATCACC-CCTCTGTTGCCTTCCAGGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTCACTCTA-TTGTAATGCTTTGTATTTTTAGCTGTTTCGTCATTTACTAAAAGCAAG---------------AGTCACATAACTCAGTTGTTCATTTTATAAGCAATTCCATTCACAGAACAAAATTGCTCA
i cebCap1.NW_016107911v1    I 3 C 0
s aotNan1.NW_018488218v1      1886332 447 -   2295209 GCCATTAGATGTATAG---AA-AACCAACTAAGTGC---TAATAAAAGCTAACTCCTTTGCACTTCCAACCTTCATCTCCCCTTC---TCCCCTA---AAGAACTAACACC----CTTACACAAAACTCTACTGTGTTACTTATCCATGACA-TCTTTTTA-TTTTAAATTTGTACCAGCAGTGA----CTACCTCGGCACAGGATGTGCTCTTAGTATTAACAGACTGCTGAACTA----TATGGCATCATCAGCTCCCAGTGGGTCATCACC-CTTCCGTTGCCTTCCAGGCCACCACCCTCCTCCTCCCCCACAAGCTCTTTTTCTTTCAGGATGTGATCTGTACTTTAATCCTTCTCACTCAA-TTGTAATGCTTTGTATTTTTAGCTGTTTCATCATTTACTAAAAGCAAG---------------AGTCACATAACTCAATTGTTCATTTTATAAGCAATTCCATTCACAGAACAAAATTGCCCA
i aotNan1.NW_018488218v1    I 3 C 0
s micMur3.chr21               3021965 453 +  31815103 GCCATTAGATGTCTAG---AA-AGCCATCTGAATGC---TAATTAAAGCTAAATCCTTTACATTTCCAACCTTCACTTCCCTTCC---TCCCCCA-AGAAGAACTAACACC----CTTACACAAAACTCCACTGCATTACTTACCCATGAcg-ttttttta-ttttaaacttgtaacagcagtga----ctacctcagcacaggatgtgccgtaagcattaatgacccgctgAACTAACTGCGTGGCATCATCTGCTTCCAGTGGGACATTAAG-CCCCCATTCCCTTCCACGCCGCCACCCCCTCCCTCCCCCACAAGCTCTTTTCCTCTCAGGATGTGACCTGTGCTTTAATCCTTCTTGCTCCA-TTTTAATGCTTTGTATTTTTAGCTGTTTTGTCATTCACTAAAAGCAAG---------------AGTCACACAACTCGGTTGTTCATCTTATAagccactccactcacagaaccaagttgctca
i micMur3.chr21             I 3 C 0
s proCoq1.NW_012140524v1      5111344 433 +  13104022 GCCATTAGATGTCTAG---AA-AACCATCTGAATGT---TAATTAAAGCTAACTCCTTTACACTTCCAGCCTTCACCTCCCTCCC---TCCCCCA-AGAAGAACTAACACC----CTTACACAAAACTCCACTGCATTACTTACCCATGAAg-ttttttta-ttttaaacttgtaacagcagtga----ctacctcagcacaggatgtgccgtaagcattaatgacctgctgaacta----catggcatcatctgcttgcaacgggacattac--cccccaTTCCCTTCCATGCCACCACCCCCTTCCTCCCCCACAAGCTCTTTTCCTCTCAGGATGTGACCTGTGCTTTAATCCTTCTTGCTCCA-TTTTAATGCTTTGTATTTTTAG---------------CTAAAAGCAAG---------------AGTCACATAACTCAGTTGTTCATTTTATAAGCCACTCCACTCACAGAACCAAGTGGCTCA
i proCoq1.NW_012140524v1    I 3 I 346
s otoGar3.GL873576            4584892 409 -  12054995 GCCATTAAATGTCTAG---AA-AACCACCTGAGCGC---TAATTAAAGCTAACTCCTTTACCCTTCCAATCTTCACT--------------------------------------CTTACACAGAACTCCACCACATTACTTACCCATGACG-TATTTATA-TTTTAAACTTGTAACAGCAGCCA----CCGTCTCAGCACAGGATGTGCCGTACGCGTTAATGGTCTGCTCAACGA----CATGGCATCACCTGCTTCCGGCCAGACATTAC--CCCCCATTCCCTTCCACGTCACCA----------CCCCCACAAGCCCTTTTGCTCTCAGGATGTGACCTGTACTTTAATCCTTCTTGGTCCATTTTTAAAGCTTTGTATTTTTAGCTGTTTTGTCATTCACTAAAACCAAG---------------AGTCACGTAACTCAGTTGTTCATTTCAAAAGCCATTCCATTCACAGAACCGAGTGGCTCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424402 412 - 149736546 GCCATTAGA----------AT-GACTAATCGAACGA---TAATT-GGGCTAAC----CTACACTTCCAACCCTCACAGTCCCTTCCTGCCATCAA---AAGGATGGGTGTC----CTTCCAACAGGCCCCACTCCATCACTTTCCTGTGATGCTCTTTTTATTTTTATGTCTCTAACAACACTGT----CTCCCTCAGCTCAGGATATGCT-TCAGTATTAGTGACCAGTTCATCTC----CAC---------------------AACACGACA-CCCCCACCCCTTTCCATG-CACCACAC-CCTCGGCCCCCACAAGTTCTTTTTCTCTCAGGATGTGACCTGTACTTTAATCCTCCTTGCTCCA-TTTTAATGCTTTGTATTTTTAGATGTTGTATCACTT----AAAGCCAG---------------GGTCAGATCACATGGCTATTCGCTCCATAAGTGACTCCACTCATAAAACCAAGTCACACA
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19738512 452 +  45876710 GCCATTAGCTGTCTAGAAAAA-AATCATCTGAATGC---TAATTAAAGCGAACTCCTTTACTCCTTCAGCCTTCACTTCCACTCC---CTCCCTGAAAAAGAACTAACACC----CTTAAGATAAACTCTACTACATTACTTACTCATGATg-tcttttta-ttttaaacttgtaacagcaataa----ctacctcagcacaggatgtactgtaagaattcacggccagctgAACTA----CGTGGCATCATTTGCTTCCAGCTGGACACTACCTCCCCCATTCCCTTCCATGCAACCACCCCCTTCCTCCCCCAC-AGCCCTTTTTCTCTCAGGATGTGACCTGTACTTTAATCCTTCTTGCTCCA-TTTTAGCGCTTTGTATTTTTAGCTGTTTTGTCA-TGACTAAAAGCAAG---------------ACTCACACAACTCAGTTGTTCACTTTATAGGTTATTCCACTCACAGATCTAAGTAGCTCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             939352 421 -   1687904 GCCATTAACTGCCTAG---AAGAACCATCTGAATGC---TAGTTAAAGCCAATTCCTTCA------------CCTCCTCTCCCTC---CCCCCAA---AAGAAAAAACA------CTGACACAAAACTCGGGTGCATTGCTCACCCATGACG-ACTTTTTG-TTTTA-ACTTGTAATAACAGTAA----CTACCTCAACACAGGATGTGCAGTTCATCTGCATGACCAGCTGACCTC----CTTGGTATCATCTGCTTCCAGCTGGACACAACG-ACCCCA------TCTATGCCAACACCTTCTTCCTCCCCCACAAACTC--TTGCTCTCAGGATGTGACCT-TGCTTTAATCCTT---GTTCCA-TGTTAGTGCTTTGTATTTTTAGCTGCTTTGTCATTCACTAACAGCAAG---------------ACTCACATAACTCCATCGTTTATTCTATAAGAGGTTCTACTCACAGAGCCAAGTTGCTCA
i dasNov3.JH562883          C 0 C 0

a score=411164.000000
s hg38.chr12_GL383549v1_alt     97888 28 +    120804 TTTTAACACAGCCCTTGGAGTTAACCAA
s panTro5.chr12              62789417 28 + 137163284 TTTTAACACAGCCCTTGGAGTTAACCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913221 28 + 135337776 TTTTAACACAGCCCTTGGAGTTAACCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128658 28 -  32808036 TTTTAACACAGCCCTTGGAGTTAACCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318613 28 +  34552619 TTTTAACACAGCCCTTGGAGTTAACCAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630761 28 - 133663169 TTTTAACACAGACCTTGGAGTTAACCAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109032995 28 - 137757926 TTTTAACACAGACCTTGGAGTTAACCAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404467 28 -   7948249 TTTTAACACAGACCTTGGAGTTAACCAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309124 28 -  10730278 TTTTAACACAGACCTTGGAGTTAACCAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799838 28 - 128539186 TTTTAACACAGACCTTGGAGTTAACCAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195849 28 +    435186 TTTTAACACAGACCTTGGAGTTAACCAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595554 28 +   9309688 TTTTAACACAGACTTTGGAGTTAACCAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416660 28 -  29834108 TTTTAACACAGCCCTTGGAGTTAACCAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867587 28 -   1015025 TTGTAACACAGCCCTTGGAATTAACCAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886779 28 -   2295209 TTGTAACGCAGCCCTTAGAGTTAACCAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3022418 28 +  31815103 ttttaacacagctcttggacttaaccaa
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5112123 28 +  13104022 TTTTAACACAGCTCTTGGTCTTAACCAG
i proCoq1.NW_012140524v1    I 346 C 0
s otoGar3.GL873576            4585301 28 -  12054995 TTTTAACACAGCTCTTGGACTTGATCAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2424814 22 - 149736546 CTTTAAC------CATGAACTTAGCCAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19738964 28 +  45876710 TTTTAATACAGCTTTGAGACTTACCTAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             939773 28 -   1687904 TTTTAGCATAGCTCTTAGTGTTAACCAA
i dasNov3.JH562883          C 0 I 1793

a score=576537.000000
s hg38.chr12_GL383549v1_alt     97916 48 +    120804 GGTAAGAATACATGAGAATTAGTTGTATCTGGCTCTCTTTTAAGGTTT-
s panTro5.chr12              62789445 48 + 137163284 GGTAAGAATACATGAGAATTAGTTGTATCTGGCTCTCTTTTAAGGTTT-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913249 48 + 135337776 GGTAAGAATACATGAGAATTAGTTGTATCTGGCTCTCTTTTAAGGTTT-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128686 48 -  32808036 GGTAAGAATACATGAGAATTAGTTGTATCTGGCTCTCTTTTAAGGTTT-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318641 48 +  34552619 GGTAAGAATACATGAGAATTAGTTGTATCTGGCTCTCTTTTAAGGTTT-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630789 47 - 133663169 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGG-TT-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033023 47 - 137757926 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGG-TT-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404495 47 -   7948249 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGG-TT-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309152 47 -  10730278 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGG-TT-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799866 47 - 128539186 GGTAAGAATACATGAGAACTAGTTGTACCTGGCTCTCTTTTAAGG-TT-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195877 47 +    435186 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGG-TT-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595582 47 +   9309688 GGTAAGAATACATGAGAACTAGTTGTATCTGGCTCTCTTTTAAGA-TT-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416688 47 -  29834108 CATAAGAATACATGAGAACTAGTTGTATCTGGTTCTCTCTTAAGA-TT-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867615 47 -   1015025 CATAAGAATACATGAGAACTAGTTGTATCTGGTTCTCTCTTAAGT-TT-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886807 47 -   2295209 CGTAAGAATACATGAGAACTAGTTGTATCTGGTTCTCTCTTAAGG-TT-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3022446 47 +  31815103 tgtaagagtatgtatgaACTAGTTGTATCTGATTCTCTTTCAAGG-TT-
i micMur3.chr21             C 0 I 46
s proCoq1.NW_012140524v1      5112151 47 +  13104022 TGTAAGAATATGTATGAACTAGTTGTATCCAATTCTCTTTCTAGG-TT-
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4585329 47 -  12054995 GATAAGAGTGTCGATGAACTAGTCGTATATGATTCTCTTTCAAGG-TT-
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2424836 46 - 149736546 TTCAATAGTCGATGTGAATCTGT-ACAGCTGATTTTCTCTAAAAG-TT-
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19738992 48 +  45876710 TATGAGAGTACAAGTGAACTCATGGCATCTGATTCTCTTTCAAGG-TTT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             939801 1793 -   1687904 I

a score=294343.000000
s hg38.chr12_GL383549v1_alt     97964 31 +    120804 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT---
s panTro5.chr12              62789493 31 + 137163284 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913297 31 + 135337776 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128734 31 -  32808036 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318689 31 +  34552619 TATTAACATCATTTTCCAC-----------GTAGACTC--TTTT---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630836 33 - 133663169 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT-AA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033070 33 - 137757926 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT-AA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404542 33 -   7948249 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT-AA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309199 34 -  10730278 TATTAACATCATTTTCCAC-----------GTAGACTC--TTTTAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799913 33 - 128539186 TATTAACATCATTTTCCAT-----------GTAGACGC--TTTT-AA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195924 33 +    435186 TATTAACATCATTTTCCAT-----------GTAGACTC--TTTT-AA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595629 33 +   9309688 TATTAACGTCATTTTCCAT-----------GTAGACTC--TTTT-AA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416735 31 -  29834108 TATTAGCACCATTTTCCAT-----------GTAGGCTC--TTTT---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867662 31 -   1015025 TATTAGCACCATTTTCCAT-----------GTAGGCTC--TTTT---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886854 31 -   2295209 TATTAGCACCGTTTTCCAT-----------GTAGGCTC--TTTT---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5112199 31 +  13104022 -ATTAACACTCCTTTCCAT-----------GGAGACTC---CTT-AA
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4585377 34 -  12054995 -ATTAGCACTCCTTTCCAT-----------GTAGGCTCTCTCTC-AA
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2424883 40 - 149736546 -ACTGAAACTCCTTCTTCTGGGGCGTATGGGGGGGCTC---CTT---
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19739040 30 +  45876710 -CTTAACACCCCTTTCCAT-----------GGAGTTCC--CTTT---
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3022493 46 +  31815103 I
e dasNov3.JH562883             939801 1793 -   1687904 I

a score=106816.000000
s hg38.chr12_GL383549v1_alt     97995 9 +    120804 -AAAAGACAT
s panTro5.chr12              62789524 9 + 137163284 -AAAAGACAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913328 9 + 135337776 -AAAAGACAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128765 9 -  32808036 -AAAAGACAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318720 9 +  34552619 -AAAAGACAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630869 9 - 133663169 -AAAAGACAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033103 9 - 137757926 -AAAAGACAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404575 9 -   7948249 -AAAAGACAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309233 9 -  10730278 -AAAAGACAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799946 9 - 128539186 -AAAAGACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195957 9 +    435186 -AAAAGACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595662 9 +   9309688 -AAAAGACAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416766 9 -  29834108 -AAAAGACAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867693 9 -   1015025 -AAAAGACAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886885 9 -   2295209 -AAAAGACAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5112230 8 +  13104022 -AAAAAAAA-
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4585411 8 -  12054995 -AAAAAAAA-
i otoGar3.GL873576          C 0 I 3
s mm10.chr6                   2424923 9 - 149736546 -AAAAGAAAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19739070 9 +  45876710 -AAAAGAAAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             941594 9 -   1687904 AAAAAAAAA-
i dasNov3.JH562883          I 1793 C 0
e micMur3.chr21               3022493 46 +  31815103 I

a score=1356164.000000
s hg38.chr12_GL383549v1_alt     98004 97 +    120804 GCTATCTAAATAAAACCAGCCTTAAATCATATAGGAAGAGACTAGTTCAGGTAGGGTATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATAAA
s panTro5.chr12              62789533 97 + 137163284 GCTATCTAAATAAAACCAGCCTTGAATCGTATAGGAAGAGACTAGTTCAGGTAGGGTATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913337 97 + 135337776 GCTATCTAAATAAAAACAGCCTTAAATCATATAGGAAGAGACTAGTTCAGGTAGGGTATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128774 97 -  32808036 GTTATCTAAATAAAACCAGCCTTAAATCATATAGGAAGAGACTAGTTCAGGTAGGGTATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318729 97 +  34552619 GCTATCTAAATAAAACCAGCTGTAAATCGTATAGGAAGAGACTAGTTCAGGTAGGGTATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630878 97 - 133663169 GCTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033112 97 - 137757926 GCTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404584 97 -   7948249 GTTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309242 97 -  10730278 GCTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACTAGTTCAGATAGGATATCAAAAGACTAATTGTCTGCTTTTACTAAATCAGATACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100799955 97 - 128539186 GCTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       195966 97 +    435186 GCTATCTAAATAAAACCAGCCTTAAAGAGCATAGGAAGAGACTAGTTCAGATAGGATATCAAAAGACTAATTGTCTGCTTCTACTAAATCAGATACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595671 97 +   9309688 GCTATCTAAATAAAACCAGCCTTAAATAGTATAGGAAGAGACCAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416775 97 -  29834108 GCTATCTAAATAAAACCAGACTTAAATTGTATAGGAAAAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGGTACA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867702 97 -   1015025 GCTGTCTAAATAAAACCAGCCTTAAATTGTATAGGAAGAGACTAGTTCACGTAGGATATCAAAAGACTAATTGTCCGCATTTACTAAATCAGATACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886894 97 -   2295209 GTTATCTAAATAAAACCAGCCTTAAATTGTATAGGAAGAGACTAGTTCAGGTAGGATATCAAAAGACTAATTGTCTGCATTTACTAAATCAGATACA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3022539 97 +  31815103 GATATCTAAATAAAACCAGCCTTAAATCATATAGGAAGAAACCAGTTCAAGGAGAATATCAAATGACTAATTGTCTGAAATGACTAAGTCAGATACA
i micMur3.chr21             I 46 C 0
s proCoq1.NW_012140524v1      5112238 97 +  13104022 GATATCTAAACAAAACCAGCCTTAAATCATATAGGAAGACGCTAGTTCAAGGAGACTATCAAATGACTAATTATCTGAAATGACTAAGTCAGATATA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4585422 86 -  12054995 AGTATCTAAATAAAACCAGCCTTACATCATAGAGGAAAAGATTATTTCAAGTGGACTAGAAAATGA-------TCTGAATTGAC----TCAGATGCA
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2424932 76 - 149736546 GTTAGCTAAATAAAAC--ACCTTCAA--GCATAAGAAGAGACAACTTTAGGTAGAATATTGAAAGTCCTGCTGTCTGAAT-----------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19739079 97 +  45876710 GCCATCTAAATAAAATCAGCCTGGAAATGTATAGGAGGAGACTAGTTTGAGTATGATATCAAAAGGCTAATTATCTAAGTAGATGAAGGCAGCTACA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             941603 97 -   1687904 GCCATCTAAATTAAACCACCCTTTTGACACATAGGACGAGACTAGTTCCAGGAGGGTATCAAAAGATGAATTGTCTGAATTGACTAAGGCAGATCAA
i dasNov3.JH562883          C 0 I 474

a score=279089.000000
s hg38.chr12_GL383549v1_alt     98101 23 +    120804 ATGACCTTGAACGCCTATGGCCA
s panTro5.chr12              62789630 23 + 137163284 ATGACCTTGAATGCCTATGGCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913434 23 + 135337776 ATGACCTTGAACGCCTATGGCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128871 23 -  32808036 ATGACCTTGAACACCTATGGCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318826 23 +  34552619 ATGACCTTGAATGCCTATGGCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630975 23 - 133663169 ATGACCTCGAACGCCTATGGCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033209 23 - 137757926 ATGACCTCGAACGCCTATGGCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404681 23 -   7948249 ATGACCTCGAACGCCTATGGCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309339 23 -  10730278 ATGACCTTGAACACCTATGGCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100800052 23 - 128539186 ATGACCTTGAACGCCTATGGCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       196063 23 +    435186 ATGACCTTGAACACCTATGGCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595768 23 +   9309688 ATGACCTTGAACACCTATGGCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416872 23 -  29834108 ATGACCTTGAACTCCTATGACCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867799 23 -   1015025 ATGACTTTGAACTCCTATGACCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1886991 23 -   2295209 ATGACCTTGAACTCCTATGACCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3022636 23 +  31815103 ATGACCTTGAACTCCTAGGACCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5112335 23 +  13104022 ATGACCTTGAACCCCTAGGACCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4585508 22 -  12054995 ATGACCTCGCACCCCT-GGACCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2425008 21 - 149736546 -TGACCTTGAACCTACAGGGCT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19739176 17 +  45876710 GTGA------ACCTCTAGAACAA
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             941700 474 -   1687904 I

a score=13334269.000000
s hg38.chr12_GL383549v1_alt     98124 924 +    120804  
s panTro5.chr12              62789653 918 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60913457 915 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3128894 918 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7318849 914 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104630998 922 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109033232 922 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1404704 921 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8309362 925 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100800075 925 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       196086 925 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3595791 920 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11416895 917 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       867822 927 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1887014 921 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3022659 901 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5112358 910 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 17
s otoGar3.GL873576            4585530 896 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2425029 861 - 149736546  
i mm10.chr6                 C 0 I 3
s canFam3.chr27              19739193 923 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             942174 921 -   1687904  
i dasNov3.JH562883          I 474 C 0

a score=237801.000000
s hg38.chr12_GL383549v1_alt     99048 25 +    120804 tgacca-tgccatactgcctcttatc
s panTro5.chr12              62790571 25 + 137163284 tgacca-tgccatactgcctcttatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60914372 25 + 135337776 tgacca-tgccatactgcctcttatc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3129812 25 -  32808036 tgacca-tgccatactgcctcttatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7319763 25 +  34552619 tgacca-tgccatactgcctcttata
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104631920 25 - 133663169 cgacca-tggtatactgcctctcATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034154 25 - 137757926 cgacca-tggtatactgcctctcATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1405625 25 -   7948249 cgacca-tggtatactgcctctcATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8310287 25 -  10730278 cgacca-tggtatactgtctctcatc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801000 25 - 128539186 tgacca-tggtatactgtctctcatc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197011 25 +    435186 cgacca-tggtatactgcctctcatc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3596711 25 +   9309688 tgacca-cggtatactgcctctcatc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11417812 25 -  29834108 taacca-tgccatactgcctctcatc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       868749 25 -   1015025 taacca-tgccatactgcctctcatc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1887935 25 -   2295209 taacca-tgccataccgcctctcatc
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3023560 10 +  31815103 ----------------gcctctcatc
i micMur3.chr21             C 0 I 8
s otoGar3.GL873576            4586426 25 -  12054995 ctacca-cgccacgctgcATCTCATC
i otoGar3.GL873576          C 0 I 8
s mm10.chr6                   2425893 19 - 149736546 -------TGAGCTACCTGCCCTGGTC
i mm10.chr6                 I 3 I 3
s canFam3.chr27              19740116 25 +  45876710 cttcca-tgccatactgtctttcctc
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             943095 16 -   1687904 ---CTACTGCCATACTGCC-------
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5113268 17 +  13104022 I

a score=6754758.000000
s hg38.chr12_GL383549v1_alt     99073 475 +    120804  
s panTro5.chr12              62790596 475 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60914397 475 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3129837 475 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7319788 476 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104631945 460 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034179 460 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1405650 460 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8310312 460 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801025 460 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197036 460 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3596736 460 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11417837 463 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       868774 468 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1887960 467 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3023578 456 +  31815103  
i micMur3.chr21             I 8 I 298
s proCoq1.NW_012140524v1      5113285 453 +  13104022  
i proCoq1.NW_012140524v1    I 17 C 0
s otoGar3.GL873576            4586459 454 -  12054995  
i otoGar3.GL873576          I 8 C 0
s mm10.chr6                   2425915 455 - 149736546  
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19740141 464 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             943111 452 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=3037705.000000
s hg38.chr12_GL383549v1_alt     99548 270 +    120804 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactaaccatca--ga--caa------gccctgca------------------aatcatgagcaa----------at-tgtttatagcctccacgtgttggggtggc---ttgttatatagcagtagataactgatCAACTACATTAAGTGCT--AGTCTCTAGAGAGAGAG--AACTAAAGAAagagg--tgaacaagacagtcttcactatcagggaa-ctcacagac--tgatgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
s panTro5.chr12              62791071 270 + 137163284 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcaa----------at-tgtttatagcctccacgtgttggggtggc---ttgttatatagcagtagataactgatCAACTACATTAAGTGCT--AGTCTCTAGAGAGAGAG--AACTAAAGAAagagg--tgaacaagacagtcttcactatcagggaa-ctcacagac--tgatgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60914872 270 + 135337776 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcaa----------at-tgtttatagcctccacgtgttggggtggc---ttgttatatagcagtagataaccgatCAACTACATTAAGTGCT--AGTCTCTAGAGAGAGAG--AACTAAAGAAagagg--tgaacaagacagtcttcactatcagggaa-ctcacagac--tgatgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3130312 270 -  32808036 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcaa----------at-tctttgtagcctccacgtgttggggtggc---ttgttatatagcagtagataactgatCAACTACATTAAGTGCT--AGTCTCTAGAGAGAGAC--AACTAAAGAAagagg--tgaacaagacagtcttcactatcagggaa-ctcacagac--tgatgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7320264 270 +  34552619 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcaa----------at-tgtttgtagcctccacgtgttggggtggc---ttgttatatagcagtagataactgatCAACTACGTTAAGTGCT--AGTCTCTAGAGAGAGAG--AACTAAAGAAagagg--tgaagaagacagtcttcactatcagggaa-ctcatagac--tggtgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104632405 277 - 133663169 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgtagcagtagataactgatCAACTACGTTAAATACT--AGTCTCTAGAGAGACAG--AACTAAAGAAagagg--tgaagaagatagtcttaactatcagagaa-ctcacagac--tggtgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034639 277 - 137757926 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgtagcagtagataactgatCAACTACGTTAAATACT--AGTCTCTAGAGAGACAG--AACTAAAGAAAGAGG--TGAAGAAGATAGTCTTAACTATCAGAGAA-CTCACAGAC--TGGTGAGGAATACAAACACAAAA--TCA-TCTTTAAGAAATAGAGTGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406110 277 -   7948249 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgtagcagtagataactgatCAACTACGTTAAATACT--AGTCTCTAGAGAGACAG--AACTAAAGAAAGAGG--TGAAGAAAATAGTCTTAACTATCAGAGAA-CTCACAGAC--TGGTGAGGAATACAAACACAAAA--TCA-TCTTTAAGAAATAGAGTGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8310772 277 -  10730278 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgaagcagtagataactgatCAACTATGTTAAATACT--AGTCTCTAGAGAGATGG--AACTAATGAAagagg--tgaagaagatagtcttaactatcagagaa-ctcacagac--tggtgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801485 273 - 128539186 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagtgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgaagcagtagataactgatCAACTACGTTAAATACT--AGTCTCTAGAGAGATAG--AACTAAAGAAAGAGG--TGAAGAAGATAGTC----CTATCAGAGAA-CTCACAGAC--TCGTGAGGAATACAAACACAAAA--TCA-TCTTTAAGAAATAGAGTGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197496 277 +    435186 cacagatgcatgagtgagctcagccaataccatgtagtgcagagactagccatca--ga--caa------gccctgca------------------aatcatgagcgaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgttatgtagcagtagataactgatCAACTACGTTAAATACT--AGTCTCTAGAGAGACAG--AACTAAAGAAagagg--tgaagaagatagtcttaactatcagagaa-ctcacagac--tggtgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597196 277 +   9309688 cacagatgcatgagtgagctcagccaataccatgtagtgcagagaccagccatca--ga--caa------gccctgca------------------aatcatgagcaaatgaag---tat-tgcttgtagcctccacgtgttggggtggc---ttgctatgtagcagtagataactgatCAACTACATTAAATACT--AGTCTCTAGAGAGACAG--AACTAAAGAAagagg--tgaagaagatagtcttaactatcagagaa-ctcacagac--tggtgaggaatacaaacacaaaa--tca-TCTTTAAGAAATAGAGTGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11418300 291 -  29834108 cacagatgaatgagtgagctcagtcaataccatgtagttcagagactagccatca--ga--tga------gccctgcacatattgtttaccca--gaatcatgagcaaataaag---tac-tatttgtagcctccacattttggggtggc---tttttaggtaccagtagacaactgatCAAATAtattaagtgct--agtctctagagagagag--aact----gaaaagg--tgaataagacagtcttcactataagaaaa-ctcacagac--tggggaggaatacaaacaCAAAAG-TCATTCTTGAAGAAATGGAGTGAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       869242 295 -   1015025 cacagatgcatgagtgagctcagtcaataccatgtagttcagagactagccatca--ga--tga------gccctgcacattttgtttaccca--gaatcatgagcaaataaag---cac-tatttgtagccttcacattttggggtggc---tttttaggtaccagtatacaactgatCAAATATGTTAAGTGCT--AGTCTCTAGAGAGAGAG--AGCTAAAGAAAGAGG--TGAATAAGACCGTCTTCACTATCAGAAAA-CTAACAGAC--TGGTGAGGAATACAAACACAAAAG-TCATTCTTTAAGAAATGGAGTGAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1888427 291 -   2295209 cacagatgcatgagtgagctcagtcaataccatgtagttcagagactagccatca--ga--tga------gccctacacatattgtttaccca--gaatcatgagcaaataaag---tac-tatttgtagcctccacattttggggtggc---tttttaggtactagtagacaactgatCAAATAtattaagtgct--agtctctagagagagag--aact----aaagagg--tgaataagacagtcttcactatcagaaaa-ctcacagac--tggtgaggaatataaacaCAAAAG-TCATTCTTTAAGAAATGGAGTGAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5113738 306 +  13104022 tgcagatttgtgagtgagtttatccaatgtcacatggcatggagaccagc-atcagaga--tta------gtcttgcacatgttgttgacccactgaatcaccagcaaataaagaggtgg-tatttgtagcctccaaattttggggtggtttgttgttatgtagcagtagataactgatccaCCACGTTAAATGCT--AGACTCTAGAGAAAGAGATAGCTAAAGAAagaga--tgaataagacagtcttttccaccatgaaa-ttcacagat--cagtgaggaatacaaacatAAAAG-TCATCCTTTGAGAAATGGAGCACT
i proCoq1.NW_012140524v1    C 0 I 2
s otoGar3.GL873576            4586913 305 -  12054995 tgcacatttgtgagtgaggttagccaatgcctcatggcgtggagaccagctatcaagga--ctg------gctttgcacgtgttgctgacccactgaatcatgagcagataaagagttgg-tatctgtggcctccaagttttaaggtggcttgttgttaagtagcgatggataactgatccaCCATGTTCAGGGCT---GATTCTGGAGAAAGAGATAGCTAAAGaaagaca----aatgagccaggttttgctgtcacaaaagctcacagac--tggtggagaaaacaaataTAAAAG-TCATCTTTTGAGAAATGGAGTAGC
i otoGar3.GL873576          C 0 I 2
s mm10.chr6                   2426370 292 - 149736546 ctcaaatacagaagtgagctcagcccatactgtggag-gcagcactcagctctca--gaggtga------ggctcacaagctgtgctgacccacagactcctgagcatgcaaaa---ggtgggtttgcaacttttaagc-ttggggtgac---ttgtcaATTAAGAAGAGAGAAGGAATC--CTCTATTAAATGTTAGAGTCTGTGTAAAGAAAT--CATCAAAGAAAGAGA--TAAA-AGGAAAG----CGCCATCAG-GAA-TTCACAGACTTTAGTAAGGGACTTAAACACAAGA--AAC-TTTCTTCAAAACAGAGTGAT
i mm10.chr6                 C 0 I 3270
s canFam3.chr27              19740605 286 +  45876710 tgcaaaggattgaatgagttcagccaataccctgtagtgcagaaaccaggcttcacaaa--tga------aatctcca----caagttgaccacagaatcatgagcaagtaaggaagtac-tgtttgtagcctccaagttttggtatggt---ttgttatgtagcaatagataa-tgataGATTATGTTAAGTGTT--AGACTCTAGAGAGATAG----CCAAAGAAagaga--tgagtaagacaacctttgccatcaaggaa---------c--tcaTGATGAATATAAACATAAAG--GCACCTTTTAAGAAATGCAGTCAT
i canFam3.chr27             C 0 I 2
s dasNov3.JH562883             943563 270 -   1687904 tgcacgtgcaaaggtgagcccagccaacg-tatgaggtgccaagactgcacctgc--ca--caaatggctgacccgca-----------------gaatcataagcaaatgaagagttat-tgtttgtagcctgcaagttttggggtggt---ttgccacagagcaatagatcactg---------------------atacaCCAGAGAAAGAT--Agctgaagaaagagagatgaagaagat-gtctttgccatcaaagaa-tccacagac--aagtgagcaagacatatacaaaagctga-cctctaagaaatggagtgat
i dasNov3.JH562883          C 0 I 2
e micMur3.chr21               3024034 298 +  31815103 I

a score=72989.000000
s hg38.chr12_GL383549v1_alt     99818 6 +    120804 GTTTTG
s panTro5.chr12              62791341 6 + 137163284 GTTTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915142 6 + 135337776 GTTTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3130582 6 -  32808036 GTTTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7320534 6 +  34552619 GTTTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104632682 6 - 133663169 GTTTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034916 6 - 137757926 GTTTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406387 6 -   7948249 GTTTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311049 6 -  10730278 GTTTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801758 6 - 128539186 GTTTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197773 6 +    435186 GTTTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597473 6 +   9309688 GTTTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11418591 6 -  29834108 GTTTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       869537 6 -   1015025 GTTTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1888718 6 -   2295209 GTTTTG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5114046 6 +  13104022 GTTTCA
i proCoq1.NW_012140524v1    I 2 C 0
s otoGar3.GL873576            4587220 6 -  12054995 GTCTCA
i otoGar3.GL873576          I 2 C 0
s canFam3.chr27              19740893 6 +  45876710 ATTTCA
i canFam3.chr27             I 2 C 0
s dasNov3.JH562883             943835 6 -   1687904 gtatca
i dasNov3.JH562883          I 2 C 0
e mm10.chr6                   2426662 3270 - 149736546 I
e micMur3.chr21               3024034 298 +  31815103 I

a score=69145.000000
s hg38.chr12_GL383549v1_alt     99824 5 +    120804 TGCAG
s panTro5.chr12              62791347 5 + 137163284 TGCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915148 5 + 135337776 TGCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3130588 5 -  32808036 TGCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7320540 5 +  34552619 TGCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104632688 5 - 133663169 TGCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034922 5 - 137757926 TGCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406393 5 -   7948249 TGCAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311055 5 -  10730278 TGCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801764 5 - 128539186 TGCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197779 5 +    435186 TGCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597479 5 +   9309688 TGCAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11418597 5 -  29834108 TGTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       869543 5 -   1015025 TGTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1888724 5 -   2295209 TGTGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024332 5 +  31815103 TGCAG
i micMur3.chr21             I 298 C 0
s proCoq1.NW_012140524v1      5114052 5 +  13104022 CACAG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4587226 5 -  12054995 TGCAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19740899 5 +  45876710 TGCAG
i canFam3.chr27             C 0 I 220
s dasNov3.JH562883             943841 5 -   1687904 taCAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2426662 3270 - 149736546 I

a score=4153624.000000
s hg38.chr12_GL383549v1_alt     99829 312 +    120804 T-TTTCTAAgtgagaaattgtcagggactaacttatggtattgagggt--aaattcaatagggtttgatgactgagtgggatgattgaagaaagagtctagta-----tgatgtctactttagaatgcttgatagctagtggtaacattaag----atagagaaggcctaaagaggggtaggtttaggagaaaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaacggatac----------------------acaagc---tcaaagttctggagagca
s panTro5.chr12              62791352 312 + 137163284 T-TTTCTAAgtgagaaattgtcagggactaacttatggtattgagggt--aaattcaatagggtttgatgactgagtgggatgattgaagaaagagtctagta-----tgatgtctactttagaatgcttgatagctagtggtaacattaag----atagagaaggcctaaagaggggtaggtttaggagaaaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaacagatac----------------------acaagc---tcaaagttctggagagca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915153 312 + 135337776 T-TTTCTAAgtgagaaattgtcagggactaacttatggtattgagggt--aaattcaatagggtttgatgactgagtgggatgattgaagaaagagtctagta-----tgatgtctactttagaatgcttgatagctagtggtaacattaag----atagagaaggcctaaagaggggtaggtttaggagaaaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaacggatac----------------------acaagc---tcaaagttctggagagca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3130593 311 -  32808036 T-TTTCTAAgtgagaaattgtcagggactaacttatggtattgagggt--aaattcaatagggtttgatgactgagtgggatgattgaagaaagagtctagta-----tgatgtctactttagaatgcttgatagctagtggtaacattaag----atagagaaggcctaaagaggggtaggtttaggagaaaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttc-agatgaagttcaggactctgtaacatctaggtagaaacggatac----------------------acaagc---tcaaagttctggagagca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7320545 312 +  34552619 T-TTTCTAAgtgagaaattgtaaggaactaacttatgatattgagggt--aaattcagcagggttttatgactgagtgggatgactgaagaaggagtctagta-----tgatgtctacttcagaatgcttgatagctagtggtaacattaag----atcgaggaagcctaaagagggataggtttaggagaaaggagagggagat--------g---aatagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaacggatac----------------------acaagc---tcaaagttctggagagca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104632693 312 - 133663169 T-TTTCTAAGTGAGAAATTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctactttagaatgcttgatagctagtagtaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaaggtcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109034927 312 - 137757926 T-TTTCTAAGTGAGAAATTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctactttagaatgcttgatagctagtagtaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaatttcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406398 310 -   7948249 T-TTTCTAAGTGAGAAACTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctac--tagaatgcttgatagctagtagtaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311060 312 -  10730278 T-TTTCTAAGTGAGAAATTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctactttagaatgcttgatagctagtagtaacattaag----acagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacttgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100801769 312 - 128539186 T-TTTCTAAGTGAGAAATTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctactttagaatgcttgatagctagtagtaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacatgctgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       197784 312 +    435186 T-TTTCTAAGTGAGAAATTATGAGGGGCTACCTTATGGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgactgaagaaagagtctaata-----tgatgtctactttagaatgcttaatagctagtagtaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcagatttgacatgttgactttgatgatgaacctagaagtttcaagatgaagttcaggactctgtaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597484 312 +   9309688 T-TTTCTAAGTGAGAAATTATGAGGGGCTACTTTATAGTAttgagggt--aaattcaatagggtttgatgactgagtgggatgattgaagaaagagtctagta-----tgatgtctactttagaatgcttgatagctagtagcaacattaag----atagagaaagcctaaagaggggtaggtttaggagagaggagagggagat--------g---agtagtgcggatttgatatgttgactttgatgataaacctagaagtttcaagatgaagttcaggactctgcaacatctaggtagaaatggatac----------------------acaagc---tcaaagttctggagagca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11418602 309 -  29834108 T-TTTCTAAGTGAGAAATTATaaggggctaaattatggtattgagggt--aaattcagtagggtttgacgactgagtgggatgatcgaag---gagtctagta-----tgatgtctacttcagaatgcttgatagctatgggtaacattaag----atagagaaagcctgaagaggagtaggtttaggaagaaggagagggagat--------g---agtagtgcatatttgacatactgactttgataaggaacctggaagtttcaatataaagttcaggactctgtaacatctaggtagaaatggacac----------------------acaagc---ttgacattctgcagagca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       869548 310 -   1015025 TGTTTCTAAGTGAGAAATTATaaggggctaaattatggtattgagggt--aaattcagtagggtttgatgactgagtgggatgatcgaag---gagtctagca-----tgatgtctacttcagaatgcttgatagctactggtaacattaag----atagagaaagcctgaagaggagtaggtttaggaggagggagagggagat--------g---agtagtgcagatttgacatactgactttgataaggaacctagaagtttcaatataaagtttaggactctgtaacatctaggtagaaatggacac----------------------acaagc---ttgaagttctggagagca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1888729 309 -   2295209 T-TTTCTAAGTGAGAAATTATaaggggctaaattatggtattgagggt--aaattcagtagggtttgatgactgagtgggctgatcgaag---gagtctagta-----tgatgtctacttgagaatgcttgatagctactggtaacattaaa----atagagaaagcctgaagaggagtaggtttaggaggaaggagagggagat--------g---agtagtgcagatttgacatattgactttgataaggaacttagaagtttcaatataaagttcaggactctgtaacatctaggtagaaatggacac----------------------acaagc---ttgaagttctggagagca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024337 314 +  31815103 T-TTTCTAAGTGATAAATTATGAGGGGCTAAATTAAGGTATTGAGGTT--AAATTCAATAGGGTTTGATAACTGAGTGAGATGATTGAAGAAGGAGCCTAGTA-----TGGTGTCTACTTTGGAATGCTTGTTAGATACTGATAAGGTCAag----ctggggaaaccctaaagaggattaggtttaggacgaagggaagtgaaat--------gagcagtagttcagatttgacatgttgaccttgaggaggaacctggaagtttcaagatgaagctcaggcttata-aacatccagggagaaatgaatat----------------------acaagc---tcaatgttctggagagca
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5114057 311 +  13104022 T-TTTCTAAgtgagaaattataaggggctaaattaaagtattgaggtt--aaattcggtaggatttgatgactgagtgggatgattcaagaaggagtctagta-----tggtgtctactttggaatgcttgatagatactgataacgttaag-----tggggaaagcctaaagacgattaggtttaggaggaagggaagtgaaat----------gcagtagttcagatttgacatgttgacttcgaggaggaacctggaagtttcaagatgaagttcaggcttata-aacatccaggtagaaatgaacat----------------------acaagc---tcgaagttctggagagca
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4587231 306 -  12054995 T-TTTCTAAGTGAGAAATTCTAAGGGGCTAAATTAAAATACTGAG-------ATTCAGTGGGGGGTGGCGACTGAGTGAGATGATT---AAAGGCGTCTAGAA-----TGATGTCGGCTTTAGAATGCTTAGTAGACACAGGTAACCTGAAG----TTGGAGAAAGGCTGAAGAGGAGACGGTTTAGGGAGAAAGACAGTGAAAT--------GAGAAGTAATTCAGATTTGACGGGTTCACTTTGATAAGGAACCTGGATGTTTCAAGATGAAGTTCAGCTATGTA-AGCATCTAGGCAGAAATGAATAT----------------------ACAAGC---TCAAAGTTCCAAAGAACA
i otoGar3.GL873576          C 0 I 309
s canFam3.chr27              19741124 314 +  45876710 T-TTTCTAAAGGAGAAATTATAAAGAGCTAAATCCAGATGTTGAAGGT----GTTCATTAGGGTTTGATGACTGAATAGG-TAGTTCAAG---GAGTCTAGTA-----TGATGTTCAGCTTAGATCACCTAATTGATATTGGTGACATTAGG----TTGCAgaaagcctgaggaaaagtaggtttagggaaaagaggaggaagatagggaaaag---agaagttcagatttcacatgttggcttcattaagaaacatagaaggatcaagatgaagttcaggcctacttaacatccaggtagaagtagatat----------------------atgagc---ctgaatttctggagagca
i canFam3.chr27             I 220 C 0
s dasNov3.JH562883             943846 340 -   1687904 T-TTCCTAAGTGGGAAATTATAAGCGACTAA-----GGCtttgaatgtagagatccgataaactttgaggactgaatgggatggttgaagaagaagtctagtattatctgacgtctggcttagaacctttgatagatactggtaacattaattaatttggagaaagcctgaagaggagtaggtttgggaataaatggagggagac--------g---agtagttcagatttggcacgttga--ttgaTGAAG-ACCTGAAGTTTTCACCAGGAAGTTCAGGACTGTGCAACGAGTAGGTAGAAATGCTTTTGTTTTGTTTTGTTTTTAGTAGAACAGGCTTTTTGAAGCTCAATAGGACA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2426662 3270 - 149736546 I

a score=1959235.000000
s hg38.chr12_GL383549v1_alt    100141 158 +    120804 gattggactaggtggcatccttgagaatcatctacacc---tattagta---gtagtttaagccacaggcagggattaaactga-c-agagagaatgtaTCAACCAAACTAGAGGTGAGGGAGTAGAGACAGTCAGTGGATTGTT-CTTT-GAAAA----ATTTTCTGGGAT
s panTro5.chr12              62791664 158 + 137163284 gattggactagatggcatccttgagaatcatctacacc---tattagta---gtagtttaagccacaggcagggattaaactga-c-agagagaatgtaTCAACCAAACTAGAGGTGAGGGAGGAGAGATAGTCAGTGGATTGTT-CTTT-GAAAA----ATTTTCTGGGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915465 158 + 135337776 gattggactaggtggcatccttgagaatcatctacacc---tattagta---gtagtttaagccacaggcagggattaaactga-c-agagagaatgtaTCAACCAAACTAGCGGTGAGGGAGTAGAGACAGTCAGTGGATTGTT-CTTT-GAAAA----ATTTTCTGGGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3130904 157 -  32808036 gattggact-gatggcatccttgagaatcatctacacc---tatgagta---gtagtttaagccacaggcagggattaaactga-c-agagagaatgtaTCAACCAAACTAGAGGTGAGGGAGTAGGGATAGTCAGTGGATTGTT-CTTT-GAAAA----ATTTTCTGGGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7320857 159 +  34552619 gattggactagatggcatccttgagaatcatctatacc---tattagta---gtagtttaagacacagacagggattaaactga-c-agagagaatgtaTCAACCAAACTAGAGGTGAGGGAGTAGAGACAGTCAGTGGATTGTT-CTTTGGAAAA----ATTTTCTGGGAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633005 158 - 133663169 gactggactagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAGGTGAGGGAGTAGAGACAGTCAGTGGATTTTC-TTTT-GAAAA----TTTTTCTGGGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035239 158 - 137757926 gactggactagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAGGTGAGGGAGTAGAGACAGTCAGTGGATTTTC-TTTT-GAAAA----TTTTTCTGGGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406708 158 -   7948249 gactggactagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAGGTGAGGGAGTAGAGACCGTCAGTGGATTTTC-TTTT-GAAAA----TTTTTCTGGGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311372 158 -  10730278 gactggactagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAAAGGTGAGTGAGTAGAGACAGTCAGTGGATTTTC-TTTT-GAAAA----TTTTTCTGGGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802081 158 - 128539186 gactggtctagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAGGTGAGGGAGTAGAGACAGTCAGTGGATTTTC-TTTT-GAAAA----TTTTTCTGGGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198096 159 +    435186 gactggactagatggcatccttgagaatcatctacacc---tgtaagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAAGTGAGTGAGTAGAGACAGTCAGTGGATTTTC-TTTTGGAAAA----TTTTTCTGGGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597796 158 +   9309688 gactggactagatggcatccttgagaaccatctacacc---tataagta---gtagtttaagccacaggcagggattaaattga-c-agagagaatgtaTCAACTAAACTAGAGGTGAGAGAGTAGAGACAGTCAGTGGATTTTC-TCTT-GAAAA----TTTTTCTGGGAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11418911 159 -  29834108 gattggactagatggcatccttgtgaatcatctacacc---tagtagta---gtagtttaagccacaggcagggattaaactga-c-ggggagaatataCCAACTAAACTAGAGGTGAGGAAGTAGAGACAGTCAGTGGATTGTTATTTT-GAAAA----TTTTTCTGGGAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       869858 158 -   1015025 gattggactagatggcatccttaagaatcatctacacc---tagtagta---gtagtttaagccacaggcaaggattaaactga-c-agggagAATATACCAACTAAACTAGAGGTGA-GAAGTAGAGACAGTCAGTGGATTGTTATTTT-GAAAA----ATTTTCTGGGAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889038 162 -   2295209 gattggactagatggcatccttgagaatcatctacacctagtagtagta---gtagtttaagctacaggcagggattaaactga-c-agggagAATATACCAGTTAAACTAGAGGTAAGGAAGTAGAGACAGTCAGTGGATTATTATTTT-GAAAA----TTTTTCTGGGAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024651 161 +  31815103 gattggattaaaaaacagcctttagaatcatctacaca---cgttaata---gtaatttaagccacacacagggtttaagttgacc-aaagagagtgaatcaagtagactaggggtgaagaaatGGAGACAGTCAGTGGATCATTCTTCT-GAAAA---TTTTTTCTGGGAC
i micMur3.chr21             C 0 I 24
s proCoq1.NW_012140524v1      5114368 161 +  13104022 gattagattagagaacagccttgagaagcatctacacc---tgttagta---gtaatttaagccacagacagggtttaagttgacc-aaacagactgaatcaagtaaacgaggggtgaggAAATGGAGACAGTCAGTGGATCATTCTTTT-GAAAA---ATTTTTCTGGGAT
i proCoq1.NW_012140524v1    C 0 I 29
s otoGar3.GL873576            4587846 161 -  12054995 GATTGGATTAGAGAACAGCCTTAAGAATCATCTTGACC---TCATAGTAGGTGTAATTTAACTCACTGACTGGGTTTAAGTTGACC-AAGGAGAGTGAATCAAGTCAACTGTGGGTGAGAAAATGGAGATAGTCAGTGGATCATTCTTCT-GAAAA----CTTTTCTGGG--
i otoGar3.GL873576          I 309 C 0
s canFam3.chr27              19741438 147 +  45876710 gactggattaaagaacaa-cttgtgaatcatctacagc---tactaata---g----tttagccacagacaggagttgac-----t-aaggagaatggatcaggtaaactagaggtg--gaagtggAAACAATTAGTGGGCATTC-TTCC-AAGAA----ATTTTCTGGGGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944186 163 -   1687904 GATGGGATTAGAGGAAAGCCTTGAAAACCATCTACGTC---TATTAATA---GTAGTTTCAGCCATATGCTGGGGTTAAGTTGG-CGAGGGAGGGCACGTCAAGTAAACGTGAGGTGAAGAAGTGGGTACAGTCAGGGGCCCACT-CTTT-CAAGAAATTTTTTTCTGATGT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2426662 3270 - 149736546 I

a score=318063.000000
s hg38.chr12_GL383549v1_alt    100299 33 +    120804 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
s panTro5.chr12              62791822 33 + 137163284 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915623 33 + 135337776 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131061 33 -  32808036 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321016 32 +  34552619 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCT-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633163 33 - 133663169 CAAAAGGAGAGACAT--GGTGGGACAC----------------------------TATGTCTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035397 33 - 137757926 CAAAAGGAGAGACAT--GGTGGGACAC----------------------------TATGTCTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406866 33 -   7948249 CAAAAGGAGAGACAT--GGTGGGACAC----------------------------TATGTCTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311530 33 -  10730278 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802239 33 - 128539186 CAAAAGGAGAGACAT--GGTGGAACAC----------------------------TATGTCTC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198255 33 +    435186 CAAAAGGAGAGACAT--GGTGGGACAC----------------------------TATGTCTC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597954 33 +   9309688 CAAAAGGAGAGACAT--AGTGGGACAC----------------------------TATGTCTC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419070 33 -  29834108 CAAAAGGAGAGACAT--AGTGAGACAC----------------------------TATGTCTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870016 33 -   1015025 CAAAAGGAGAGACAT--AGTGAGACAC----------------------------TATGTCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889200 33 -   2295209 CAAAAGGAGAGACAT--AGTGAGACAC----------------------------TATGTCTC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4588007 26 -  12054995 ---------GCACATTAGATAGAAGAC----------------------------AATTTTAT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19741585 55 +  45876710 CAAACAATGAGACAT--TGTGAGACACAGT------GAGACATTCTAAGACACAGTAGGTCTA
i canFam3.chr27             C 0 I 22
s dasNov3.JH562883             944349 57 -   1687904 CAAAAGGAAAGACTC--AGTGGGACACATTAGATTGAGGACAACTTTATTT----TTTGCCTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2426662 3270 - 149736546 I
e micMur3.chr21               3024812 24 +  31815103 I
e proCoq1.NW_012140524v1      5114529 29 +  13104022 I

a score=-78143.000000
s hg38.chr12_GL383549v1_alt    100332 35 +    120804 AGGCCAGACTT-------GAAGTAA------GAT-------------------------------------------------TCTGCACTTATTCA
s panTro5.chr12              62791855 35 + 137163284 AGGCCAGACTT-------GAAGTAA------GAT-------------------------------------------------TCTGCACTTATTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915656 35 + 135337776 AGGCCAGACTT-------GAAGTAA------GAT-------------------------------------------------TCTGCACTTATTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131094 35 -  32808036 AGGCCAGACTT-------GAAGTAA------GAT-------------------------------------------------TCTGCACTTATTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s rheMac8.chr11             104633196  9 - 133663169 ACGCCAGAC----------------------------------------------------------------------------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035430  9 - 137757926 ACGCCAGAC----------------------------------------------------------------------------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406899  9 -   7948249 ACGCCAGAC----------------------------------------------------------------------------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311563  9 -  10730278 ACGCCAGAC----------------------------------------------------------------------------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802272  9 - 128539186 ACGCCAGAC----------------------------------------------------------------------------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198288  9 +    435186 ACACCAGAC----------------------------------------------------------------------------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597987  9 +   9309688 ATGCCAGAC----------------------------------------------------------------------------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419103 35 -  29834108 ATGCCAGACTT-------GAAGTCA------GAG-------------------------------------------------TCCGCACTTATTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870049 84 -   1015025 ATGCCAGACTT-------GAAGTCA------GAGTCTGCGCTTATTCACATTTTCTTGTCTCATGCCAGACTTAAAGTAAGATTCTGCGCTTATTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889233 35 -   2295209 ATGCCAGACTT-------GAAGTCA------GAG-------------------------------------------------TCTGCACTTATTCA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4588033  1 -  12054995 A------------------------------------------------------------------------------------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2429932 25 - 149736546 AGGACAGACGT-------GGGGTAGCTTTGTG-----------------------------------------------------------------
i mm10.chr6                 I 3270 C 0
s canFam3.chr27              19741662 39 +  45876710 ATGTCAGACttttttttcaaggttt----------------------------------------------------------tatttatttattca
i canFam3.chr27             I 22 I 150
s dasNov3.JH562883             944406 35 -   1687904 ATGTCACACTT-------GAAGTAA------AAT-------------------------------------------------TCTACACTTTTTCA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3024812 24 +  31815103 I
e proCoq1.NW_012140524v1      5114529 29 +  13104022 I
e nomLeu3.chr23               7321048  0 +  34552619 C

a score=2800.000000
s hg38.chr12_GL383549v1_alt    100367 1 +    120804 C
s panTro5.chr12              62791890 1 + 137163284 C
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915691 1 + 135337776 C
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131129 1 -  32808036 C
i gorGor5.CYUI01000003v1    C 0 C 0
s saiBol1.JH378123           11419138 1 -  29834108 C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870133 1 -   1015025 C
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889268 1 -   2295209 C
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             944441 1 -   1687904 C
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4588034 0 -  12054995 C
e mm10.chr6                   2429957 0 - 149736546 C
e micMur3.chr21               3024812 24 +  31815103 I
e canFam3.chr27              19741701 150 +  45876710 I
e proCoq1.NW_012140524v1      5114529 29 +  13104022 I
e nomLeu3.chr23               7321048 0 +  34552619 C
e colAng1.NW_012114364v1      3597996 0 +   9309688 C
e manLeu1.NW_012101287v1       198297 0 +    435186 C
e chlSab2.chr11             100802281 0 - 128539186 C
e cerAty1.NW_011999477v1      8311572 0 -  10730278 C
e macNem1.NW_012011422v1      1406908 0 -   7948249 C
e macFas5.chr11             109035439 0 - 137757926 C
e rheMac8.chr11             104633205 0 - 133663169 C

a score=-18117.000000
s hg38.chr12_GL383549v1_alt    100368   8 +    120804 ATTTTCTT--------------------------------------------------------------------------------------------
s panTro5.chr12              62791891   8 + 137163284 ATTTTCTT--------------------------------------------------------------------------------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915692   8 + 135337776 ATTTTCTT--------------------------------------------------------------------------------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131130   8 -  32808036 ATTTTCTT--------------------------------------------------------------------------------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s saiBol1.JH378123           11419139   8 -  29834108 ATGTTCTT--------------------------------------------------------------------------------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870134   8 -   1015025 ATTTTCTT--------------------------------------------------------------------------------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889269   8 -   2295209 ATTTTCTT--------------------------------------------------------------------------------------------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024836   5 +  31815103 ATTTT-----------------------------------------------------------------------------------------------
i micMur3.chr21             I 24 C 0
s otoGar3.GL873576            4588034   4 -  12054995 -TGTT-----------------------------------------------------------------------------------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2429957   4 - 149736546 -TTTT-----------------------------------------------------------------------------------------------
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             944442 100 -   1687904 ATTCTCCCTCCAAGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGACTCCAGTGGGACCCATTAGATAGAGGACAACTT
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19741701 150 +  45876710 I
e proCoq1.NW_012140524v1      5114529  29 +  13104022 I
e nomLeu3.chr23               7321048   0 +  34552619 C
e colAng1.NW_012114364v1      3597996   0 +   9309688 C
e manLeu1.NW_012101287v1       198297   0 +    435186 C
e chlSab2.chr11             100802281   0 - 128539186 C
e cerAty1.NW_011999477v1      8311572   0 -  10730278 C
e macNem1.NW_012011422v1      1406908   0 -   7948249 C
e macFas5.chr11             109035439   0 - 137757926 C
e rheMac8.chr11             104633205   0 - 133663169 C

a score=13057.000000
s hg38.chr12_GL383549v1_alt    100376 3 +    120804 GTC
s panTro5.chr12              62791899 3 + 137163284 GTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915700 3 + 135337776 GTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131138 3 -  32808036 GTC
i gorGor5.CYUI01000003v1    C 0 C 0
s saiBol1.JH378123           11419147 3 -  29834108 GTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870142 3 -   1015025 GTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889277 3 -   2295209 GTC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024841 3 +  31815103 GTC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5114558 3 +  13104022 GCC
i proCoq1.NW_012140524v1    I 29 C 0
s otoGar3.GL873576            4588038 3 -  12054995 GCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2429961 3 - 149736546 GCC
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             944542 3 -   1687904 ATT
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19741701 150 +  45876710 I
e nomLeu3.chr23               7321048 0 +  34552619 C
e colAng1.NW_012114364v1      3597996 0 +   9309688 C
e manLeu1.NW_012101287v1       198297 0 +    435186 C
e chlSab2.chr11             100802281 0 - 128539186 C
e cerAty1.NW_011999477v1      8311572 0 -  10730278 C
e macNem1.NW_012011422v1      1406908 0 -   7948249 C
e macFas5.chr11             109035439 0 - 137757926 C
e rheMac8.chr11             104633205 0 - 133663169 C

a score=2677428.000000
s hg38.chr12_GL383549v1_alt    100379 190 +    120804 --------TCATGCCAGACTTGAAGTAAGATTCTGCACTTATTCACATATTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAActtg----agaagactgagcacggat-gttacatcactcagtacacagcatttctttccaaagatcctcattaGAAAAGTCTTCCCAA
s panTro5.chr12              62791902 190 + 137163284 --------TCATGCCAGACTTGAAGTAAGATTCTGCACTTATTCACATATTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAActtg----agaagactgagcacggat-gttacatcactcagtacacagcatttctttccaaagatcctcattaGAAAAGTCTTCCCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915703 190 + 135337776 --------TCATGCCAGACTTGAAGTAAGATTCTGCACTTATTCACATATTCTTCTCTCCCAAAGAAAA-----ACAA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAActtg----agaagactgagcacggat-gttacatcactcagtacacagcatttctttccaaagatcctcattaGAAAAGTCTTCCCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131141 190 -  32808036 --------TCATGCCAGACTTGAAGTAAGATTCTGCACTTATTCACATATTCTTCTCTCCCAAAGAAAA-----ACTG-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAActtg----agaagactgagcacggat-gttacatcactcagtacacagcatttctttccaaagatcctcattaGAAAAGTCTTCCCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321048 189 +  34552619 ---------CATGCCAGACTTGAAGTAAGATTCTGCACTTATTCACATATTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAACTTG----AGAAGACTGAACACGGAT-ATTACATCACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGAAAAGTCTTTCCAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633205 179 - 133663169 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTAAGCATGGAT-GTTACATCACTCAGTACACAGCATTTCTTTCCAAGGATTCTCATTAGATAAGTCTTCCCAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035439 179 - 137757926 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTAAGCATGGAT-GTTACATCACTCAGTACACAGCATTTCTTTCCAAGGATTCTCATTAGATAAGTCTTCCCAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1406908 179 -   7948249 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTAAGCATGGAT-GTTACATCACTCAGTACACAGCATTTCTTTCCAAGGATTCTCATTAGATAAGTCTTCCCAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311572 179 -  10730278 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTGAGCACAGAT-GTTACATGACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGATACGTCTTTCCAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802281 179 - 128539186 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTGAGCACGGAT-GTTACATCACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGATTAGTCTTTCCAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198297 179 +    435186 -------------------TTGAAGCAAGATTCTGCACTTATTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTGAGCACGGAT-GTTACATGACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGATAAGTCTTTCCAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3597996 179 +   9309688 -------------------TTGAAGCAAGATTCTGCACTTACTCACATTTTCTTCTCTCCCAAAGAAAA-----ACTA-CTACACAGAGCATCAACTAAACAAATAAAATGTGCTTAAGAATTTG----AGAGGACTGAGCACCGAT-GTTACATCACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGATAAGTCTTTCCAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419150 190 -  29834108 --------TCATGCCAGACTTAAAGTAAGATTCTGCGCTTATTCACATTTTCTTTTCTCCCAAAGAAAA-----ACTA-CGACACAAAACATCAGCTAAACAAATAAAATGTGCTTAAGAATTTG----AGAAGACTGAGCATGGAT-GTTACATCACTCAGTACACAGCATTTCCTTCCAAAGATCCTCATTAGATAAGTCTTTCCAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870145 190 -   1015025 --------TCATGCCAGACTTAAAGTAAGATTCTGCGCTTATTCACATTTTCTTTTCTCCCAGAGAAAA-----ACTA-CTACACAAAGCATCAGCTACACAAATAAAATGTGCTTAAGAATttg----agaagactgagcatggat-gttacatcactcagtacacagcatttctttccaaagatcctcattagataagtctttcCAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889280 190 -   2295209 --------TCATGCCAGACTTAAAGTAAGATTCTGCGCTTATTCACATTTTCTTTTCTCCCAAAGAAAA-----ACTA-CTACACAAAGCATCAGCTAAACAAATAAAATGTGCTTAAGAATttg----agaagactgagcatggat-gttacatcactcagtacacagcatttctttccaaagatcctcattagataagtctttcCAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3024844 190 +  31815103 --------TCATGTCAGACGTGAGGTAAGATTCTGCACTTAGTCACATTCTCCCCTCCCCCAAGGAAAA-----ACTA-CTACCTACAGCATCAGCTAAACAAATACAATTTACTTAAGAATTTG----AGAAGACTGAGCATGGGG-ATTACATCACTTAGTACATAGCCTTTCCTTCCAAAGATCCTCATTAGATAAGTATTTCCAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5114561 190 +  13104022 --------TCATGCCAGACGTGAGGTAAGATTCTGCACTTACTCACATTCTTCCCTCCCCCAAGGAAAA-----ACTA-CTACCTAGAGCATCAGCTAAACAAATACAACTTGCTTAAGAATTTG----AGAAGACTGAGCATGGGC-ATTACATCAGTCAGTACACAGCCTTTCCTTCCAAAGATCCTCATTAGATTAGTCTTTCCAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4588041 193 -  12054995 --------CCATGCCAGACGTGAGGTAAGATTTTGAACTTATTCACATTCTCCCCTCCCCCAAGGAAAA-----ACTA-CTAGACAGGGCATCAGCTAAACAAATAAAATTTGCTAAAGAATTTG-AGAAGAAGACTGAGTGTGGGC-ATGACATCACTCAGTACACAGCATTTCTTTCCAAAGATCCTCATTAGATAAGTCTTTCCAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2429964 178 - 149736546 --------CTGTGCCAC--CTAAAGGAAGATTCTA--------CACATACGTTCTTTCTCCAAAGAAAA-----GTTA-GCACACAGAGCACCGGCTAAGCATGTAAAACTTTCCTGGGAATTTG----AACAGA-TGAGCTTAGGA-GCC-CTTCTCTCAGCATTCAGCAGTTCTTTCCAAAGATCCTCATTAGCTGCATCTTCCCAA
i mm10.chr6                 C 0 I 2984
s canFam3.chr27              19741851 189 +  45876710 --------TAATGTCAGACTTTAACTAAGATTCTATACTTCTTCACCTTCTC----CCCACAAAGAAAAACAAGACTA-CTACATAGAACATCAGCTAAACATATAAAATTTTCTTAAGAATTTG-------AGATTGACCATGGGTAGTGACATCACCCAGGACATAGCATTTCTTTGCAAAGATCCTCATTAGATAAGTCTTCCCAA
i canFam3.chr27             I 150 C 0
s dasNov3.JH562883             944545 195 -   1687904 TTCTGCCTCCATTCCCCCTGCAGAGTAAAGTCTACCACTTTTTCGCAGTCTCC---CTCCCAAGGAAAA-----ACTATTTACACAGAGCGTCAGCTAAATAT------TTCCCTTAAGAATTTGAAAAAAAAGATTGGTCTTGGTTAATTACATCACTCAGCAAAGAGCATTTCTTTCCAAAGATCTTCATAAGACAACTCTTTCCAA
i dasNov3.JH562883          C 0 C 0

a score=164165.000000
s hg38.chr12_GL383549v1_alt    100569 12 +    120804 GTCTCTCATTGG
s panTro5.chr12              62792092 12 + 137163284 GTCTCTCAGTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915893 12 + 135337776 GTCTCTCATTGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131331 12 -  32808036 GTCTCTCATTGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321237 12 +  34552619 GTCACTCATTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633384 12 - 133663169 ATCACTCACTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035618 12 - 137757926 ATCACTCACTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407087 12 -   7948249 ATCACTCACTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311751 12 -  10730278 GTCACTCACTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802460 12 - 128539186 GTCACTCACTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198476 12 +    435186 GTCACTCACTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598175 12 +   9309688 GTCACTCACTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419340 12 -  29834108 GTCACTCATTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870335 12 -   1015025 GTCACTCATTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889470 12 -   2295209 GTCACTCATTGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3025034 12 +  31815103 GTCATTCACTGG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5114751 12 +  13104022 GTCACTCATTGG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4588234 12 -  12054995 GTCACTCATTGG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19742040 12 +  45876710 GTCACTCAACAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944740 12 -   1687904 GTCACTCATCCG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2430142 2984 - 149736546 I

a score=719069.000000
s hg38.chr12_GL383549v1_alt    100581 47 +    120804 GTCACTAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
s panTro5.chr12              62792104 47 + 137163284 GTCACTAGCTTTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915905 47 + 135337776 GTCACTAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131343 47 -  32808036 GTCACTAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321249 47 +  34552619 GTCACCAGTTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633396 47 - 133663169 GTCACCAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035630 47 - 137757926 GTCACCAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407099 47 -   7948249 GTCACCAGCTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311763 47 -  10730278 GTCACCAGTTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802472 47 - 128539186 GTCACCAGTTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198488 47 +    435186 GTCACCAGTTGTTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598187 47 +   9309688 GTCACCAGCTGTTGAGTCTCCTTCTCTCTTTTGAGACACTTCCCTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419352 47 -  29834108 GTCGCCAGCTATTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870347 47 -   1015025 GTCGCCAGCTATTGAGTCTCATTCTCTCTTTTGAGACACTTCCCTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889482 47 -   2295209 GTCGCCAGCTATTGAGTCTCATTCTCTCTTTTGAGACACTTTCCTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3025046 47 +  31815103 GCCACTAGCTGTTGAGTCTCATTCTCTCTTTCCAGACATTTCCCTTG
i micMur3.chr21             C 0 I 411
s proCoq1.NW_012140524v1      5114763 47 +  13104022 GCCACTAGCTGTTGAGTCTCATTGTGTCTTTCCAGACACTTCCCTTG
i proCoq1.NW_012140524v1    C 0 I 61
s otoGar3.GL873576            4588246 47 -  12054995 ACCACCAGCTGCTGAGTCTCATTCTCTCTTTCCAGACACTTCCCTTG
i otoGar3.GL873576          C 0 I 9
s mm10.chr6                   2433126 42 - 149736546 GTCAACCACTGCCAACTCTCTCTCTTTCCATTG-----TTGTCCATG
i mm10.chr6                 I 2984 I 1
s canFam3.chr27              19742052 47 +  45876710 ATCACCAGCTGTTGAGTCTCATTCTCTCTTCCTAGACACTTCGCTTA
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             944752 45 -   1687904 TTCTCCAACTGCTGAGTCTCCTTCTGTCCCC--AGACACTTCCCTCC
i dasNov3.JH562883          C 0 C 0

a score=417497.000000
s hg38.chr12_GL383549v1_alt    100628 39 +    120804 CAGGCCCTCACACACAT---TCTGCCTTTTTCCTTGTCCAGA
s panTro5.chr12              62792151 39 + 137163284 CAGGCCCTCACACACAT---TCTGCCTTTTTCCTTGTCCAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915952 39 + 135337776 CAGGCCCTCACACACAT---TCTGCCCTTTTCCTTGTCCAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131390 39 -  32808036 CAGGCCCTCACACACAT---TCTGCCTTTTTCCTTGTCCAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321296 39 +  34552619 CAGGCCTTCACATACAT---TCTGCCTTTTTCCTTGTCCAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633443 39 - 133663169 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i rheMac8.chr11             C 0 I 16
s macFas5.chr11             109035677 39 - 137757926 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i macFas5.chr11             C 0 I 6
s macNem1.NW_012011422v1      1407146 39 -   7948249 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i macNem1.NW_012011422v1    C 0 I 16
s cerAty1.NW_011999477v1      8311810 39 -  10730278 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i cerAty1.NW_011999477v1    C 0 I 16
s chlSab2.chr11             100802519 39 - 128539186 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i chlSab2.chr11             C 0 I 16
s manLeu1.NW_012101287v1       198535 39 +    435186 CAGGCCCTCACACACAT---TCTGTCTTTTTCCTTGTTCAGA
i manLeu1.NW_012101287v1    C 0 I 16
s colAng1.NW_012114364v1      3598234 39 +   9309688 CAGGCCCTCATACACAT---TCTGTCTTTTTCCTTGTTCAGA
i colAng1.NW_012114364v1    C 0 I 16
s saiBol1.JH378123           11419399 39 -  29834108 CAGGCCCTTACACACAT---TCTGCCTTTTTTCTTGTCCAGA
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       870394 39 -   1015025 CAGGCCCTTAAACACAT---TCTGCCTTTTTTCTTGTCCAGA
i cebCap1.NW_016107911v1    C 0 I 16
s aotNan1.NW_018488218v1      1889529 39 -   2295209 CAGGCCCTTACATACAT---TCTGCCTTTTTTCTTGTCCAGA
i aotNan1.NW_018488218v1    C 0 I 17
s otoGar3.GL873576            4588302 39 -  12054995 CTGGCTCTTAGATCCAT---CCCAGCTTTTTTCTTATCCAGA
i otoGar3.GL873576          I 9 I 1
s mm10.chr6                   2433169 37 - 149736546 GTGGCCCTGACAGTGTC---TCTGCCCTTTCTCC--TTCAAA
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19742100 42 +  45876710 ATGGTGCTCGCTTACATCTATCCCTCTTCCTTCTTATCCAGG
i canFam3.chr27             I 1 I 1
s dasNov3.JH562883             944797 38 -   1687904 CCGGCCTGC-CATCCAG---CCCATCCTCTTGCTTAACCAGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025093 411 +  31815103 I
e proCoq1.NW_012140524v1      5114810 61 +  13104022 I

a score=10948.000000
s hg38.chr12_GL383549v1_alt    100667 8 +    120804 -GAACTGAA
s panTro5.chr12              62792190 8 + 137163284 -GAACTGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915991 8 + 135337776 -GAACTGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131429 8 -  32808036 -GAACTGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321335 8 +  34552619 -GAACTGGA
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109035722 8 - 137757926 -TAGCTCTG
i macFas5.chr11             I 6 C 0
s saiBol1.JH378123           11419439 8 -  29834108 -CAATTTAG
i saiBol1.JH378123          I 1 C 0
s otoGar3.GL873576            4588342 8 -  12054995 -CAATTTAG
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2433206 8 - 149736546 -GCAATGAA
i mm10.chr6                 C 0 I 3
s canFam3.chr27              19742143 8 +  45876710 -AAATTTAG
i canFam3.chr27             I 1 I 6
s dasNov3.JH562883             944835 9 -   1687904 GCAGTTGAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025093 411 +  31815103 I
e proCoq1.NW_012140524v1      5114810 61 +  13104022 I
e aotNan1.NW_018488218v1      1889568 17 -   2295209 I
e cebCap1.NW_016107911v1       870433 16 -   1015025 I
e colAng1.NW_012114364v1      3598273 16 +   9309688 I
e manLeu1.NW_012101287v1       198574 16 +    435186 I
e chlSab2.chr11             100802558 16 - 128539186 I
e cerAty1.NW_011999477v1      8311849 16 -  10730278 I
e macNem1.NW_012011422v1      1407185 16 -   7948249 I
e rheMac8.chr11             104633482 16 - 133663169 I

a score=6480.000000
s hg38.chr12_GL383549v1_alt    100675 3 +    120804 TGC
s panTro5.chr12              62792198 3 + 137163284 TGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60915999 3 + 135337776 TGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131437 3 -  32808036 TGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321343 3 +  34552619 TGC
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109035730 3 - 137757926 TGC
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11419447 3 -  29834108 CTC
i saiBol1.JH378123          C 0 I 4
s proCoq1.NW_012140524v1      5114871 3 +  13104022 TTC
i proCoq1.NW_012140524v1    I 61 C 0
s otoGar3.GL873576            4588350 3 -  12054995 CTC
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2433217 3 - 149736546 TCC
i mm10.chr6                 I 3 C 0
s canFam3.chr27              19742157 1 +  45876710 --C
i canFam3.chr27             I 6 C 0
s dasNov3.JH562883             944844 3 -   1687904 CTC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025093 411 +  31815103 I
e aotNan1.NW_018488218v1      1889568 17 -   2295209 I
e cebCap1.NW_016107911v1       870433 16 -   1015025 I
e colAng1.NW_012114364v1      3598273 16 +   9309688 I
e manLeu1.NW_012101287v1       198574 16 +    435186 I
e chlSab2.chr11             100802558 16 - 128539186 I
e cerAty1.NW_011999477v1      8311849 16 -  10730278 I
e macNem1.NW_012011422v1      1407185 16 -   7948249 I
e rheMac8.chr11             104633482 16 - 133663169 I

a score=12637.000000
s hg38.chr12_GL383549v1_alt    100678 1 +    120804 C
s panTro5.chr12              62792201 1 + 137163284 C
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916002 1 + 135337776 C
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131440 1 -  32808036 C
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321346 1 +  34552619 C
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633498 1 - 133663169 C
i rheMac8.chr11             I 16 C 0
s macNem1.NW_012011422v1      1407201 1 -   7948249 C
i macNem1.NW_012011422v1    I 16 C 0
s cerAty1.NW_011999477v1      8311865 1 -  10730278 C
i cerAty1.NW_011999477v1    I 16 C 0
s chlSab2.chr11             100802574 1 - 128539186 C
i chlSab2.chr11             I 16 C 0
s manLeu1.NW_012101287v1       198590 1 +    435186 C
i manLeu1.NW_012101287v1    I 16 C 0
s colAng1.NW_012114364v1      3598289 1 +   9309688 C
i colAng1.NW_012114364v1    I 16 C 0
s saiBol1.JH378123           11419454 1 -  29834108 T
i saiBol1.JH378123          I 4 C 0
s cebCap1.NW_016107911v1       870449 1 -   1015025 T
i cebCap1.NW_016107911v1    I 16 C 0
s micMur3.chr21               3025504 1 +  31815103 C
i micMur3.chr21             I 411 C 0
s proCoq1.NW_012140524v1      5114874 1 +  13104022 C
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4588357 1 -  12054995 C
i otoGar3.GL873576          I 4 C 0
s mm10.chr6                   2433220 1 - 149736546 C
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742158 1 +  45876710 C
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944847 1 -   1687904 C
i dasNov3.JH562883          C 0 I 3
e aotNan1.NW_018488218v1      1889568 17 -   2295209 I
e macFas5.chr11             109035733 0 - 137757926 C

a score=1121933.000000
s hg38.chr12_GL383549v1_alt    100679  83 +    120804 CAGTTTTC--TCTG--GGCATCCGTG----------------TAGCCATAGGCCCTGGAAGCATAGCCTCTAAGTGGGATCACCAAGGCATTCACAAAACAAA
s panTro5.chr12              62792202  83 + 137163284 CAGTTTTC--TCTG--GGCATCCGTG----------------TAGCCATAGGCCCTGGAAGCACAGCCTCTAAGTGGGATCACCAAGGCATTCACAAAACAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916003  83 + 135337776 CAGTTTTC--TCTG--GGCATCCGTG----------------TAGCCATAGGCCCTGGAAGCACAGCCTCTAAGTGGGATCACCAAGGCATTCACAAAACAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131441  83 -  32808036 CAGTTTCC--TCTG--GGCATCCGTG----------------TAGCCATAGGCCCTGGAAGCACAGCCTCTAAGTGGGATCACCAAGGCATTCACAAAACAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321347  83 +  34552619 CAGTTTTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCTGGAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATTCACAAAACAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633499  83 - 133663169 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035733  83 - 137757926 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407202  83 -   7948249 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311866  83 -  10730278 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802575  83 - 128539186 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198591  83 +    435186 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAGGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598290  83 +   9309688 CAGTTCTC--TCTG--GGCATCCATG----------------TAGCCATAAGCCCAGAAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATCCACAAAACAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419455  83 -  29834108 CAGTTCTC--TCTG--GGCATCCATA----------------TACCCATAGGCCCTGGAAGCCCAGCCTCTAAGTGGGATCACCAAGGCATTCACACAACAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870450  83 -   1015025 CGGTTCTC--TCTG--GGCATCCATG----------------TACCCATAGGCCCTGGAAGCACAGTCTCTAAGTGGAATCACCAAGGCATTCACACAACAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889585  83 -   2295209 CAGTTCTC--TCTG--GACATCCATG----------------TACCCATAGGCCCTGGAAGCCCAGTCTCTAAGTGGGATCACCAAGGCATTCACACAACAAA
i aotNan1.NW_018488218v1    I 17 C 0
s micMur3.chr21               3025505  83 +  31815103 CAGTTCTC--TCTG--GGCATCAGTC----------------TACCCCTAGGCCCAGGAGGCCCAGCCTCTAAGTGGGGCCATCAAGGCATCCACACAACAAA
i micMur3.chr21             C 0 I 154
s proCoq1.NW_012140524v1      5114875  82 +  13104022 CAGTTCTC--TCTG--GGCATCAGTC----------------TACCCATAGGCCCGGGAGGCCCAGCCTCTAAGTGGGGCCATCAAGGCAT-CACACAACAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4588358  82 -  12054995 TAGTTCTC--TCCA--AGCATCAGCC----------------TACCCAC-TGCCCAGGAGGCCCAGCCTGTAAGTGGGGCCATCAAGGCGTGCACACCACAAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433221  74 - 149736546 TGGTCTTC--CCCA--GGCACCAGTG----------------TAGCCA--GGACCCAGAGGCTCAGCCTT-------GGTCTTCCATGTCCTCACAAGACAGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742159  83 +  45876710 CTATTCTT--TTAG--GGCACTAGTC----------------TGCCAACAGGCCCAGGAGGCCCAGCCTCTGAGTGGGCCCACCAAGGCATTTACCACAAAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944851 102 -   1687904 CAGCTCTCAGCCTGGTGGTGTCAGTCAACGATCAGGCCTGCTGACCGATCAGGCCTGCCGGCCCAGCCTCCAAG-GACTTCGTCAAGGCTTTCGCCTAAGAAA
i dasNov3.JH562883          I 3 C 0

a score=329503.000000
s hg38.chr12_GL383549v1_alt    100762 30 +    120804 --GCAAGCACCTCACAGGA-CATTGCTAAGAAG
s panTro5.chr12              62792285 30 + 137163284 --GCAAGCACCTCACAGGA-TATTGCTAAGAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916086 30 + 135337776 --GCAAGCACCTCACAGGA-TATTGCTAAGAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131524 30 -  32808036 --GCAAGCACCTTACAGGA-TATTGCTAAGAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321430 30 +  34552619 --GCAAGCACCTCACAGGA-TATCGCTAAGAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633582 30 - 133663169 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035816 30 - 137757926 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407285 30 -   7948249 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311949 30 -  10730278 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802658 30 - 128539186 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198674 30 +    435186 --GTAAGCACCTCACAGGA-TATTGCTAAGAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598373 30 +   9309688 --GTAAGCACCTCACAGCA-TATTGCTAAGAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419538 30 -  29834108 --GCAGGTACCTCATGGGA-TATTGCTAAGAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870533 30 -   1015025 --GCAAGCACCTCATGGGA-TATTGGTAAGAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889668 30 -   2295209 --GCAAGCACCTCATGGGA-TATTGCTAAGAGG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5114957 26 +  13104022 ------ACACCTCACAGGT-TGTTGCTAAGAGG
i proCoq1.NW_012140524v1    C 0 I 15
s otoGar3.GL873576            4588440 26 -  12054995 ------ACACCTCACAGGA-CGTTACTAAGAGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433295 25 - 149736546 ------ACTCCACATAGGA-TGCTGTTAAGGG-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742242 28 +  45876710 -----AACACTTCATGGGCTTACCGCTGAGAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944953 32 -   1687904 TGAAAGCCCCCTTGTCGGG-TATGGGTAAGAGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025588 154 +  31815103 I

a score=178103.000000
s hg38.chr12_GL383549v1_alt    100792 19 +    120804 CAAAAACAAAGATCTCTAT
s panTro5.chr12              62792315 19 + 137163284 CAAAAACAAAGATCTCTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916116 19 + 135337776 CAAAAACAAAGATCTCTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131554 19 -  32808036 CAAAAACAAAGATCTCTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321460 19 +  34552619 CAAAAACAAAGATCTCTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633612 19 - 133663169 CAAAAACAAAGATCTCTAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035846 19 - 137757926 CAAAAACAAAGATCTCTAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407315 19 -   7948249 CAAAAACAAAGATCTCTAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311979 19 -  10730278 CAAAAACAAAGATCTCTAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802688 19 - 128539186 CAAAAACAAAGATCTCTAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198704 19 +    435186 CAAAAACAAAGATCTCTAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598403 19 +   9309688 CAAAAACAAAGATCTCTAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419568 19 -  29834108 GAGAAACAAAGATTTCTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870563 19 -   1015025 AAGAAACAAAGATTTCTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889698 19 -   2295209 AAGAAACAAAGATTTCTAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4588466 15 -  12054995 TAAAAACAGCACTTC----
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433320 19 - 149736546 AATATAGAAAGTTTTCCTC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742270 19 +  45876710 AAACAATTAAGATTCCTTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             944985 19 -   1687904 AAAGAGGTAAGATTTCTTC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025588 154 +  31815103 I
e proCoq1.NW_012140524v1      5114983 15 +  13104022 I

a score=1430467.000000
s hg38.chr12_GL383549v1_alt    100811 117 +    120804 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGGAAGTGCAATGCAATAT----CAGGCTGGGCACCAAAGAAATAGATAATCCAAAGTA
s panTro5.chr12              62792334 117 + 137163284 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGGCTAGAGCAGGGGGAGGAAGTGCAATGCAATAT----CAGGCTGGGCATCAAAGAAATAGATAATCCAAAGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916135 117 + 135337776 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGGAAGTGCAATGCAATAT----CAGGCTGGGCATCAAAGAAATAGATAATCCAAAGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131573 117 -  32808036 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGGAAGTGCAATGCAATAT----CAGGCTAGGCATCAAAGAAATAGATAATCCAAAGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321479 114 +  34552619 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGGAAGTGCAATGCAATAT----CAGGCTGGGCATCAAAGAAATAGATAATCCAAA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633631 117 - 133663169 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAATAT----CATGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035865 117 - 137757926 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAATAT----CATGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407334 117 -   7948249 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAATAT----CATGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8311998 117 -  10730278 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAGTAT----CAGGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802707 117 - 128539186 ATCTTGGTACATATTGAAATAGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAATAT----CAGGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198723 117 +    435186 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTGGAAAGAGACTAGAGCAGGGGGAGTAAGTGCAATGCAGTAT----CAGGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598422 117 +   9309688 ATCTTGGTACATATTGAAATGGGTTTCAGGAAAACACAGTAGAAAGAGACTAGAGCAGGGGGAGTAAGTACAACGCAATAT----CAGGCTGGGCATCAAAGAAATAGATAATCAAAAGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419587 117 -  29834108 ATCTTGGTACACATTGTAATGGGTTTCAGGAAAATACCGTGGAAAGAAACTAGAGCAGGGGGAGGAAGTGTAGTGCAATAT----CAGGATGGGTATCAAAGAGATGGATAATCAAAAGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870582 117 -   1015025 ATCTTGGTACACATTGAAATGGGTTTCAGGAAAATACCGTGGAAAGAAACTAGAGCAGGGGGAGGAAGTGTACTGCAATAT----CAGGATGGGCATCAAAGAGATGGATAATCAAAAGCG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889717 117 -   2295209 ATCTTGGTACACATTGAAATGGGTTTCAGGAAAATACCATGGAAAGAAACTAGAGCAAGGGGAGGAAGTGTAGTGCAATAT----CAGGATGGGCATCAAAGAGATGGATAATCAAAAGTG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5114998 115 +  13104022 ATCTTGGTACATACTGAAACGGGTTTTCAGAAGGTGCAGTGGAAAGAGAATAGGTTGGG-GGAAGAAGTGCAGTGCCAT-C----TAGGCTGGGCATTAAGGAAATAGATGATCAAAAGGT
i proCoq1.NW_012140524v1    I 15 C 0
s otoGar3.GL873576            4588481 112 -  12054995 ATCTTGGTACTTACTAAAATGGGTTTTCTGAAGTAGCTGAGGAAAAAGAATAGCTCGGG-----GAAGTACAGTACCCTGC----CAGGCTGGGCATTAAGGAAATAGATGATCAAAAGTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433339 108 - 149736546 ATCATGGTATGTTCTGAAATGGGTTTTGGGGAA--------GAGAAGAGCTAG-----GGGGAGGCAATGCAGGGCGCTGTCTGCCAGGCTGGCCATCAAGGAAGCAGATGATTGGAAGGC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742289 117 +  45876710 ATCTTGGTACCTATTGAAATGGGTTTCCAAAAGGCATAGTGGAAACAGAATAGATCAAGAAGAGGAAGCACAGCGCAGTAT----CAATCTGTGCATCTAGGAGATAGATCATCAAAAGTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945004 112 -   1687904 ATGGTGGCACATGTTCAAAGGGGTTTCTAGAAGACACCGTGGGGGAGAAAT----CTCCAGGAGGAAGCACAGGGCAGGAT----GAGGCGAGGTATTGAGGAGAGAGACAATCAAAGTT-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3025588 154 +  31815103 I

a score=7802117.000000
s hg38.chr12_GL383549v1_alt    100928 587 +    120804  
s panTro5.chr12              62792451 585 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916252 587 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3131690 587 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7321593 583 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104633748 582 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109035982 582 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1407451 582 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312115 583 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100802824 582 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       198840 583 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3598539 576 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11419704 581 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       870699 581 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1889834 581 -   2295209  
i aotNan1.NW_018488218v1    C 0 I 634
s micMur3.chr21               3025742 581 +  31815103  
i micMur3.chr21             I 154 C 0
s proCoq1.NW_012140524v1      5115113 580 +  13104022  
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4588593 578 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433447 459 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742406 586 +  45876710  
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945116 574 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=183922.000000
s hg38.chr12_GL383549v1_alt    101515 15 +    120804 TACTCAGAGGAATAG
s panTro5.chr12              62793036 15 + 137163284 TACTCAGAGGAATAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916839 15 + 135337776 TACTCAGAGGAATAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132277 15 -  32808036 TACTCAGAGGAATAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322176 15 +  34552619 TACTCAGAGGAATAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634330 15 - 133663169 TACTCAGAGGAATAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036564 15 - 137757926 TACTCAGAGGAATAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408033 15 -   7948249 TACTCAGAGGAATAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312698 15 -  10730278 TACTCAGAGGAATAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803406 15 - 128539186 TACTCAGAGGAATAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199423 15 +    435186 TACTCAGAGGAATAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599115 15 +   9309688 TACTCAGTGGAATAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420285  3 -  29834108 ------------TAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871280  3 -   1015025 ------------TAA
i cebCap1.NW_016107911v1    C 0 C 0
s micMur3.chr21               3026323 15 +  31815103 TACTCAGAGGAATAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5115693 15 +  13104022 TACTCAGAGGAATAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589171 15 -  12054995 TACTCAGAAGAATAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2433906 15 - 149736546 GACCCAGAGGAATAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19742992 15 +  45876710 TACACAGAGAAATAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945690 15 -   1687904 CACTCAGAGGGATAA
i dasNov3.JH562883          C 0 C 0
e aotNan1.NW_018488218v1      1890415 634 -   2295209 I

a score=3485423.000000
s hg38.chr12_GL383549v1_alt    101530 222 +    120804 AAATAATTCCAATATGTATCTAGTGCATCTCGAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAATTATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCT-GGTATAAAA
s panTro5.chr12              62793051 222 + 137163284 AAATAATTCCAATATGTATCTAGTGCATCTCGAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCT-GGTATAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60916854 222 + 135337776 AAATAATTCCAATATGTATCTAGTGCATCTCGAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAATTATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCT-GGTATAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132292 222 -  32808036 AAATAATTCCAATATGTATCTAGTGCATCTCGAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTGGACAATGGAAAAATTTGCTAATAATCAATTATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCT-GGTATAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322191 223 +  34552619 AAATAATTCCAATATGTATCTAGTGCATCTCAAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAATTATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCCGGGTATAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634345 222 - 133663169 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGGGATGTTTTTATTCTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036579 222 - 137757926 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGGGATGTTTTTATTCTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408048 222 -   7948249 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGGGATGTTTTTATTCTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312713 222 -  10730278 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGGGATGTTTTTATATTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803421 222 - 128539186 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAATTATACTAATCAGGATTAAGAAACTATGACATTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199438 222 +    435186 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGGGATGTTTTTATATTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAACTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAACTATACTAATTAGGATTAAGAAACTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599130 222 +   9309688 AAATCATTCCAATATGTATCCAGTACATCTCAAGGGAAGTTTTGTGATGTTTTTATATTTT-ACCAAACCACTTAAGTGTTTTGTGACGCAAACGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTTGACAATGGAAAAATTTGCTAATAATCAATTATACTAATTAGGATTAAGAACCTATGACACTTCAATAAATA----T-TT-AGAATCT-GGTATAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420288 218 -  29834108 AAATCATTTCAATATGTATCCAGTGCATCTCAAGGGAAGTTTGGTGATGTTTTCATATTTT-ACCAAACCACTTAAGAGTTTTGTGACACAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTCAACAATGGAAAATTTTGCTAATAAT----TATACTAATTAGGATTAAGAAACTTTGACAGTTCAACAAATA----T-TT-AGAATCT-GGTATTAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871283 215 -   1015025 AAATCATTTCAGTATGTATCCAGTGCATCTCAAGGGAAGTTTCGTGATGTTTTCATATTTT-ACCAAACCACTTAAGAGTTTTGTGACACAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTCAACAATGGAAAAATTTGC---TAAT----TATACTAATTAGGATTAAGAAACTTTGACAGTTCAACAAATA----T-TT-AGAATCT-GGTATTAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891049 218 -   2295209 aaATCATTTCAATATGTATCCAGTGCATCTCAAGGGAAGTTTGGTGATGTTTTCATATTTT-ACCAAACCACTTAAGAGTTTTGTGACACAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATCTCAACAATGGAAAAATTTGCTAATAAT----TATACTAATTAGGATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAATCT-GGTATTAAA
i aotNan1.NW_018488218v1    I 634 C 0
s micMur3.chr21               3026338 222 +  31815103 AAATTATTCCAGTAAGTATCCAGTGCACCTCAGGGGAAGTTTTGCGATGTTTTCATATTTT-ACCAAACCACTTAAGAGTTGTGTGACTCTAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATAATTCACCAAGGGAAAATTCAACCAATAATCAATTGTACTAATTGACATTAAGAAACTATGACACTTCAATAAATG----C-TT-AGAGTTT-GGTATAAAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5115708 222 +  13104022 AAATTATTCCAGTAAGTATCCAGTACACCTCAAGAGAAGTTTTGCGATGTTTTCATATTTT-ACCAAACCACTTAAGAGTTTTGTGACGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATAATTCAACAAGGGAAAAATCAGCTAATAATCAATTATACTAATTGGGATTAAGAAACTATGACACTCCAACAAATA----C-TT-AGAGTCT-GGTATAAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589186 223 -  12054995 AACTTATTCTAATAAGTAACCAGTGCACCTCAAGGGAAGTTTTGCGATGTTTTCTTTTTTTAACCAAACCACTTAAGAGTTTTGTGACGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAGAGAATAATTCAACTAGGGAAAAATCAGCTAATAATCAATTAGACTAGTTGGCATTAAGAAACTATGACACTTCAACAAATA----T-TT-AGAGTCT-GACATAAAA
i otoGar3.GL873576          C 0 I 154
s mm10.chr6                   2433921 217 - 149736546 AAATTACTCCATTATG-AACCAGTGTATCTCAAGGGAAGTTTTGTAATGTTTTGAAATTTT-ACCAAACTACTC--------TGTGATGCAAATGAAAATAGTAATTTTAGCTTGCGATAAAAATAATATTTCAACAATGGAAAATTTGGCTAATAATTAATTATACAAATTACAACTATGAAAGTATGACACTTAGAAAAAAAACATT-TT-CAAGCTT-GATATTGAA
i mm10.chr6                 C 0 I 4
s canFam3.chr27              19743007 222 +  45876710 AAACTA-TCCAATATGTATCCAGTGCACCTCAAGGGAAGTTTTGTGACATTTTCACATTTT-TTCAAACCACTTATGAGTTTTGTGATGCAAATGAAAATAGTAATTTTAGCTGGCAATAAAAATAATATGTTAACAATGGAAAAATTGTCTTATAATTAGTTATACTAATTAGGATTAAGAAATTATGCCACTTCAACAAACA----TCTT-AGAGTCT-GGTATAAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945705 215 -   1687904 AAATTATTCCAATATGTATTTAGTGTATCTCCAGGGAAATTCTGTGATGTTTTCATATTTT-ACCAAACCATTTAAGAGTTCTGTGACTTAAC--AAAGTAGTAATTTCACCTGGCAATAAAAATAACATGTCAGCAATGGAAAAAGTTGCTAATAATTAATTATACTA------ATTAAGAATCTATGACACTTCAACAAATA----C-TTCAGAGTCT-GGTGTAAAA
i dasNov3.JH562883          C 0 C 0

a score=86346.000000
s hg38.chr12_GL383549v1_alt    101752 7 +    120804 CTAGTTA
s panTro5.chr12              62793273 7 + 137163284 ATAGTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917076 7 + 135337776 ATAGTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132514 7 -  32808036 ATAGTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322414 7 +  34552619 ATAGTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634567 7 - 133663169 ATAGTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036801 7 - 137757926 ATAGTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408270 7 -   7948249 ATAGTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312935 7 -  10730278 ATAGTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803643 7 - 128539186 ATAGTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199660 7 +    435186 ATAGTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599352 7 +   9309688 ATAGTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420506 7 -  29834108 ATAGTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871498 7 -   1015025 ACAGTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891267 7 -   2295209 ATAGTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3026560 4 +  31815103 ---GTCA
i micMur3.chr21             C 0 I 3
s proCoq1.NW_012140524v1      5115930 4 +  13104022 ---GTCA
i proCoq1.NW_012140524v1    C 0 I 3
s otoGar3.GL873576            4589563 7 -  12054995 ccagcta
i otoGar3.GL873576          I 154 I 136
s mm10.chr6                   2434142 4 - 149736546 ---GTCA
i mm10.chr6                 I 4 I 3
s canFam3.chr27              19743229 7 +  45876710 ATCATTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945920 7 -   1687904 ATTGTTA
i dasNov3.JH562883          C 0 C 0

a score=239810.000000
s hg38.chr12_GL383549v1_alt    101759 16 +    120804 TGAAAGACCACATTTT
s panTro5.chr12              62793280 16 + 137163284 TGAAAGACCACATTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917083 16 + 135337776 TGAAAGACCACATTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132521 15 -  32808036 TGAAAGACCACA-TTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322421 16 +  34552619 TGAAAGACCACATTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634574 16 - 133663169 TGAAAGACCACATTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036808 16 - 137757926 TGAAAGACCACATTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408277 16 -   7948249 TGAAAGACCACATTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312942 16 -  10730278 TGAAAGACCACATTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803650 16 - 128539186 TGAAAGACCACATTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199667 16 +    435186 TGAAAGACCACATTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599359 16 +   9309688 TGAAAGACCACATTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420513 15 -  29834108 TGAAAGACCACA-TTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871505 15 -   1015025 TGAAAGACTACA-TTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891274 15 -   2295209 TGAAAGACCACA-TTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3026567 16 +  31815103 TGAAAGGCCACATTTT
i micMur3.chr21             I 3 C 0
s proCoq1.NW_012140524v1      5115937 16 +  13104022 TGAAAGGCCACATTTT
i proCoq1.NW_012140524v1    I 3 C 0
s otoGar3.GL873576            4589706 16 -  12054995 TGAAAGCCTGCATTTT
i otoGar3.GL873576          I 136 C 0
s mm10.chr6                   2434149 16 - 149736546 TAAAAGTTCACATTTT
i mm10.chr6                 I 3 I 521
s canFam3.chr27              19743236 16 +  45876710 TAGAAGGTCACATTTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             945927 16 -   1687904 TAAAAGGTCACATTTT
i dasNov3.JH562883          C 0 C 0

a score=14972.000000
s hg38.chr12_GL383549v1_alt    101775 1 +    120804 T
s panTro5.chr12              62793296 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917099 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132536 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322437 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634590 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036824 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408293 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312958 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803666 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199683 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599375 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420528 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871520 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891289 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3026583 1 +  31815103 T
i micMur3.chr21             C 0 I 169
s proCoq1.NW_012140524v1      5115953 1 +  13104022 T
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589722 1 -  12054995 C
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19743252 1 +  45876710 T
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             945943 1 -   1687904 T
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434165 521 - 149736546 I

a score=1418630.000000
s hg38.chr12_GL383549v1_alt    101776 120 +    120804 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGGGGTGTATACGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATGCAC-AAACTT
s panTro5.chr12              62793297 120 + 137163284 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGGGGTGTATACGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATGCAC-AAACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917100 120 + 135337776 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGGGGTGTATACGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATACAC-AAACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132537 120 -  32808036 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGGGGTGTATACGTCTGTTAAACAGGAATCACATTTCTGCTTCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATGCAC-AAACTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322438 120 +  34552619 TCCAAGA----------AGTATTAATGCATATAATTAGACAATGGGGTGTATATGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGACTACATGGATAAGGATATA------AATATTCAT-AAACTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634591 120 - 133663169 TCCAAGA----------AGTATTAATGGACATAACTAGACAATGGCGTGTATGCATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036825 120 - 137757926 TCCAAGA----------AGTATTAATGGACATAACTAGACAATGGCGTGTATGCATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408294 120 -   7948249 TCCAAGA----------AGTATTAATGGACATAACTAGACAATGGCGTGTATGCATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8312959 120 -  10730278 TCCAAGA----------AGTATTAATGGACATAACTAGACAATGGCGTGTATACATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803667 120 - 128539186 TCCAAGA----------AGTATTAATGCACATAACTAGACAATGGCGTGTATACATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199684 120 +    435186 TCCAAGA----------AGCATTAATGGACATAACTAGACAATGGCGTGTATACATCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-AAACTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599376 120 +   9309688 TCCAAGA----------AGTATTAATGCACATAACTAGACAATGGCGTGTATACATCTATTAAACAGGAATCACATTTCTACTCCTTTTCAGAAGCCTACATGGATAAGGATATA------AATATTCAT-GAACTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420529 121 -  29834108 TCCAAGA----------AGTGTTAATGCACATAATTAGACAATGGGGTGTGTAGGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGGTAAGGATACA------ACTACTCATAAAACTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871521 120 -   1015025 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGGGGTGTGTAGGTCTGTTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATACA------ACTATTCAT-AAACTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891290 120 -   2295209 TCCAAGA----------AGTATTAATGCACATAATTAGACAATGAGGTGTGTAGGTCTATTAAACAGGAATCACATTTCTGCTCCTTTTCAGAAGCCTACATGGATAAGGATACA------ACTATTCAT-AAACTT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5115954 122 +  13104022 --AACAA----------AGTATTAATGCAAGTAATTAGACAATGGGGTG--CACAGCTGTTAAAAAGAAATCCTGTATCTGCTCCTTCTCAGGGGCCTACACGAATAAGGATACAAGTATTAACATTTAT-AAACCT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589723 113 -  12054995 -----AA----------AGTATTAATGCGAATAATTAGACAATGGAGGA--CACAGCTATTAAATAGGAAGCCTGTATCGGCTCCTTTGCAGAGGCCCACATGGATAAGGATCCA------AATATTCAT-AAACCT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19743254 120 +  45876710 CCCAAGA----------AGTATTAATGTAAGTAATTAAACAATGGAATATGCACTGTTGTTAAGCAGCTTCCAAGTATCTGCTCCTTTTCAGAGGTCCAGATGAATAGAGACACA------AGTATTCAT-AAAACT
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             945944 130 -   1687904 TCCAAGATTCCTATCTCTGGGTGAGCAGAAGTAATTCAGCAATGGGGTGTGCACTGCTGTTGGATGGGAATCACGGATCTGCTCCTTTTCCGAGGTCCAGACACACAAGGACTCA------AGCCTCCCT-AAACTT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434165 521 - 149736546 I
e micMur3.chr21               3026584 169 +  31815103 I

a score=676536.000000
s hg38.chr12_GL383549v1_alt    101896 60 +    120804 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGGAAGGTATTTATTTT--AAAGATGA---
s panTro5.chr12              62793417 60 + 137163284 CCTGATTCTGAGAGAATTATTTGTTTTTGAATGGTGGGAAGGTATTTATTTT--AAAGATGA---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917220 60 + 135337776 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGGAAGGTATTTATTTT--AAAGATGA---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132657 60 -  32808036 CCTGATTCTGAGAGAATTATTTGTTTTTGAATGGTGGGAAGGTATTTATTTT--AAAGATGA---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322558 60 +  34552619 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGGAAGGTATTTATTTT--AAAGATGA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634711 60 - 133663169 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGAAAGGTATTTATTTT--AAATATGA---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109036945 60 - 137757926 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGAAAGGTATTTATTTT--AAATATGA---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408414 60 -   7948249 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGAAAGGTATTTATTTT--AAATATGA---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313079 60 -  10730278 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGAAAGGTATTTATTTT--AAATATGA---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803787 60 - 128539186 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGGAAGGTATTTATTTT--AAATATGA---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199804 60 +    435186 CCTGATTCTGAGAGAATTATTTATTTTTGAATGGTGGAAAGGTATTTATTTT--AAATATGA---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599496 60 +   9309688 CCTGATTCTGAGAGAATTGTTTATTTTTGAATGGTGGGAAGGTATTTATTTT--AAATATGA---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420650 60 -  29834108 CCTTATTCTGAGAGAATTGTTTATTTATGAATGGTGGGGAGGTATTTATTTT--GAAGATGA---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871641 60 -   1015025 CCTGATTCTGAGAGAATTGTTTGTTTATGAATGGTGGGAAGGTATTTATTTT--GAAGATGA---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891410 60 -   2295209 CCTGATTCTGAGAGAATTGTTTATTTATGAATGGTGGGAAGGTATTTATTTT--GAAGACGA---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5116076 61 +  13104022 CCTGATTCCAAGAAAATTGCTTATTTATGAATGGTGGGAAGAGATTTTTTTTT-AAAGGTCT---
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589836 62 -  12054995 CCTGTCTCTGAGAAAGTTGTTTCTTTGTAAATAGTAGAAAGAGATTTTTTTTTAAAAGATCT---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2434686 47 - 149736546 ccAAATTCTAAGAAAGTT--TTAGTTGTCAA------AAAAATATTT-------CAATATAT---
i mm10.chr6                 I 521 C 0
s canFam3.chr27              19743374 53 +  45876710 TCTAATACCAAGCAAGTTGGTTAGTTTTGGATGGTGGGAAGACTATTTTTTT--A----------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946074 60 -   1687904 CCTGACTCCAAGCAGCCTGCTTATTTTTGTATGGCTGGGAGAGATTT---TA--AAAAAAGGTTT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3026584 169 +  31815103 I

a score=1708999.000000
s hg38.chr12_GL383549v1_alt    101956 128 +    120804 AAGAAGAAATTCGGATACCTTTAGAAGGCCTGAAGCCCCTCC---------ATATTTTTCACCCAATATTTAGGCCTCATATTAGCTACCACCATTGCAATAAGAAGGCTTGAGCTTTCATAGCCCCAGCAGACATC
s panTro5.chr12              62793477 128 + 137163284 ACGAAGAAATTCGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCCAATATTTAGGCCTCATATTAGCTACCACCATTGCAATAAGAAGGCTTGAGCTTTCATAGCCCCAGCAGACATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917280 128 + 135337776 AAGAAGAAATTCGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCCAATATTTAGGCCTCATATTAGCTACCACCATTGCAATAAGAAGCCTTGAGCTTTCATAGCCCCAGCAGACATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132717 128 -  32808036 AAGAAGAAATTCGGATACCTTTACAAGACCTGAAGCCCCTCC---------ATATTTTTCACCCAATATTTAGGCCTCATATTAGCTACCACCATTGCAATAAGAAGGCTTGAGCTTTCATAGCCCCAGCAGACATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322618 128 +  34552619 AAGAGGAAATTCGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTTACCCAATATTTAGGCCTCATATTAGCTACCACCATTGCAATAAGAAGGCTTGAGCTTTCATAGCCCCAACAGACATC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634771 127 - 133663169 AGGGAGAAATTCTGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAACATTTAGGCTTCATATTAGCTACTACCATTGCAATAAG-AGGCGTGAGCTTTCATAGCCCCAGCAGACATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037005 127 - 137757926 AGGGAGAAATTCTGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAG-AGGCGTGAGCTTTCATAGCCCCAGCAGACATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408474 127 -   7948249 AGGGAGAAATTCTGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAG-AGGCGTGAGCTTTCATAGCCCCAGCAGACATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313139 127 -  10730278 AGGGAGAAATTCTGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAATATTTAGGTTTCATATTAGCTACTACCATTGCAATAAG-AGGCGTGAGCTTTCATAGCCCCAGCAGACATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803847 127 - 128539186 AAGGAGAAATTCGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATACTTTTCACCTAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAG-AGGTGTGAGCTTTCATAGCCCCAGAAGACATC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199864 127 +    435186 AGGGAGAAATTCTGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAATATTTAGGCTTCATATTAGCTACTACTATTGCAATAAG-AGGCGTGAGCTTTCATAGCCCCAGCAGACATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599556 127 +   9309688 AAGGAGAAATTCGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTTTCACCTAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAG-AGGTGTGAGCTTTCATAGCCCCAGCAGACATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420710 128 -  29834108 AAGAAGAAATTTGGATACCTTTAGAAAACATGAAGCCCCTCC---------ATATTTGTCACCCAAAATTTAGGCTTCATATTAGCTACTACCACTGCAATAAGAAGGGTTGAGGTTTCAGAACCCCAGAAGACATC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871701 128 -   1015025 AAGAAGAAATTTGGATACCTTTAGAAGACCTGAAGCCCCTCC---------ATATTTGTCACCCAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAGAAGGATTGAGGTTTCAGAACCCCAGAAGACATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891470 128 -   2295209 AAGAAGAAATTTGGATACCTTTAGAAGACATGAAGCCCCTCC---------ATATTTGTCACCCAATATTTAGGCTTCATATTAGCTACTACCATTGCAATAAGAAGGGTTGAGGTTTCAGAACCACAGAAGACATC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3026753 128 +  31815103 AAGAAGTAATTCAGATATCTTCAGAAGACTTGAAGTCTCTCT---------ATATTTTTCACCCAGTATTTAGGCCTCATATGTACCACAACCGTTGCAATAAGACAGCTTGAGCCATCACAGCCCCAACAGACATC
i micMur3.chr21             I 169 I 376
s proCoq1.NW_012140524v1      5116137 128 +  13104022 AAGAAGTAATACATGTATCTTTAGAAGACCTGAAATCCCTCC---------ATATTTTTCACTCAATATTTAGGCCTCATATTTGCTACAACCGTTGCAATAAGATGGCTTGAGCCATCACAGCCCCAACAAACATC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4589898 127 -  12054995 TAGAATTAATTCAGATATGTTTAGAAGACCTGAAGCCTGTCC---------ATA-GTTTCACCCAATCTTTAGGCCTCATATTTGCTCCTACCATTGCAATAAGAAGGCTGCAGCCATCACAGCCCCAACAGACACC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2434733 127 - 149736546 AATTAGAAATTCAAACATGCTTAGAAGGGCCATAGCCTTTAC---------ATATTTCCTACCTATTACCTAGACCTCTTATTGGCCGTTACTACTACAGCAAGGCAGCATGGGAGTGC-TAGCCACTATGGGCATC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19743427 136 +  45876710 AAGAAGAAATCCAGATATTTTCAGAAGACCTGAAGCCCTCCCCACCTCCCAATATTTTCCACTCAATCTTTAGGCCTCATCTTTGCTTTTACCATTGCCATAGA-AGGCTTGGGCCATCACAGCCCCAGCAGACATC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946134 109 -   1687904 AAGGACAAATGCAGATATCTTCGGAAGGCCTGAG--CTCTCC---------ACATTTTCAACGTGATCTCCAGGTATCACCTCTGCCA-----------------TGGCCCTGGCCGGCACAATCTCTGCAGACAAC
i dasNov3.JH562883          C 0 C 0

a score=25006.000000
s hg38.chr12_GL383549v1_alt    102084 4 +    120804 CTTG
s panTro5.chr12              62793605 4 + 137163284 CTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917408 4 + 135337776 CTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132845 4 -  32808036 CTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322746 4 +  34552619 CTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634898 4 - 133663169 CTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037132 4 - 137757926 CTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408601 4 -   7948249 CTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313266 4 -  10730278 CTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803974 4 - 128539186 CTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199991 4 +    435186 CTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599683 4 +   9309688 CTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420838 4 -  29834108 CTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871829 4 -   1015025 CTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891598 4 -   2295209 CTTG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5116265 4 +  13104022 TTTG
i proCoq1.NW_012140524v1    C 0 I 257
s otoGar3.GL873576            4590025 2 -  12054995 -TT-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2434860 2 - 149736546 CT--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19743563 2 +  45876710 CT--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946243 2 -   1687904 -TT-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3026881 376 +  31815103 I

a score=712585.000000
s hg38.chr12_GL383549v1_alt    102088 66 +    120804 GATGTAGTTCTCAGAAGCTTCTGGAGGTCTGCACTC---------TATAA---GAACActacagatacgactggaagt
s panTro5.chr12              62793609 66 + 137163284 TATGTAGTTCTGAGAAGCTTCTGGAGGTCTGCACTC---------TATAA---GAACACCACAGATACGACTGGAAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917412 66 + 135337776 TATGTAGTTCTGAGAAGCTTCTGGAGGTCTGCACTC---------TATAA---GAACACCACAgatatgactggaagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132849 66 -  32808036 TATGTAGTTCTGAGAAGCTTCTGGAGGTCTGCACTC---------TATAA---GAACACCACAgatatgactggaagt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322750 66 +  34552619 TATGTAGTTCTGAGAAGCTTCTGGAGGTCTGCACTC---------TATAA---GAACACCACAGATATGACTGGAAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634902 66 - 133663169 TATGTAGTTCCGAGAAGCTTCTGGCAGACTGCACTC---------TATAA---GAACACCACAGATACGACTGGAAGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037136 66 - 137757926 TATGTAGTTCCAAGAAGCTTCTGGCAGACTGCACTC---------TATAA---GAACACCACAGATACGACTGGAAGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408605 66 -   7948249 TATGTAGTTCCGAGAAGCTTCTGGCAGACTGCACTC---------TATAA---GAACACCACAGATACGACTGGAAGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313270 66 -  10730278 TATGTAGTTCCGAGAAGCTTCTGGCAAACTGCACTC---------TATAA---GAACACCACAGATATGACTGGAAGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100803978 66 - 128539186 TATGTAGTTCCAAGAAGCTTCTGGCAGTCTGCACTC---------TATAA---GAACACCACAGATATGACGGAAAGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       199995 66 +    435186 TACATAGTTCCGAGAAGCTTCTGGCAGACTGCACTC---------TATAA---GAACACCACAGATATGACTGGAAGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599687 66 +   9309688 TATGTAGTTCCGAGAAGCTTCTGGCAGTCTGCACTC---------TATAA---GAACACCACAGATATGACTGGAAGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420842 66 -  29834108 TATGTAGTTCTGAGAAGCTTCTGGCAGTCTGCACTC---------TATAA---GAACACCGCAGATATGGCTGGAAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871833 66 -   1015025 TATGTAGTTCTGAGAAGCTTCTGGCAGTCTGCACTC---------TATAA---GAACACCACAGATATGACTGGAAGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891602 66 -   2295209 TATGTAGTTCTGAGAAGCTTCTGGCAGTCTGCACTC---------TATAA---GAACACCACAgatatgactggaagt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4590027 62 -  12054995 --TGTCATTCTGAGAAGCTTCTGGTTCTCTGCCTCC---------TGTAA---GAACACCACAGATGGGACTGGAA--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2434862 72 - 149736546 --AATAGTTCTGAG-AGTTTCAGGTTTTCCGCTCCCTCTCCTCATTATAA---GACCACCACACATACTGACAGAAGT
i mm10.chr6                 C 0 I 989
s canFam3.chr27              19743565 64 +  45876710 --TACAGTTCTGAGATGCTTCTAGCTCTCCATGCTC---------TAAAA---GAACACCACATAtgtgactggaagt
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946245 54 -   1687904 --TGTGATTTTCAG-TGTTGCTCATTCACTGCATCC---------TGTCATGTGAACACAAGGGTT------------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3026881 376 +  31815103 I
e proCoq1.NW_012140524v1      5116269 257 +  13104022 I

a score=759317.000000
s hg38.chr12_GL383549v1_alt    102154  92 +    120804 g---------------------------aaaaaaaaaagg--------tgctcttttcc-aaaatatcttgcatattcctgtcaaagtaactgaaatttcaccattagagattttgttccctgggtTG
s panTro5.chr12              62793675  92 + 137163284 G---------------------------AAAAAAAaaagg--------tgttcttttcc-aaaatatcttccatattcctgtcaaagtaactgaaatttcaccatgagagattttgttccctaggttg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917478  92 + 135337776 g---------------------------aaaaaaaaaaga--------tgttcttttcc-aaaatatcttccatattcctgtcaaagtaactgaaatttcaccatgagagattttgttccctaggttg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3132915  92 -  32808036 g---------------------------aaaaaaaaaagg--------tgttcttttcc-aaaatatcttgcatattcctgtcaaagtaactgaaatttcaccatgagagatttttttccctaggttg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322816 101 +  34552619 GC------------------AAAAAAAAAAAAAAAaaagg--------tgttcttttcc-aaaatgtcttgcatcttcctgtcaaagtaactgaaatttcaccatgagagattttattccctgggtTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104634968 119 - 133663169 GTaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaG--------TGTTcttttcc-aaagtatcttgcatcttcatgtcaaagtaactgaaatatcaccatgacagattttattccttgggtTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037202 100 - 137757926 GT-------------------aaaaaaaaaaaaaaaaaaG--------TGTTcttttcc-aaagtatcttgcatcttcatgtcaaagtaactgaaatgtcaccatgacagattttattccttgggtTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408671  94 -   7948249 GT-------------------------AAAAAAAAAAAAG--------TGTTCTTTTCC-AAAGTATCTTGCATCTTCATGTCAAAGTAACTGAAATGTCACCATGACAGATTTTATTCCTTGGGTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313336  94 -  10730278 GT-------------------------AAAAAAAAAAAAG--------TGTTcttttcc-aaagtatcttgcatcttcatgtcaaagtaactgaaatgtcaccatgacagattttattccttgggtTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804044  99 - 128539186 GT------------------AAAAAAAAAAAAAAAACCAA--------TGTTTTTTTcc-aaagtatcttgcatcttcatgtcagagtaactgaaatgtcaccatgacag--tttattccttgggtTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200061 109 +    435186 GT------------------aaaaaaaaaaaaaaaaaaaaaaaaaaaGTGTTcttttcc-aaagtatcttgcatcttcatgtcaaagtaactgaaatgtcaccatgacagattttattccttgggtTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599753  94 +   9309688 AT-------------------------AAAAAAAAAAAAG--------TGTTATTTTcc-aaagtatcttgcatcttcatgtcaaagtaactgaaatgtcaccatgacagattttaccccttgggtTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420908  89 -  29834108 AT-----------------------TAAAAAA-------G--------TGTTcttttcc-aagatgtcttgcatcttcatgtcaaagtaactgaaatttcaccatgagagattttattctctgggtTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871899  96 -   1015025 AT-----------------------AAAAAAAAAAaaagg--------tgttcttttcc-aagatatcttgcatcgtcatgtcaaagtaactggaatttcacccggagagattttataccctgggttg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891668  91 -   2295209 at-----------------------ctgaaaaaa-----g--------tgttcttttcc-aagatatcttgcatcttcatgtcaaagtaactgaaatttcaccatgagagattttattccctgggtta
i aotNan1.NW_018488218v1    C 0 I 84
s otoGar3.GL873576            4590089  90 -  12054995 ----------------------------AAATAAggaagc--------ttttctttccctataatgtcttgcatagtcgtgtcaaagtcactgaaatttcaccatgagagattttatcctttgg--tg
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19743629  86 +  45876710 -----------------------------gtaaataaatt--------tctctttcccc-caaataccttgcatcttcatgtcatagtaactgaaatttcaccataagagattttattctttgg----
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946299  68 -   1687904 ---------------------------------AAGAGGT--------TTCTCTTGCCCAAAAATAGCTTGCATCTACCCCTGCCTGCCCCTAGACGTTCAC--TGAGAGG-----------------
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3026881 376 +  31815103 I
e proCoq1.NW_012140524v1      5116269 257 +  13104022 I

a score=440428.000000
s hg38.chr12_GL383549v1_alt    102246 96 +    120804 ttttcttttctttt-ttttttttttttttttAG--------------------AAAAAAAACCTTTGTTCTCTAGTGAGTaaatatttactgaacacttactgaattttatgcttag
s panTro5.chr12              62793767 79 + 137163284 ttttc------------------ttttttttag--------------------aaaaaaaacctttgttCtctaatgagtaaatatttactgaacacttactgaattttatgcttag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917570 78 + 135337776 ttttc-------------------tttttttag--------------------aaaaaaaacctttgttCtctaatgagtaaatatttactgaacacttactgaattttatgcttag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133007 79 -  32808036 ttttc------------------ttttttttag--------------------aaaaaaaacctttgttCtctaatgagtaaatatttactgaacacttactgaattttatgcttag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7322917 96 +  34552619 ttttctttttttttctttctttttttttttAAG--------------------AAAAAAATCCTTTGTTCTCTA-TGaataaatatttactgaacacttactgaattttatgcttag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635087 79 - 133663169 ---------------------TTTTTTTTTTAG----------------GAAAAAAAAAAACCTTTGATCTCTA-GGaataaatatttactgaacacttactaaactttatgcttag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037302 77 - 137757926 ----------------------TTTTTTTTTAG-----------------GAAAAAAAAAACCTTTGATCTCTA-GGAATAAATATTTACTGAACACTTACTAAACTTTATGCTTAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408765 78 -   7948249 ----------------------TTTTTTTTTAG----------------AAAAAAAAAAAACCTTTGATCTCTA-GGaataaatatttactgaacacttactaaactttatgcttag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313430 81 -  10730278 ---------------------TTTTTTTTTTAG------------AA--AAAAAAAAAAAACCTTTGATCTCTA-GGaataaatatttactgaacacttactaaactttatgcttag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804143 84 - 128539186 ttttt--------------ttttttttttttAG------------------AAAAAAAAAACCTTTGATCTCTA-GGAATAAATATTTACTGAACACTTACTAAACTTTATGCTTAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200170 81 +    435186 ----------------------TTTTTTTTTAG-----------AAA--AAAAAAAAAAAACCTTTGATCTCTA-GGaataaatatttactgaacacttactaaactttatgcttag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599847 77 +   9309688 ---------------------TTTTTTTTTTAG------------------AAAAAGAAAACCTTTGATCTCTA-GGaataaatatttactgaacacttactaaactttatgcttag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11420997 98 -  29834108 ------GTGttttttatttttatttttttttaG-----------AAACCAAAAAAAAGAAATCGTTTTTCTCTA-TGAATAAATATTTACTGAGCTCTTACCAAACTTTACAATTA-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       871995 95 -   1015025 ------gt--------------tttttttctagaaAAACAAAACAAAACAAAACAAAAAACCCTTTTTCCTCTA-TGAATAAATGTTTGCTGAGCTCTTACCAAACTTTACAATTG-
i cebCap1.NW_016107911v1    C 0 C 0
s otoGar3.GL873576            4590179 61 -  12054995 -------------------------------------------------------taagaagctttgttctcca-tgagCAAATGTTTACTGAGCAATTCCTGAGTTTCTTGATTGG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19743715 80 +  45876710 ----------------------------TTTaa--------acaaaacaaaacaaaacaaaacTTTGTTCTCAA-TGAACAAATATTTACTGAACACTTAATAAGTTAGCTGCTTAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946367 61 -   1687904 ----------------------TCTGGCCTCGA-----------------------------CTTTGTTCTCAC-TGGGCAGATCTGCGCCAAGCACTTCTT----CGTGGGCTCAG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3026881 376 +  31815103 I
e proCoq1.NW_012140524v1      5116269 257 +  13104022 I
e aotNan1.NW_018488218v1      1891759 84 -   2295209 I

a score=437606.000000
s hg38.chr12_GL383549v1_alt    102342 46 +    120804 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
s panTro5.chr12              62793846 46 + 137163284 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917648 46 + 135337776 gtttgtggtatatgttctgagagttataggacaatgta-agatccag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133086 46 -  32808036 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323013 46 +  34552619 gtttgtgatatatgttctgagagttataggacaatgta-ggatccag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635166 46 - 133663169 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037379 46 - 137757926 GTTTGTGGTATATGTTCTGAGAGTTATAGGACAAGGTA-GGATCCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408843 46 -   7948249 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313511 46 -  10730278 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804227 47 - 128539186 GTTTGTGGTATATGTTCTGAGAGTTACAGGACAATGTAGGGATCCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200251 46 +    435186 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599924 46 +   9309688 gtttgtggtatatgttctgagagttataggacaatgta-ggatccag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421095 46 -  29834108 GTTTGTGGTATATGTTCTAAGAGTTGTAGGACAATGTA-GGATCCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872090 46 -   1015025 GTTTGTGGTATATGTTCTAAGCGTTGTAGGACAATGTA-GGATCCAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891843 46 -   2295209 GTTTGTGGTATATGTTCTAAGAGTTGTAGGACAATGTA-GGATCCAA
i aotNan1.NW_018488218v1    I 84 C 0
s otoGar3.GL873576            4590240 31 -  12054995 GTTTGTGGTGTATGCTCTGAGA---ACATGTCAA-------------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19743795 46 +  45876710 GTGTGTGGCCTATGCCATGCAAGTTACAGGAAAATACA-AGAGAAGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946428 31 -   1687904 GTGTGTGAT---TGTAGCAGGA--CACAGGACAGGG-----------
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3026881 376 +  31815103 I
e proCoq1.NW_012140524v1      5116269 257 +  13104022 I

a score=1175939.000000
s hg38.chr12_GL383549v1_alt    102388 103 +    120804 ttgctgccatcaag-gagaaacattcaagttgggaaaacaTGAAGACTACAGAGTCCAAGGTAAATGGCATTGCGTTGTCCTGTGTGATCTTTTGGCCTGTCCA---
s panTro5.chr12              62793892 103 + 137163284 ttgctgccatcaag-gagaaacattcaagttgggaaaacatgaAGACTACAGAGTCCAAGGTAAATGTCATTGCATTGTCCTGTGTGATCTTTTGGCCTGTCCA---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917694 103 + 135337776 ttgctgccatcaag-gagaaacattcaagttgggaaaacatgaAGACTACAGAGTCCAAGGTAAATGTCATTGCGTTGTCCTTTGTGATCTTTTGACCTGTCCA---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133132 103 -  32808036 ttgctgccatcaag-gagaaacattcaagttgggaaaacatgaAGACTACAGAGTCCAAGGTAAATGTCATTGCGTTGTCCTGTGTGATCTTTTGGCCTGTCCA---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323059 103 +  34552619 ttgctgccatcaag-gagaaacagtcaagttgggaaaacaTGAAGACTGCAGAGTCCAAGGTAAATGTCATTGCGTTGTTCTGTGTGATCTTTTGGCCTGTCCA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635212 103 - 133663169 ttgctaccaccaag-gagaaacattcaagttgggaaaacacaaagactaCAGAGTCCAAGGTAAATGTCATTGCGTCGTTCTGTGGGATCTTTTGGCCTATCCA---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109037425 103 - 137757926 TTGCTACCACCAAG-GAGAAACATTCAAGTTGGGAAAACACGAAGACTACAGAGTCCAAGGTAAATGTCATTGCGTCGTTCTGTGGGATCTTTTGGCCTATCCA---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1408889 103 -   7948249 ttgctaccaccaag-gagaaacattcaagttgggaaaacacgaagactaCAGAGTCCAAGGTAAATGTCATTGCGTCGTTCTGTGGGATCTTTTGGCCTATCCA---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8313557 103 -  10730278 ttgctaccatcaag-gagaaacattcaagttgggaaaacacgaagactaCAGAGTCCAAGGTAAATGTCATTGTGTCGTTCTGTGGGATCTTTTGGCCTATCCA---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804274 103 - 128539186 TTGCTACCATCAAG-GAGAAACATCCAAGTTGGGAAAACACGAAGACTCCAGAGTCCAAGGTAAATGTCATTGCGTCGTTCTGTGGGATCTTTTGGCCTGTCCA---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200297 102 +    435186 ttgctaccaccaag-gagaaacattcaagttgggaaaacacgaagactaC-GAGTCCAAGGTAAATGTCATTGTGTCGTTCTGTGGGATCTTTTGGCCTATCCA---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3599970 103 +   9309688 ttgctaccatcaag-gagaaacattcaagttgggaaaacacgaagactaCAGAGTGCAAGGTAAATGTCATTGCGTCATTCTGTGGGATCTTTTGGCCTGTCCA---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421141 103 -  29834108 TTGCTGCCATTGAG-GAGAAACATTCAAGTTGGGAAAACACAAAGACTACAGAGCCCAAGGTAAATGCCATTGTGTTGTTCTGTGTGCTCTTTTGGCCTGTCAG---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872136 103 -   1015025 CTGCTGCCATCGAG-GAGAAATATTCAAGTTGGGAAAACGCAAAGACTACAGAGCCCAAGGTAAATGCCATTGTGTTGTTCTGTGTGATCTTTTAGCCTGTCAG---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891889 103 -   2295209 TTGCTGCCATGGAA-GAGAAACATTCAAGTTGGGAAAACACAAAGACTACAGAGCCCAAGGTAAATGCCATTGTGTTGTTCTGTGTGATCTCTTGGCCTGTGAG---
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5116526 103 +  13104022 ttgctgccgtaaag-gaaaaacgtgccagttgggaaaacatgaAGACTACAGAGTCCAAGTCAGATGCCATCGTGTTGGTCTATGTGATCCCTTGGTCTGTGTG---
i proCoq1.NW_012140524v1    I 257 I 4
s otoGar3.GL873576            4590271 103 -  12054995 TCGCTCCCTTTGAGAAAAAAACATTCAAGTAGGGAGGACATGAAGACTACAGAGTCCTGAT-AAACGCCCTGACGCCCATCTATATGGTCTCTTGGCCTGTCCG---
i otoGar3.GL873576          C 0 I 4
s canFam3.chr27              19743841 102 +  45876710 TTGCTGTCTGTAAG-GAGAAACATCCAAGCTGAGAAGCCATGAAGACCTCAGAGTGCATGGTA-ATGACATTGTGTCGGTCTGTATGATCTCTTGGTATGTCTG---
i canFam3.chr27             C 0 I 5
s dasNov3.JH562883             946459 105 -   1687904 CCACTGCCGTTGGG-AGGTCACACTCGAATTAGGAAAACACAGAGGCCACGGGGTCCAAGGCC-CTGTCCTCACGCTGGTCTGTAAGACCTCTTCACGTGTATATCA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3026881 376 +  31815103 I

a score=658231.000000
s hg38.chr12_GL383549v1_alt    102491 48 +    120804 AAGAGAAAGACACCACAGAACACAGAGAACTCT---GGAGAGAGAAGGGTG
s panTro5.chr12              62793995 48 + 137163284 AAGAGAAAGACACCACAGAACACAGAGAACTCT---GGAGAGAGAAGGGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917797 48 + 135337776 AAGAGAAAGACACCACAGAACACAGAGAACTCT---GGAGAGAGAAGGGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133235 48 -  32808036 AAGAGAAAGACACCACAGAACACAGAGAACTCT---GGAGAGAGAGGGGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323162 48 +  34552619 AAGAGAAAGACACCACAGACCATAGAGAACTCT---GGAGAGAGAAGGGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635315 48 - 133663169 AAGCGAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i rheMac8.chr11             C 0 I 526
s macFas5.chr11             109037528 48 - 137757926 AAGCGAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i macFas5.chr11             C 0 I 526
s macNem1.NW_012011422v1      1408992 48 -   7948249 AAGCGAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i macNem1.NW_012011422v1    C 0 I 526
s cerAty1.NW_011999477v1      8313660 48 -  10730278 AAGCGAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i cerAty1.NW_011999477v1    C 0 I 526
s chlSab2.chr11             100804377 48 - 128539186 AAGCAAAAGACACCACAGAATATAGAGAATTCT---GGAGAAAGAAGGGTG
i chlSab2.chr11             C 0 I 526
s manLeu1.NW_012101287v1       200399 48 +    435186 AAGCGAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i manLeu1.NW_012101287v1    C 0 I 526
s colAng1.NW_012114364v1      3600073 48 +   9309688 AAGCAAAAGACACCACAGAATACAGAGAACTCT---GGAGAAAGAAGGGTG
i colAng1.NW_012114364v1    C 0 I 525
s saiBol1.JH378123           11421244 48 -  29834108 AAGAGAAAGACACCACAGAATATAGAGAACTCT---GGAGAGAGATGGGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872239 48 -   1015025 AAGAAAAAGACACCACAGAATACAGAGAACTCT---GGAGAGAGATGGGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1891992 51 -   2295209 AACAGAAAGACACCACAGAATACAGAGAACTCTGGAGGAGAGAGATGGGTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3027257 48 +  31815103 AAGAGAGAGGTACCACAGAATACAGAGAGCTCT---GGAGAGAGAGGGGTG
i micMur3.chr21             I 376 I 610
s proCoq1.NW_012140524v1      5116633 48 +  13104022 AAGAGAGAGGTACCACAGAATACAGAGAGCTCT---GGAGAGAGAGGAGTG
i proCoq1.NW_012140524v1    I 4 C 0
s otoGar3.GL873576            4590378 48 -  12054995 AAGAAAGGGGCATCACAGAATACAAAGAACGCT---GGGGAGAGAGGGGGG
i otoGar3.GL873576          I 4 C 0
s canFam3.chr27              19743948 48 +  45876710 AGAGAAAAGACACCATAGAATACAGAGAGCCCT---GGAGAGCCAGGGGTG
i canFam3.chr27             I 5 C 0
s dasNov3.JH562883             946564 46 -   1687904 GAAGAGAAGACACCACAGAGCCTGGAGAAC-CT---GGGGGAAGAAGCGG-
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I

a score=17270.000000
s hg38.chr12_GL383549v1_alt    102539 3 +    120804 TGT
s panTro5.chr12              62794043 3 + 137163284 TGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917845 3 + 135337776 TGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133283 3 -  32808036 TGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323210 3 +  34552619 TGT
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11421292 3 -  29834108 TGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872287 3 -   1015025 TGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1892043 3 -   2295209 TGT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5116681 3 +  13104022 TGT
i proCoq1.NW_012140524v1    C 0 I 596
s otoGar3.GL873576            4590426 3 -  12054995 TGT
i otoGar3.GL873576          C 0 I 995
s canFam3.chr27              19743996 3 +  45876710 TGT
i canFam3.chr27             C 0 I 507
s dasNov3.JH562883             946610 3 -   1687904 CGT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e colAng1.NW_012114364v1      3600121 525 +   9309688 I
e manLeu1.NW_012101287v1       200447 526 +    435186 I
e chlSab2.chr11             100804425 526 - 128539186 I
e cerAty1.NW_011999477v1      8313708 526 -  10730278 I
e macNem1.NW_012011422v1      1409040 526 -   7948249 I
e macFas5.chr11             109037576 526 - 137757926 I
e rheMac8.chr11             104635363 526 - 133663169 I

a score=15300.000000
s hg38.chr12_GL383549v1_alt    102542 1 +    120804 G
s panTro5.chr12              62794046 1 + 137163284 G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917848 1 + 135337776 G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133286 1 -  32808036 G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323213 1 +  34552619 G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635889 1 - 133663169 G
i rheMac8.chr11             I 526 C 0
s macFas5.chr11             109038102 1 - 137757926 G
i macFas5.chr11             I 526 C 0
s macNem1.NW_012011422v1      1409566 1 -   7948249 G
i macNem1.NW_012011422v1    I 526 C 0
s cerAty1.NW_011999477v1      8314234 1 -  10730278 G
i cerAty1.NW_011999477v1    I 526 C 0
s chlSab2.chr11             100804951 1 - 128539186 G
i chlSab2.chr11             I 526 C 0
s manLeu1.NW_012101287v1       200973 1 +    435186 G
i manLeu1.NW_012101287v1    I 526 C 0
s colAng1.NW_012114364v1      3600646 1 +   9309688 G
i colAng1.NW_012114364v1    I 525 C 0
s saiBol1.JH378123           11421295 1 -  29834108 G
i saiBol1.JH378123          C 0 I 491
s cebCap1.NW_016107911v1       872290 1 -   1015025 G
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1892046 1 -   2295209 G
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4591424 1 -  12054995 G
i otoGar3.GL873576          I 995 C 0
s canFam3.chr27              19744506 1 +  45876710 G
i canFam3.chr27             I 507 C 0
s dasNov3.JH562883             946613 1 -   1687904 G
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I

a score=13073.000000
s hg38.chr12_GL383549v1_alt    102543 1 +    120804 G
s panTro5.chr12              62794047 1 + 137163284 G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917849 1 + 135337776 G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133287 1 -  32808036 G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323214 1 +  34552619 G
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635890 1 - 133663169 G
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038103 1 - 137757926 G
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409567 1 -   7948249 G
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314235 1 -  10730278 G
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804952 1 - 128539186 G
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200974 1 +    435186 G
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600647 1 +   9309688 G
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421787 1 -  29834108 G
i saiBol1.JH378123          I 491 C 0
s cebCap1.NW_016107911v1       872291 1 -   1015025 G
i cebCap1.NW_016107911v1    C 0 I 529
s aotNan1.NW_018488218v1      1892047 1 -   2295209 G
i aotNan1.NW_018488218v1    C 0 I 530
s otoGar3.GL873576            4591425 1 -  12054995 G
i otoGar3.GL873576          C 0 I 3
s canFam3.chr27              19744507 1 +  45876710 A
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946614 1 -   1687904 G
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I

a score=40643.000000
s hg38.chr12_GL383549v1_alt    102544 4 +    120804 CAGG
s panTro5.chr12              62794048 4 + 137163284 CAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917850 4 + 135337776 CAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133288 4 -  32808036 CAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323215 4 +  34552619 CAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635891 4 - 133663169 CAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038104 4 - 137757926 CAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409568 4 -   7948249 CAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314236 4 -  10730278 CAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804953 4 - 128539186 CAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200975 4 +    435186 CAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600648 4 +   9309688 CAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421788 4 -  29834108 CAGG
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4591429 4 -  12054995 GAGG
i otoGar3.GL873576          I 3 C 0
s canFam3.chr27              19744508 4 +  45876710 CAGG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             946615 4 -   1687904 AAGG
i dasNov3.JH562883          C 0 I 971
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I
e aotNan1.NW_018488218v1      1892048 530 -   2295209 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I

a score=119416.000000
s hg38.chr12_GL383549v1_alt    102548 17 +    120804 T--GGATGAAGAGTAAGCA
s panTro5.chr12              62794052 17 + 137163284 T--GGATGAAGAGTAAGCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917854 17 + 135337776 T--GGATGAAGAGTAAGCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133292 17 -  32808036 T--GGATGAAGAGTAAGCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323219 17 +  34552619 T--GGATGAAGAGTAAGCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635895 17 - 133663169 C--AGATGCAGAGTAAGCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038108 17 - 137757926 C--GGATGCAGAGTAAGCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409572 17 -   7948249 C--GGATGCAGAGTAAGCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314240 17 -  10730278 C--GGATGCAGAGTAAGCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804957 17 - 128539186 C--GGATGCAGAGTAAGCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200979 17 +    435186 C--GGATGCAGAGTAAGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600652 17 +   9309688 C--GGATGCAGAGTAAGCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421792 17 -  29834108 C--AGATGCAGAGTAAGCA
i saiBol1.JH378123          C 0 C 0
s otoGar3.GL873576            4591433 16 -  12054995 T---GATGCAGTGTAAAAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19744512 19 +  45876710 TGGGGATTTGGAGTAAGGA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I
e aotNan1.NW_018488218v1      1892048 530 -   2295209 I
e dasNov3.JH562883             946619 971 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I

a score=42017.000000
s hg38.chr12_GL383549v1_alt    102565 6 +    120804 AGAGTA
s panTro5.chr12              62794069 6 + 137163284 AGAGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917871 6 + 135337776 AGAGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133309 6 -  32808036 AGAGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323236 6 +  34552619 AGAGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635912 6 - 133663169 AGAGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038125 6 - 137757926 AGAGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409589 6 -   7948249 AGAGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314257 6 -  10730278 AGAGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804974 6 - 128539186 AGAGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       200996 6 +    435186 AGAGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600669 6 +   9309688 AGAGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421809 6 -  29834108 AGAGTA
i saiBol1.JH378123          C 0 C 0
s aotNan1.NW_018488218v1      1892578 6 -   2295209 AGAGTA
i aotNan1.NW_018488218v1    I 530 C 0
s otoGar3.GL873576            4591449 3 -  12054995 AGA---
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19744531 1 +  45876710 --A---
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I
e dasNov3.JH562883             946619 971 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I

a score=324414.000000
s hg38.chr12_GL383549v1_alt    102571 47 +    120804 AATAATGCCCCATGGGCATTTATGCAGGTGCTCTATT--CAGCTCAAAT
s panTro5.chr12              62794075 47 + 137163284 AATAATGCCCCATGGGCATTTATGCAGGTGCTCTATT--CAGCTCAAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917877 47 + 135337776 AATAATGCCCCATGGGCATTTATGCAGGTGCTCTATT--CAGCTCAAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133315 47 -  32808036 AATAATGCCCCATGGGCATTTATGCAGGTGCGCTATT--CAGCTCAAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323242 47 +  34552619 AATAATGCCCCATGGGCATTTATGCAGGTGCTGTATT--CAGCTCAAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635918 47 - 133663169 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038131 47 - 137757926 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409595 47 -   7948249 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314263 47 -  10730278 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGTTCCAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100804980 47 - 128539186 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201002 47 +    435186 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600675 47 +   9309688 AGTAATGCCCCATGGGCATTTCTGCAGGTGCCCTATT--CAGCTCCAAT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1892584 47 -   2295209 AGCAATGCCCCGTGGGCATTGATGCAGGTGCTCTCTT--CAGCTCAAAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4591452 44 -  12054995 -----CAGCCTGTGACCATTTACACAGATGCTCTCTTCCCAGCTCAAAA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19744532 40 +  45876710 ---CATGACCCA--GATAGTTTCACAGATGTTCTGTA--C--CCCAACT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2434934 989 - 149736546 I
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I
e dasNov3.JH562883             946619 971 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=200996.000000
s hg38.chr12_GL383549v1_alt    102618 24 +    120804 GTCCAAATGTCCATGGCCACCTTA
s panTro5.chr12              62794122 24 + 137163284 GTCCAAATGTCCATGGCCACCTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917924 24 + 135337776 GTCCAAATGTCCATGGCCACCTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133362 24 -  32808036 GTCCAAATGTCCATGGCCACCTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323289 24 +  34552619 GTCCAAATGTCCATGGCCACCTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635965 24 - 133663169 GTCCAAATGTCCATGGCCACCTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038178 24 - 137757926 GTCCAAATGTCCATGGCCACCTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409642 24 -   7948249 GTCCAAATGTCCATGGCCACCTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314310 24 -  10730278 GTCCAAATGTCCATGGCCACCTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805027 24 - 128539186 GTCCAAATGTCCATGGCCACCTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201049 24 +    435186 GTCCAAATGTCCATGGCCACCTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600722 24 +   9309688 GTCCAAATGTCCATGGCCACCTTA
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1892631 24 -   2295209 GGACAAATGTCCATGGGCACCTTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4591496 16 -  12054995 GCCAAA--------GGCCATCTCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2435923 24 - 149736546 GTTCACATGCCAAGGGCTATCTCG
i mm10.chr6                 I 989 C 0
s canFam3.chr27              19744572 21 +  45876710 ---CGAACATCTGTGGCCACCTCA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3027305 610 +  31815103 I
e proCoq1.NW_012140524v1      5116684 596 +  13104022 I
e dasNov3.JH562883             946619 971 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=222050.000000
s hg38.chr12_GL383549v1_alt    102642 24 +    120804 GTGTTCCTGC----ACCTGGGCAAGGAA
s panTro5.chr12              62794146 24 + 137163284 GTGTTCCTGC----ACCTGGGCAAGGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917948 24 + 135337776 GTGTTCCTGC----ACCTGGGCAAGGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133386 24 -  32808036 GTGTTCCTGC----ACCTGGGCAAGGAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323313 24 +  34552619 GTGCTCCTGC----ACCTGGGCAAGGAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104635989 24 - 133663169 GTGTTCCTGC----ACCTGGGCAAGGAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038202 24 - 137757926 GTGTTCCTGC----ACCTGGGCAAGGAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409666 24 -   7948249 GTGTTCCTGC----ACCTGGGCAAGGAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314334 24 -  10730278 GTGTTCCTGC----ACCTGGGCAAGGAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805051 24 - 128539186 GTGTTCCTGC----ACCTGCACAAGGAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201073 24 +    435186 GTGTTCCTGC----ACCTGGTCAAGGAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600746 24 +   9309688 GTGTTCCTGC----ACCTGGGCAAGGAA
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1892655 23 -   2295209 GTGTTCCTGC-----CCAGGGCAAGGAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3027915 19 +  31815103 GTGTTCCTGC----ACCTG-----GGCA
i micMur3.chr21             I 610 C 0
s proCoq1.NW_012140524v1      5117280 19 +  13104022 GTGTTCCTGC----ACCTG-----GGCA
i proCoq1.NW_012140524v1    I 596 C 0
s otoGar3.GL873576            4591512 24 -  12054995 GTGCCCCAGG----GCCTGGCCCAGGAA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2435947 23 - 149736546 -GAGTCTTGC----ACCTGAGCAATGCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19744593 28 +  45876710 GTGATGCTGTGTGTGTCTGGGCCAGGAC
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             946619 971 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=4717952.000000
s hg38.chr12_GL383549v1_alt    102666 420 +    120804 AGGTGGCTCTTCTAAGATTGTTCA-TATGTCTT-ATGACT--GGAGC-TCAGACATGGGCTCACGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTGTTACATTTCAAGATAATATTAAAAT-GAAACACTGTTCTCATTGTAGGTTCACCCT---GTCTCTTTTTAATGATGCTGT-AAACTT-AAACAG-AAAAAATGCTCAGCTCTAACTGCAAAATACAACATGGGAGG-GTCAG-TGAATACTGTAAATGTA-TTTTTTAGATGTATTGCTAAAACAGGTCTGTGGGTTTATAAGTTTATTTTACCAACCTTCAGCTTGCTGATACACAGG------------------CCAGAACAGGCCTCAAACTTGGTTGTGCTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGGTGCTCACAAGGTGGGG
s panTro5.chr12              62794170 418 + 137163284 AGGTGGCTCTTCTAAGATTGTTCA-TATGTCTT-ATGAC----GAGC-TCAGACATGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGCCTGTACAAATTTTATAATGTGTTACATTTCAAGATAATATTAAAAT-GAAACACTGTTCTCATTGTAGGTTCACCCT---GTCTCTTTTTAATGATGCTGT-AAACTT-AAACAG-AAAAAATGCTCGGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-TGAATACTGTAAATGTA-TTTTTTAAATGTATTGCTAAAACAGGTCTGTGGGTTTATAAGTTTATTTTACCAACCTTCAGCTTGCTGATATACAGG------------------CCAGAACAGGCCTCAAACTTGGTTCTGCTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGGTGCTCACAAGGTGGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60917972 419 + 135337776 AGATGGCTCTTCTAAGATTGTTCA-TATGTCTT-ATGAC----GAGC-TCAGACATGGGCTCATGATCTGGCGT---AAAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTGTTACATTTCAAGATAATATTAAAAT-GAAACACTGTTCTCATTGTAGGTTCACCCT---GTCTCTTTTTAATGATGCTGT-AAACTT-AAACAG-AAAAAATGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-TGAATACTGTAAATGTA-TTTTTTAAATGTATTGCTAAAACAGGTCTGTGGGTTTATAAGTTTATTTTACCAACCTTCAGCTTGCTGATATACAGG------------------CCAGAACAGGCCTCAAACTTGGTTGTGCTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGGTGCTCACAAGGTGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133410 420 -  32808036 AAGTGGCTCTTCTAAGATTGTTCA-TATGTCTT-ATGACT--GGAGC-TCAGACATGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTGTTACATTTCAAGATAATATTAAAAT-GAAACACTGTTCTCATTGTAGGTTCACCCT---GTCTCTTTTTAATGATGCTGT-AAACTT-AAACAG-AAAAAATGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-TGAATACTGTAAATGTA-TTTTTTAAATGTATTGCTAAAACAGGTCTGTGGGTTTATAAGTTTATTTTACCAACCTTCAGCTTGCTGATATACAGG------------------CCAGAACAGGCCTCAAACTTGGTTGTGCTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGGTGCTCACAAGGTGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323337 420 +  34552619 AGGTGGCTCTTCCAAGATTGTTCA-TATGTCTT-ATGACT--GGAGC-TCAGACATGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATATGTTATATTTCAAGATGATATTAAAAT-GAGACACTGTTCTCATTGTAGGTTCACCCT---GTCTCTTTTTAATGATGGTGT-AAACTT-AAATAG-AAAAAACGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-TGAATACGGTAAATGTA-TTTTTTAAATGTATTGCTAAAACAGGTCTGTGGGTTTATAAGTTTACTTTACCAACCTTCAGCTTGCTGATGTACAGG------------------TCAGAACAGGCCTCAAACTTGGTTCTGCTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGATGCTCACAAGGTGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636013 439 - 133663169 AGGTGGCTCTTCCAAGACTGTTCA-TAGCTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACAT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATATAACACGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTTTATAAGTATATTTTGCCAACCTTCAGCTTGCCGATATAAAGACCAGTTTTGAACAAAATCCCAGAACAGGCCTCAAACTTGGTTCTGCTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038226 439 - 137757926 AGGTGGCTCTTCCAAGACTGTTCA-TAGCTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACAT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATATAACACGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTTTATAAGTATATTTTGCCAACCTTCAGCTTGCCGATATAAAGACCAGTTTTGAACAAAATCCCAGAACAGGCCTCAAACTTGGTTCTGCTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1409690 439 -   7948249 AGGTGGCTCTTCCAAGACTGTTCA-TAGCTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACAT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATATAACACGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTTTATAAGTATATTTTGCCAACCTTCAGCTTGCCGATATAAAGACCAGTTTTGAACAAAATCCCAGAACAGGCCTCAAACTTGGTCCTGCTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314358 439 -  10730278 AGGTGGCTCTTCTAAGACTGTTCA-TAGCTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACAT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTGTATAAGTGTATTTTGCCAACCTTCAGCTTGCCGATATAAAGACCAGTTTTGAACGAAATCCCAGAACAGGCCTCAAACTTGGTTCTGCTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805075 439 - 128539186 AGGTGGCTCTTCTAAGATTGTTCA-TAGCTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAGCAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTTTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACCT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTTTATAAGTTTATTTTGCCAACCTTCAGCTTGCCGATATACAGACCAGCTTTGAACAAAACCCCAGAACAGGCCTCAAACTTGGTTCTACTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201097 439 +    435186 AGGTGGCTCTTCTAAGACTATTCA-TAGCTCTT-AAGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCT---GTCTCTTTTTAATGATGCTGT-AAACAT-AAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATACAACGTGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTTTAAAGGTATTGCTAAAACAGGTCTGTAGGTTTAGAAGTGTATTTTGCCAACCTTCAGCTTGCCGATATAAAGACCAGTTTTGAACAAAATCCCAGAACAGGCCTCAAACTTGGTTCTGCTGTCCC-AAGGAAAGGCACTGCCAACTGCAGGGGCTCTCAAGGTGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3600770 442 +   9309688 AGGTAGCTCTTCTAAGATTGTTCA-TAGCTCTT-GTGACT--GGAGC-TCAGACCTGGGATCATGATCTGGTGT----AAAAATATATAAAACAACACCTT-AGTCTGTACAAATTTTATAATGTATTATATTTCAAGATAATATTAAAATAAAAACACAGTTCTCATTGTAGGTTCCCCCTGTCGTCTCTTTTTAATGATGCTGT-AAACTT-AAATAG-AAAAGATGCTCAGCTCTAGCTGCAAAATACAACATGGGAGG-GTCAG-GGAATACTGTAAATGTA-GTTTATAAAGGTATTGCTAAAACAGGTCTGTAGGTTTATAAGTTTATTTTGCCAACCTTCAGCTTGCCAATATACAGACCAGCTTTGAACAAAACCCCAGAACAGGCCTCAAACTTGGTTCTGCTGTCCC-AAGGAAAGGCGCTGCCAACTGCAGGTGCTCTCAAGGTGGGG
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1892678 435 -   2295209 AGATGGCTCTTCTAAGATTGTTCA-TATGTCTT-ATGACT--GGAGC-TCAGACCTGGGCTCATGATCTGGTGT----AAAAATACATAAAACAACACCTT-AGTCTGTACACATTTTATAATGTATTATACTTCAGGATAACATTTAAATGAAAACA--GTTCTCATTGTAGTTTTACCTC---GTCTCTTTTTAACGATGCTGT-AAACTT-GAATAG-AAAAAATGCTCAGCTCTAGCTGCAAAATATGACATGGGAGG-GTCAG-AGAATACTGTAAATATA-TATTTTACATGTATTGCTAAAATAGATCTGTGGGTTTATAGGTTTATTTTACCAACCTTCAGCCTGCTGATTTACAGAACAACTTTGAACACAACCCCAGAACAGGTCTCAAA-TTGGTCCTGGTTTCCC-AAGGAAAGGTGCTGCCAACTGCAGGTGCTCAC-AGGTGGGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3027934 439 +  31815103 AGGCAGCTCTTCCAAGATTGCTCG-TAAGTCTT-GTGCCT--GGACC-TCCGTCTTGGGCTCATAATCTGGTGT----AAAAATAAATAACACAACACCTT-CGTCTGTACAGATTTTACAATGTGTGATATTTTGAGATAATATTAAAATAAAAACACAGTCCTCGTTGTGGGCTCACCCC---TTCTCTTTTTAATGATGCCAT-AAACTCAAAACAG-AAAACATGCTCAGCCCTGGCTGCAAAATATAAAATGGGAGG-AGTCG-GGAATCCTGTAAATATA--TTGTAAAATGTATTTCTAATACAGGGTCATGGGTTTATGAGTTAATTTTACTAACCTCCAGCTTGCTGACTGACAGGCCGGCTTTGAATTCAGCCCCAGAACAGGCCTCAGACTTGGTTCTGCTTTCCC-AAGGAAAGGTGTTGCCGACTGCAGGTGCTCACAAGGTGGGG
i micMur3.chr21             C 0 I 84
s proCoq1.NW_012140524v1      5117299 438 +  13104022 AGGCAGATCCTCTAAGATTGTTCA-TAAGTCTT-GTGACT--GGACC-TCAGTCTTGGGCTCATAATCTGGTGT----AAAAATAAATAAAACAACACCTT-CATCTGTACAGATTTTATAATGTGTGATATTTTGAGATAATATTAAAATAAAAACACAGTCCTCATTGTGGGTTCAGCCC---TTCTCTTTTTAATGATGCTAT-AAACTC-AAACAG-AAAACATGCTCGGCCCTGGCTGCAAAATATAACATGGGAGG-AGTTA-AGAATCCTATAAATATA--TTTTAAAATGTATTTCTAATACAGGGTCATGGGTTTATGAGTTAATTTTACTAACCTCCAGCTTGCTGACTGACAGACCAGCTTTGAATTCAACCCCAGAACAGGCCTCAGACTTGGTTTTGCTTTCCC-AAGGAAACGTGCTGCCAACTGCAGGTGCTCACAAGGTGGGG
i proCoq1.NW_012140524v1    C 0 I 1437
s otoGar3.GL873576            4591536 442 -  12054995 AGGCAGCTCTTCTAAGATGGTCTGTTAAGTCCT-CTGACTACAGTTC-TCAGTCTTGGGCTCCTAACCTGGTGT----AAAAATAAACAAAACAACACCTT-CATCTGTACAGATTTTATAATGTGTGATATTTCAAGATAATATTAAAATTAAAACACAGTCCTCTTTGTGGGTTCACCCC---TTCTCTTTTTAATGATGCTAT-AAACTT-AAACAGAAAAAAATGCTTGGCCCTAGCTGCAAAATATAAAACAAGAGG-CGTCG-GG-CTCCTGTAAATATG--TATATAAATGTATTCCTGACACAGGTTCATGGGTTTATGAGTTAATTTTACTAAGCTCCAGCCTGCTGATTTACAGACCAGCTTTGAATTCAACCCCAGAACAAACCTCAAACTTGGTTCTGCTTTCCCGAGGGAAAGGTGCTGCCAAGTGCAGGTGCTCACTAGGTGGGG
i otoGar3.GL873576          C 0 I 3
s mm10.chr6                   2435970 395 - 149736546 GGGAAGCTTCCCTGAGCTTGTCCA-AAATGTTT---GACT--GGTGT--------TAGGTTCATAAGCTGCTGGGAAAAAAAACTCATAAAACAGCACATTCAGCCTGTACAAATTTAATAACGTGTCATATTTCAAGGTAATGTTAAGATGAAAATATAGTTTCCATTGTAG------CTT---TACTCTTTTTAATGGGATTAT-AAACCA-AGACAG-ACAAAA-----AGTTCCAACCAGAA--------GTGGGAGG-GGCTGAGGAATCCTGCTAATGCA--GTTTAACATACATTTC------------ATGGATTTACGCATCTGTTTTACCAATCTCCATCCTGCTGACTGACAGACCAGCTCTGAGTGTA-CCCCAGAACTGGG-------GGAGCTCTGC-GTACC-AGGGAATGGTGCTGCCATCCCCACATTCTTGAGAGGTGGGG
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19744621 434 +  45876710 AGGCAGC-CCTCTAAGAC--TTCA-TAAGTCTTTGTGGCT--AGAAC-TCAGTCCTGGGCTCATAATGTAGTGT----GAAAATAAATAAAACAACACCTC-AGTCTGTGGAAATTTAATAATGTGTGatatttaaagataatattaaaataaaaaCACAGTCCTCATTGTGGGTTCACGCT----TCTCTTTTTAATGATACTAT-AAACTT-AAATAG-AAAAAGTGCTCTACCCCAGCTGAAAAATATGAAATGGGTGGAGTCAG-AGAATCCTGTAAATACA-TTTTTAAAATGTGTTTCTAAAACAGGTTCTT-GGTTTATGAGTTTATTTTACCAACCTTCGGCTTGCTGATTTATAGATCAGCTTTGAGCAAA-CCCAAGAACAGGCCTCAAACTTGGCTCTGCTTTCCT-AAGGGAAAGGGCT-TCACCTGCAGGTGCTCACCGGTTGGGG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             947590 436 -   1687904 AGGCAGCTC--CCAAGGTCGTCCC-CACGTCGG-AGTGCA--GGAGCCTCAGGCCTGGGCTCGCCATCGAGCGC----GGAGAGAAGTAAAACGACACCTT-AGTCTGTAGAAATTTAATAACGTGTTATATTTAAAGATGACAATAAAATAAAAACACAGCCCTCATTGTGGGTTCACCCC---TTCTC--TTTAACAGCGCTATAAAACTG-AAATAG-AAAAAGTGCTCTGCCCGAGCTGCAAAGTACGACATGGGCGG-GAGGG-AGAGTGTCCTGTACGTACGTTGTAAAATGTGTGTCTAAAACAGGGTCAT-GATTTATGGGTTTATTTT-CCAACCTTTGGTTCATCGATTTACAGGTCAGCTTTGAGTATAACCCCAAAACCGGCCTCAGACTTGGCTCTGCTTTCTG-AAGGAAAGGTGCTACCAACTGCAGGTGCTCACACGGTGGGG
i dasNov3.JH562883          I 971 C 0
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815   0 -  29834108 C

a score=729072.000000
s hg38.chr12_GL383549v1_alt    103086  91 +    120804 ATGAAA-GGGCCAAGAG-GGAGATCCACTGGGAGAATGGACATAGGGTACAGACTGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAATCCAAAATG--GT
s panTro5.chr12              62794588  91 + 137163284 ATGAAA-GGGCCAAGAG-GGAGATCCACTGGGAGAATGGACTTAGGGTACAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACGACTGAAAATCCAAAATG--GT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918391  91 + 135337776 ATGAAA-GGGCCAAGAG-GGAGATCCACTGGGAGAATGGACTTAGGGTACAGACTGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAATCCAAAATG--GT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133830  91 -  32808036 ATGAAA-GGGCCAAGAG-GGAGATCCACTGGGAGAATGGACTTAGGGTACAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAATCCAAAATG--GT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323757  91 +  34552619 ATGAAA-GGGCCAAAAG-GGAGATCCATTGGGAGAATGGACTTAGGGTACAGACCGAGAATAAA-------------A-------------TT--------------AG------------AAACTATCGAAAATCCAAAATG--GT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636452  91 - 133663169 ATGAAA-GGGCCAAGAG-GGAGATACATGGGGAGAATGGACTTAGGGTATAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038665  91 - 137757926 ATGAAA-GGGCCAAGAG-GGAGATACATGGGGAGAATGGACTTAGGGTATAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1410129  91 -   7948249 ATGAAA-GGGCCAAGAG-GGAGATACATGGGGAGAATGGACTTAGGGTATAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314797  91 -  10730278 ATGAAA-GGGCCAAGAG-GGAGATCCATGGGGAGAATGGACTTAGGGTATAGAGCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805514  91 - 128539186 ATGAAA-GGGCCAAGAG-GGAGATCCAAGGGGAGAATGGACTTAGGGTATAGACTGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201536  91 +    435186 ATGAAA-GGGCCAAGAG-GGAGATCCATGGGGAGAATGGACTTAGGGTATAGACCCAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3601212  91 +   9309688 ATGAAA-GGGCCAAGAG-GGAGATCCACGGGGAGAATGGACTTAGGGTATAGACCGAGAGTAAA-------------A-------------TT--------------AG------------AAACTATTGAAAACCCAAAATG--GT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1893113  93 -   2295209 ATGAAA-GGACCAAGAG-GGAGATCCACTGGGAGAATGAACTTGGGATACACACTGAGAGTAAA-------------A-------------TT--------------AA------------AAACTATCGAAAGCCCAAAATGGTGT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4591981  99 -  12054995 GTG----GGGCTGCGAG-GGAGACCC-CTGGGGCAGTGGGCTTGGCGTGCAGACTGAGAGCAAA-------------G-------------TC--------------AGGGCCCCAGACGAGAACTAGCAGAATCCCCAAATT--AT
i otoGar3.GL873576          I 3 C 0
s mm10.chr6                   2436366  96 - 149736546 GTGAGG-GAGCTTGAGG-AAAGATGCCCTG---------ATTTGAGGTACAGAGTGATAACAAA-------------A-------------TTAAACTCTCTAGATGAG------------AAGCTACTGAAAACCCACAATG--GA
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19745055 105 +  45876710 GTGAAG-GTGATGGGAGTAAAGATTCATTAAGGGAGTTGACATGAGGTACAGATTGATAGTAAA-------------AGTAGATCCCTAATTT--------------AG------------AAATGATTGAAAGTCCCCAATT--AT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             948026 105 -   1687904 -TGAAAGGGGATGTGAGTGAACACCCATTTGGGGAATGGGCATGTGGTATGGATTGAAAATAAATGTAGATACCCAGA-------------TT--------------AG------------GAACTATCAGAAACCCAAAGTT--AT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3028373  84 +  31815103 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815   0 -  29834108 C

a score=302588.000000
s hg38.chr12_GL383549v1_alt    103177 25 +    120804 GGCTTCAAAGAAGGCTGATAAATGT
s panTro5.chr12              62794679 25 + 137163284 GGCTTCAAAGAAGGCTGATAAATGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918482 25 + 135337776 GGCTTCAAAGAAGGCTGATAAATGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133921 25 -  32808036 GGCTTCAAAGAAGGCTGATAAATGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323848 25 +  34552619 GGCTTCAAAGAAGGCTGATAAATGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636543 25 - 133663169 GGCTTCAAAGAAGGCTGGTAAATAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038756 25 - 137757926 GGCTTCAAAGAAGGCTGGTAAATAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1410220 25 -   7948249 GGCTTCAAAGAAGGCTGGTAAATAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314888 25 -  10730278 GGCTTCAAAGAAGGCTGGTAAATAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805605 25 - 128539186 GGCTTCAAAGAAGGCTGGTAAATAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201627 25 +    435186 GGCTTCAAAGAAGGCTGGTAAATAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3601303 25 +   9309688 GGCTTCAAAGAAGGCTGGTAAATAT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1893206 25 -   2295209 GGCTTCAGAGAAGGCTGGTAAATGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3028457 25 +  31815103 GGCTTCAAAGAAGGCTGGGAAATGG
i micMur3.chr21             I 84 C 0
s otoGar3.GL873576            4592080 25 -  12054995 GGCTACAAAGAAAGCTGGGAAATGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2436462 25 - 149736546 GGCTGCAAAGAACTCTGGCAAGTGT
i mm10.chr6                 C 0 I 1043
s canFam3.chr27              19745160 25 +  45876710 GGCTTCAAAGAAGTCTGATAAATGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             948131 25 -   1687904 GGCTTCAAAGAAGGCTGGTAAGTGT
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=209910.000000
s hg38.chr12_GL383549v1_alt    103202 22 +    120804 AATCATTCATTTTCCTTGGTCT
s panTro5.chr12              62794704 22 + 137163284 AATCATTCATTTTCCTTGGTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918507 22 + 135337776 AATCATTCATTTTCCTTGGTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133946 22 -  32808036 AATCATTCATTTTCCTTGGTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323873 22 +  34552619 AATCATTCATTTTCCTTGGTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636568 22 - 133663169 AATCATTCATTTTCCTTGGTCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109038781 22 - 137757926 AATCATTCATTTTCCTTGGTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1410245 22 -   7948249 AATCATTCATTTTCCTTGGTCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8314913 22 -  10730278 AATCATTCATTTTCCTTGGTCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100805630 22 - 128539186 AATCATTCATTTTCCTTGGTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       201652 22 +    435186 AATCATTCATTTTCCTTGGTCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3601328 22 +   9309688 AATCATTCATTTTCCTTGGTCT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1893231 21 -   2295209 AATCATTAA-TTTCCTTGGTGT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3028482 22 +  31815103 ATTCATTCATTTTCTTTGGTCT
i micMur3.chr21             C 0 I 1333
s otoGar3.GL873576            4592105 19 -  12054995 GTGCATTCATTTTCTTTGC---
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19745185 22 +  45876710 GTTCTTTCATTTCCTTTGGTCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             948156 22 -   1687904 ATCCATTTGTTCTCTTTGGTTT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2436487 1043 - 149736546 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=8607.000000
s hg38.chr12_GL383549v1_alt    103224 3 +    120804 T----GA
s panTro5.chr12              62794726 6 + 137163284 TGAC-GA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918529 3 + 135337776 T----GA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133968 3 -  32808036 T----GA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323895 6 +  34552619 TGAA-GA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636590 3 - 133663169 T----GA
i rheMac8.chr11             C 0 I 78
s macFas5.chr11             109038803 3 - 137757926 T----GA
i macFas5.chr11             C 0 I 3
s macNem1.NW_012011422v1      1410267 3 -   7948249 T----GA
i macNem1.NW_012011422v1    C 0 I 78
s cerAty1.NW_011999477v1      8314935 3 -  10730278 T----GA
i cerAty1.NW_011999477v1    C 0 I 78
s chlSab2.chr11             100805652 3 - 128539186 T----GA
i chlSab2.chr11             C 0 I 78
s manLeu1.NW_012101287v1       201674 3 +    435186 T----GA
i manLeu1.NW_012101287v1    C 0 I 78
s colAng1.NW_012114364v1      3601350 3 +   9309688 T----GA
i colAng1.NW_012114364v1    C 0 I 44
s aotNan1.NW_018488218v1      1893252 3 -   2295209 T----GA
i aotNan1.NW_018488218v1    C 0 I 3
s otoGar3.GL873576            4592124 3 -  12054995 T----GA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19745207 3 +  45876710 T----GC
i canFam3.chr27             C 0 I 5
s dasNov3.JH562883             948178 6 -   1687904 -TACAGA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C

a score=23650.000000
s hg38.chr12_GL383549v1_alt    103227 13 +    120804 --CAT--GAGATTTTAA
s panTro5.chr12              62794732 13 + 137163284 --CAT--GAGACTTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918532 13 + 135337776 --CAT--GAGATTTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133971 13 -  32808036 --CAT--GAGACTTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323901 13 +  34552619 --CAT--GAGACTTTAA
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109038809 13 - 137757926 --cat--gagactgtca
i macFas5.chr11             I 3 I 62
s aotNan1.NW_018488218v1      1893258 13 -   2295209 --CAT--GAGACTTTAT
i aotNan1.NW_018488218v1    I 3 I 7
s otoGar3.GL873576            4592127 15 -  12054995 --TATCAGAGACTTTGT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19745215 13 +  45876710 --CAG--GAGACTTTCT
i canFam3.chr27             I 5 I 7
s dasNov3.JH562883             948184 14 -   1687904 CATAC--AAGTCTTGA-
i dasNov3.JH562883          C 0 I 8
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C
e colAng1.NW_012114364v1      3601353 44 +   9309688 I
e manLeu1.NW_012101287v1       201677 78 +    435186 I
e chlSab2.chr11             100805655 78 - 128539186 I
e cerAty1.NW_011999477v1      8314938 78 -  10730278 I
e macNem1.NW_012011422v1      1410270 78 -   7948249 I
e rheMac8.chr11             104636593 78 - 133663169 I

a score=234901.000000
s hg38.chr12_GL383549v1_alt    103240 30 +    120804 ATGTCATAAAT-ATTATAAACCCTGACCTCC
s panTro5.chr12              62794745 30 + 137163284 ATGTCATAAAT-ATTATAAACCCTGACCTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918545 30 + 135337776 ATGTCATAAAT-ATTATAAACCCTGACCTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3133984 30 -  32808036 ATGTCATAAAT-ATTATAAACCCTGACCTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323914 25 +  34552619 CTGTCATAAAT-ATTACAA-----GAACTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104636671 30 - 133663169 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i rheMac8.chr11             I 78 C 0
s macFas5.chr11             109038884 30 - 137757926 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i macFas5.chr11             I 62 C 0
s macNem1.NW_012011422v1      1410348 30 -   7948249 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i macNem1.NW_012011422v1    I 78 C 0
s cerAty1.NW_011999477v1      8315016 30 -  10730278 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i cerAty1.NW_011999477v1    I 78 C 0
s chlSab2.chr11             100805733 30 - 128539186 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i chlSab2.chr11             I 78 C 0
s manLeu1.NW_012101287v1       201755 30 +    435186 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i manLeu1.NW_012101287v1    I 78 C 0
s colAng1.NW_012114364v1      3601397 30 +   9309688 ATGTCATAAAT-ATTACAAACCCTGACCTCC
i colAng1.NW_012114364v1    I 44 C 0
s aotNan1.NW_018488218v1      1893278 30 -   2295209 ATATCATAAAT-ATTACAAACCTTGACCTCC
i aotNan1.NW_018488218v1    I 7 C 0
s otoGar3.GL873576            4592142 31 -  12054995 GGTTAATATATCACTGCAATCCCTTCCTTCC
i otoGar3.GL873576          C 0 I 1002
s canFam3.chr27              19745235 30 +  45876710 CTGTCATGGGT-ATTATGAAGCCTGGCCTCT
i canFam3.chr27             I 7 C 0
s dasNov3.JH562883             948206 30 -   1687904 ATGTCACAGGT-AGTATTAAGCCTGACCTTG
i dasNov3.JH562883          I 8 C 0
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=276320.000000
s hg38.chr12_GL383549v1_alt    103270 35 +    120804 CTCTCTTACATGAACTCA-TCAACATCTGCATTGTA
s panTro5.chr12              62794775 35 + 137163284 CTCTCTTACATGAACTCG-TCAACATCTGCATTGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918575 35 + 135337776 CTCTCTTACATGAACTCA-TCAACATCTGCATTGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134014 35 -  32808036 CTCTCTTACATGAACTCA-TCAACATCTGCACTGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7323939 35 +  34552619 CTCTCTTACAAGAACTCG-TCAATGTCTGCATTGTA
i nomLeu3.chr23             C 0 I 1126
s rheMac8.chr11             104636701 36 - 133663169 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i rheMac8.chr11             C 0 I 1088
s macFas5.chr11             109038914 36 - 137757926 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i macFas5.chr11             C 0 I 1088
s macNem1.NW_012011422v1      1410378 36 -   7948249 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i macNem1.NW_012011422v1    C 0 I 1083
s cerAty1.NW_011999477v1      8315046 36 -  10730278 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i cerAty1.NW_011999477v1    C 0 I 1034
s chlSab2.chr11             100805763 36 - 128539186 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i chlSab2.chr11             C 0 I 1102
s manLeu1.NW_012101287v1       201785 36 +    435186 CTTTCTTACATGAACTCAGTCAACATCTGCATTGTA
i manLeu1.NW_012101287v1    C 0 I 1086
s colAng1.NW_012114364v1      3601427 36 +   9309688 CTTTCTTATATGAACTCAGTCAACATCTGCATTGTA
i colAng1.NW_012114364v1    C 0 I 1442
s aotNan1.NW_018488218v1      1893308 36 -   2295209 CGCTCTTACATGAACTCAGTCAACATCTGCATTGTA
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19745265 36 +  45876710 CTCTCTTTCGTGGACTCAGTCAACATCTTCATTGTA
i canFam3.chr27             C 0 I 878
s dasNov3.JH562883             948236 34 -   1687904 --TTCTTTCTTAAAATCAGCCAACATCTATACTGTA
i dasNov3.JH562883          C 0 I 963
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=1910.000000
s hg38.chr12_GL383549v1_alt    103305 2 +    120804 GA
s panTro5.chr12              62794810 2 + 137163284 GA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918610 2 + 135337776 GA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134049 2 -  32808036 GA
i gorGor5.CYUI01000003v1    C 0 C 0
s aotNan1.NW_018488218v1      1893344 2 -   2295209 GA
i aotNan1.NW_018488218v1    C 0 I 994
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e canFam3.chr27              19745301 878 +  45876710 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e nomLeu3.chr23               7323974 1126 +  34552619 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C
e colAng1.NW_012114364v1      3601463 1442 +   9309688 I
e manLeu1.NW_012101287v1       201821 1086 +    435186 I
e chlSab2.chr11             100805799 1102 - 128539186 I
e cerAty1.NW_011999477v1      8315082 1034 -  10730278 I
e macNem1.NW_012011422v1      1410414 1083 -   7948249 I
e macFas5.chr11             109038950 1088 - 137757926 I
e rheMac8.chr11             104636737 1088 - 133663169 I

a score=546.000000
s hg38.chr12_GL383549v1_alt    103307 1 +    120804 T
s panTro5.chr12              62794812 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918612 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134051 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e canFam3.chr27              19745301 878 +  45876710 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e aotNan1.NW_018488218v1      1893346 994 -   2295209 I
e nomLeu3.chr23               7323974 1126 +  34552619 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C
e colAng1.NW_012114364v1      3601463 1442 +   9309688 I
e manLeu1.NW_012101287v1       201821 1086 +    435186 I
e chlSab2.chr11             100805799 1102 - 128539186 I
e cerAty1.NW_011999477v1      8315082 1034 -  10730278 I
e macNem1.NW_012011422v1      1410414 1083 -   7948249 I
e macFas5.chr11             109038950 1088 - 137757926 I
e rheMac8.chr11             104636737 1088 - 133663169 I

a score=8647.000000
s hg38.chr12_GL383549v1_alt    103308 20 +    120804 TCTCTAATCTTCTAATTTAA
s panTro5.chr12              62794813 20 + 137163284 TCTCTAATCTTCTAATTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918613 20 + 135337776 TCTCTAATCTTCTAATTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134052 15 -  32808036 TCTCTAATCTTC-----TAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325100 16 +  34552619 TCTCTAGTCTCTAAAC----
i nomLeu3.chr23             I 1126 C 0
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e canFam3.chr27              19745301 878 +  45876710 I
e proCoq1.NW_012140524v1      5117737 1437 +  13104022 I
e aotNan1.NW_018488218v1      1893346 994 -   2295209 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C
e colAng1.NW_012114364v1      3601463 1442 +   9309688 I
e manLeu1.NW_012101287v1       201821 1086 +    435186 I
e chlSab2.chr11             100805799 1102 - 128539186 I
e cerAty1.NW_011999477v1      8315082 1034 -  10730278 I
e macNem1.NW_012011422v1      1410414 1083 -   7948249 I
e macFas5.chr11             109038950 1088 - 137757926 I
e rheMac8.chr11             104636737 1088 - 133663169 I

a score=755.000000
s hg38.chr12_GL383549v1_alt    103328 1 +    120804 T
s panTro5.chr12              62794833 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918633 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134067 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325116 1 +  34552619 C
i nomLeu3.chr23             C 0 C 0
s proCoq1.NW_012140524v1      5119174 1 +  13104022 T
i proCoq1.NW_012140524v1    I 1437 C 0
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e micMur3.chr21               3028504 1333 +  31815103 I
e canFam3.chr27              19745301 878 +  45876710 I
e aotNan1.NW_018488218v1      1893346 994 -   2295209 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C
e colAng1.NW_012114364v1      3601463 1442 +   9309688 I
e manLeu1.NW_012101287v1       201821 1086 +    435186 I
e chlSab2.chr11             100805799 1102 - 128539186 I
e cerAty1.NW_011999477v1      8315082 1034 -  10730278 I
e macNem1.NW_012011422v1      1410414 1083 -   7948249 I
e macFas5.chr11             109038950 1088 - 137757926 I
e rheMac8.chr11             104636737 1088 - 133663169 I

a score=9555.000000
s hg38.chr12_GL383549v1_alt    103329 1 +    120804 T
s panTro5.chr12              62794834 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918634 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134068 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325117 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637825 1 - 133663169 T
i rheMac8.chr11             I 1088 C 0
s macFas5.chr11             109040038 1 - 137757926 T
i macFas5.chr11             I 1088 C 0
s macNem1.NW_012011422v1      1411497 1 -   7948249 T
i macNem1.NW_012011422v1    I 1083 C 0
s cerAty1.NW_011999477v1      8316116 1 -  10730278 T
i cerAty1.NW_011999477v1    I 1034 C 0
s chlSab2.chr11             100806901 1 - 128539186 T
i chlSab2.chr11             I 1102 C 0
s manLeu1.NW_012101287v1       202907 1 +    435186 T
i manLeu1.NW_012101287v1    I 1086 C 0
s colAng1.NW_012114364v1      3602905 1 +   9309688 T
i colAng1.NW_012114364v1    I 1442 C 0
s aotNan1.NW_018488218v1      1894340 1 -   2295209 T
i aotNan1.NW_018488218v1    I 994 C 0
s micMur3.chr21               3029837 1 +  31815103 T
i micMur3.chr21             I 1333 C 0
s proCoq1.NW_012140524v1      5119175 1 +  13104022 T
i proCoq1.NW_012140524v1    C 0 C 0
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e canFam3.chr27              19745301 878 +  45876710 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C

a score=22920.000000
s hg38.chr12_GL383549v1_alt    103330 2 +    120804 TG
s panTro5.chr12              62794835 2 + 137163284 TG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918635 2 + 135337776 TG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134069 2 -  32808036 TG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325118 2 +  34552619 TG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637826 2 - 133663169 TG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040039 2 - 137757926 TG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411498 2 -   7948249 TG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316117 2 -  10730278 TG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100806902 2 - 128539186 TG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       202908 2 +    435186 TG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3602906 2 +   9309688 TG
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894341 2 -   2295209 TG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3029838 2 +  31815103 TG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5119176 2 +  13104022 TG
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19746179 2 +  45876710 TG
i canFam3.chr27             I 878 C 0
e otoGar3.GL873576            4592173 1002 -  12054995 I
e mm10.chr6                   2436487 1043 - 149736546 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C

a score=343869.000000
s hg38.chr12_GL383549v1_alt    103332 30 +    120804 TTATTCTCTAATCTAACCCAGAACATTAAA
s panTro5.chr12              62794837 30 + 137163284 TTATTCTCTAATCTAACCCAGAACATTAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918637 30 + 135337776 TTATTCTCTAATCTAACCCAGAACATTAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134071 25 -  32808036 TTATTC-----TCTAACCCAGAACATTAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325120 30 +  34552619 TTATTCTCTAATCTAACCCAGAACATTAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637828 30 - 133663169 TTATTCTCTAATCTAACCCAGAACATTAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040041 30 - 137757926 TTATTCTCTAATCTAACCCAGAACATTAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411500 30 -   7948249 TTATTCTCTAATCTAACCCAGAACATTAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316119 30 -  10730278 TTATTCTCTAATCTAACCCAGAACATTAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100806904 30 - 128539186 TTATTCTCTAATCTAACCCAGAACATTAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       202910 30 +    435186 TTATTCTCTAATCTAACCCAGAACATTAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3602908 30 +   9309688 TTATTCTTTAATCTAACCCAGAACATTAAA
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894343 30 -   2295209 TTATTCTCTAATCTAACCCAGAACATTAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3029840 30 +  31815103 TCATTCTCTAATCTGATCCAGAACATTAAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5119178 30 +  13104022 TTATCCTCTAATCTAACCCAGAACATTAAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4593175 30 -  12054995 TTATTCTCTAATCTAACCCAGAATATTAAA
i otoGar3.GL873576          I 1002 C 0
s canFam3.chr27              19746181 30 +  45876710 TTGTTCCATAATCTAACCTAGAACATTAAA
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2436487 1043 - 149736546 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=231925.000000
s hg38.chr12_GL383549v1_alt    103362 18 +    120804 ATGGAACCTTTTGCCTTT
s panTro5.chr12              62794867 18 + 137163284 ATGGAACCTTTTGCCTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918667 18 + 135337776 ATGGAACCTTTTGCCTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134096 18 -  32808036 ATGGAACCTTTTGCCTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325150 18 +  34552619 ATGGAACCTTTTGCCTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637858 18 - 133663169 ATGGAACCTTTTGCCTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040071 18 - 137757926 ATGGAACCTTTGGCCTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411530 18 -   7948249 ATGGAAACTTTTGCCTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316149 18 -  10730278 ATGGAACCTTTTGCCTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100806934 18 - 128539186 ATGGAACCTTTTGCCCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       202940 18 +    435186 ATGGAACCTTTTGCCTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3602938 18 +   9309688 ATGGAACCTTTTGCCTTT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894373 18 -   2295209 ATGAAACCTTTTGCCTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3029870 18 +  31815103 ATGGAACCTTTTGCTTTT
i micMur3.chr21             C 0 I 207
s proCoq1.NW_012140524v1      5119208 18 +  13104022 ATGGAACCTTTTGCTTTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4593205 18 -  12054995 ATGGAAACTTTTGCCTTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2437530 18 - 149736546 ATGGAAGCTTTTGCCTTC
i mm10.chr6                 I 1043 C 0
s canFam3.chr27              19746211 18 +  45876710 ATGAAACCTTTTGTCTTT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=232574.000000
s hg38.chr12_GL383549v1_alt    103380 27 +    120804 AGATGCATAAATAAAAAGCTTTCAACT
s panTro5.chr12              62794885 27 + 137163284 AGATGCATAAATAAAAAGCTTTCAACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918685 27 + 135337776 AGATGCATAAATAAAAAGCTTTCAACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134114 27 -  32808036 AGGTGCATAAATAAAAAGCTTTCAACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325168 27 +  34552619 AGAAGCATAAATAAAAAGCTTTCAACT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637876 27 - 133663169 AGAAGCATAAATAAGAAGCTTTCAACT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040089 27 - 137757926 AGAAGAATAAATAAGAAGCTTTCAACT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411548 27 -   7948249 AGAAGCATAAATAAGAAGCTTTCAACT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316167 27 -  10730278 AGAAGCATAAATAAGAAGCTTTCAACT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100806952 27 - 128539186 AGAAGCATAAATAAGAAGCTTTCAACT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       202958 27 +    435186 AGAAGCATAAATAAGAAGCTTTCAACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3602956 27 +   9309688 AGAAGCGTAAGTAAGAAGCTTTCAACT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894391 27 -   2295209 AGAATCATAAATAAAAAAGTTCCCACT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5119226 27 +  13104022 AAAAGCATAAAAGAGAAGCTTCCCACC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4593223 27 -  12054995 GAAAGGATAAAAGAGAAACTTCCCATC
i otoGar3.GL873576          C 0 I 228
s mm10.chr6                   2437548 27 - 149736546 ATAAGGATGAATAAGACACTTCCTGCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19746229 27 +  45876710 AGAAGGATAAATCAGAAGCATCTTACT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3029888 207 +  31815103 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=1197249.000000
s hg38.chr12_GL383549v1_alt    103407 136 +    120804 ACCCAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--AAA-AAT--TGGGAGAATGATACTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTACAAGAAAGATCATTGGATTTAGTAAAA
s panTro5.chr12              62794912 136 + 137163284 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--AAA-AAT--TGGGAGAATGACACTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTACAAGAAAGATCATTGGATTTAGTAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918712 136 + 135337776 ACCCAGAGAG-AA-----------------GAAAATTTTTCCGTACTCCCTGGGGACTG--AAA-AAT--TGGGAGAATGATACTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTACAAGAAAGATCATTGGATTTAGTAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134141 136 -  32808036 ACCCAGAAAG-AA-----------------GAAAAATTTTCCATACTCCCTGGGGACTG--AAA-AAT--TGGGAGAATGATACTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTACAAGAAAGATCATCGGATTTAGTAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325195 136 +  34552619 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--AAA-AAT--TGGGAGAATGATACTCTGATGATAGACCCTCTTCTTGTTCTTCACAAATCATTATATAATTACAAGAAAGATCATTGGATTTAGTAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104637903 137 - 133663169 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG-AAAA-AAA--TGAAAGAATGATACACTGATGATACGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTATAAGAAAGATCATTGGATTTATTAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040116 127 - 137757926 ACCTAGACAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTGAAAAA-AAA--TGAAAGA-----------ATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTGTATAATTATAAGAAAGATCATTGGATTTATTAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411575 137 -   7948249 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG-AAAA-AAA--TGAAAGAATGATACACTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTATAAGAAAGATCATTGGATTTATTAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316194 136 -  10730278 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--GAA-AAA--TGAGAGAATGATATTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTATAAGAAAGATCATTGGATTTATTAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100806979 136 - 128539186 ACCTAGAGAG-AA-----------------GAAAAATTTTCCATACTCCCTGGGGACTG--AAA-AAA--TGAGAGAATGATATTCTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTATAAGAAAGATCATTGGATTTATTAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       202985 136 +    435186 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--GAA-AAA--TGAAAGAATGATACACTGATGATAGGCCCTCTTCTTGTTCTTCACAAATCATTATATAATTATAAGAAAGATCACTGGATTTATTAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3602983 136 +   9309688 ACCTAGAGAG-AA-----------------GAAAATTTTTCCATACTCCCTGGGGACTG--AAA-AAA--TGAGAGAATGATACTCTGATGATAGGCCCTCTTCTTGTTCTTCACGAATCATTATATAATTATAAGAAAGATCACTGGATTTATTAAAA
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894418 121 -   2295209 ACCTAGAGGG-AA-----------------GAAAATTTGTCCATACTCCCTGGGGATTG--GAA-AAA--TGGGAGAATGCTA---------------CTCTTCTTGCTCTTCACAAATCATTATATAATTTTAAGAAAGATCATAGGATTTAGTAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5119253 138 +  13104022 GTTTGGAGAG-AA-----------------GAAAGATTTTCCCTACTCCCTGGGGACTA--AAA-ACAATTGAGAGAATGATATTCTGATTACAGACACTCTTCTCATTCCTCAAAAACCATAATACAATTGTAGGAAAGATCATGGAATTTAGTGaaa
i proCoq1.NW_012140524v1    C 0 I 26
s otoGar3.GL873576            4593478 137 -  12054995 ACCTAGAGAGAAA-----------------AAAAGCTTTTCTCTACTCCCTAGGGACTG--AAA-AGA--TGAGAAGATGATATTCTGATTACAGAAACTCTTCTCGTTCCTCAAAAATCATAATACAATTACAGGAATGATCCTGGGATTTAGTAAAA
i otoGar3.GL873576          I 228 I 12
s mm10.chr6                   2437575 146 - 149736546 ATCCaaaaaa-aaaaaaaaaaaaaaaaaaggaaaGTTTGTCTTTACTCTCT-GAGACTG--AAGCAAA--TGGGAAACAAGTACTCTGATTATAGA-------CTTGTGTTTCCAAACATAGTCTCGACTTAGAAGGAGAATCATGAGATTTAACAAGA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19746256 133 +  45876710 ATCTAGAGAC-AA-----------------GAAGGCTTTTCTCTACTCCCTGAGGACTG--AAA-ATT-TTGGGAGGATGATACTCTGAATATAGACTCTCTTCCTATTCCTCAAAAATCATTATAGAATTACAAG----ATCATAGGAATTAGTAAAA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3029888 207 +  31815103 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815   0 -  29834108 C

a score=16693.000000
s hg38.chr12_GL383549v1_alt    103543 3 +    120804 GGC--
s panTro5.chr12              62795048 3 + 137163284 GGC--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918848 3 + 135337776 GGC--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134277 3 -  32808036 GGC--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325331 3 +  34552619 GGC--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638040 3 - 133663169 GGC--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040243 3 - 137757926 GGC--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411712 3 -   7948249 GGC--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316330 3 -  10730278 GGC--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807115 3 - 128539186 GGC--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203121 3 +    435186 GGC--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603119 3 +   9309688 GGC--
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894539 3 -   2295209 GGC--
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4593627 3 -  12054995 AAT--
i otoGar3.GL873576          I 12 C 0
s mm10.chr6                   2437721 3 - 149736546 GTC--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19746389 3 +  45876710 --CAA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3029888 207 +  31815103 I
e proCoq1.NW_012140524v1      5119391 26 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C

a score=170293.000000
s hg38.chr12_GL383549v1_alt    103546 24 +    120804 CATTTTCAACCTG----------CTCAGTGGTCT
s panTro5.chr12              62795051 24 + 137163284 CATTTTCAACCTG----------CTCAGTGGTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918851 24 + 135337776 CATTTTCAACCTG----------CTCAGTGGTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134280 24 -  32808036 CATTTTCAACCTG----------CTCAGTGGTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325334 24 +  34552619 CATTTTCAATCTG----------CTCAGTGGTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638043 24 - 133663169 CATTTTCAACCTG----------CTCAGTCATCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040246 24 - 137757926 CATTTTCAACCTG----------CTCAGTCATCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411715 24 -   7948249 CATTTTCAATCTG----------CTCAGTCATCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316333 24 -  10730278 CATTTTCAACCTG----------CTCAGTCATCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807118 24 - 128539186 CGTTTTCAACCTG----------CTCAGTCATCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203124 24 +    435186 CATTTTCAACCTG----------CTCAGTCATCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603122 24 +   9309688 CATTTTCAACCTG----------CTCAGTCATCT
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894542 24 -   2295209 CATTTTCAACCTG----------CTCAATGGTCT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5119417 24 +  13104022 caTTTTCAACCTG----------CTCGATGGCCC
i proCoq1.NW_012140524v1    I 26 C 0
s otoGar3.GL873576            4593630 34 -  12054995 CACTGTCGATCAGCAGATTGGCCCTGGATGGCCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2437724 24 - 149736546 CACCACCATCCTG----------CTGGGTGGCCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19746392  7 +  45876710 TACTTCC---------------------------
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3029888 207 +  31815103 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=457359.000000
s hg38.chr12_GL383549v1_alt    103570 44 +    120804 TGCAAAAGGCCAGAATGTGAAGGTCTGGTACTCAGATTAAAATG
s panTro5.chr12              62795075 44 + 137163284 TGCAAAAGGCCAGAATGTGAAGGTCTGGTACTCAGATTGAAATG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918875 44 + 135337776 TGCAAAAGGCCAGAATGTGAAGGTCTGGTACTCAGATTAAAATG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134304 44 -  32808036 TGCAAAAGGCCAGAATGTGAAGGTCTGGTACTCAGATTAAAATG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325358 44 +  34552619 TGCAAAATGCCAGAATGTGAAGGTCTGGTACTCAGATTAAAATG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638067 43 - 133663169 T-CAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040270 44 - 137757926 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411739 44 -   7948249 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316357 44 -  10730278 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807142 44 - 128539186 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203148 44 +    435186 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603146 44 +   9309688 TGCAAAATGCCAGAATGTGAAGGTCCTGTACTCAGATTAAAATG
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894566 37 -   2295209 TGCAAAATGCCAGACTGTGAAGGTCTGGTACTCAGAT-------
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3030095 44 +  31815103 TGCAAAATGCCAGAATGTAAAGGTTCGGTCCTCAGATTAAAATG
i micMur3.chr21             I 207 I 1048
s proCoq1.NW_012140524v1      5119441 44 +  13104022 TGCAAAATGCCGGAATGTAAAGGTTTGGTACTCAGATTAAAATG
i proCoq1.NW_012140524v1    C 0 I 762
s otoGar3.GL873576            4593664 43 -  12054995 TGCAAAATGCCA-AATGTAAAGATTTGACACTCAGATCAAAATG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2437748 43 - 149736546 TATGAGACACCTGGGTGTCAAGGT-TGGCACTCAGCTTAACACA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19746399 38 +  45876710 ------ATGCTAGAAAGTAAAGGTTTGGTAATCAGATCAAAATG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=279280.000000
s hg38.chr12_GL383549v1_alt    103614 35 +    120804 TGAGCCAATCTA-TCTAAAATAAAAATCATAAGCCC
s panTro5.chr12              62795119 35 + 137163284 TGAGCCAATCTA-TCTAAAATAAAAATCATAAGCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918919 35 + 135337776 TGAGCCAATCTA-TCTAAAATAAAAATCATAAGCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134348 35 -  32808036 TGAGCCAATCTA-TCTAAAATAAAAATCATAAGCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325402 35 +  34552619 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638110 35 - 133663169 TGAGCCAATCTA-CCTAAAATAAAAATCACAAGCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040314 35 - 137757926 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411783 35 -   7948249 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316401 35 -  10730278 TGAGCCAATCTA-CCTAAAATAAAAATCATGAGCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807186 35 - 128539186 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203192 35 +    435186 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603190 35 +   9309688 TGAGCCAATCTA-CCTAAAATAAAAATCATAAGCCC
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894603 18 -   2295209 ---------------TAAAATAAAAAT---AAGCCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4593707 35 -  12054995 TGAGCCTTTCTA-CTCAAAATGAAACTCCTAAGCCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2437791 35 - 149736546 TGAGCCAGTCTA-CTTAAAGCCAAGAGCTTACACCC
i mm10.chr6                 C 0 I 99
s canFam3.chr27              19746437 36 +  45876710 TGAGCCAATCCACCCTAACACAACAATTTTGAGTCC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815  0 -  29834108 C

a score=74418.000000
s hg38.chr12_GL383549v1_alt    103649 9 +    120804 TGCTAGGGG
s panTro5.chr12              62795154 9 + 137163284 TGCTAGGGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918954 9 + 135337776 TGCTAGGGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134383 9 -  32808036 TGCTAGGGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325437 9 +  34552619 TGCTAGGGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638145 9 - 133663169 TGCTAGGGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040349 9 - 137757926 TGCTAGGGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411818 9 -   7948249 TGCTAGGGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316436 9 -  10730278 TGCTAGGGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807221 9 - 128539186 TGCTAGGGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203227 9 +    435186 TGCTAGGGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603225 9 +   9309688 TGCTAGGGG
i colAng1.NW_012114364v1    C 0 C 0
s aotNan1.NW_018488218v1      1894621 9 -   2295209 TGCTAGGGG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4593742 8 -  12054995 TGCTGGAG-
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19746473 9 +  45876710 TGATGGGAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2437826 99 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I
e cebCap1.NW_016107911v1       872292 529 -   1015025 I
e saiBol1.JH378123           11421815 0 -  29834108 C

a score=363537.000000
s hg38.chr12_GL383549v1_alt    103658 35 +    120804 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
s panTro5.chr12              62795163 35 + 137163284 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918963 35 + 135337776 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134392 35 -  32808036 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325446 35 +  34552619 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638154 35 - 133663169 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040358 35 - 137757926 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411827 35 -   7948249 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316445 35 -  10730278 AGAC-CTTTTTTGGTCCTCCTTGTGATTCCATATAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807230 35 - 128539186 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATGTAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203236 35 +    435186 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603234 35 +   9309688 AGAC-CTTTTTTTGTCCTCCTTGTGATTCCATATAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421815 35 -  29834108 AGAC-CTTTGTTTGCCCTCCTAGTGATTCCATGTAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872821 35 -   1015025 AGAC-CTTTGTTTGCCCTCCTAGTGATTCCATGTAG
i cebCap1.NW_016107911v1    I 529 C 0
s aotNan1.NW_018488218v1      1894630 35 -   2295209 AGAC-CTTTGTGTGCCCTCCTAGTGATTCCATGTAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4593750 33 -  12054995 AGAC-C--TATTTGCTCTCCTGGAGACTCTGCATAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19746482 36 +  45876710 GGATGCTCATTTTGCCCTCCTTGTGATTTCATGTAG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2437826 99 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=4101243.000000
s hg38.chr12_GL383549v1_alt    103693 431 +    120804 AGAACCCTCAGTGG--ACACCATTCCCAACAGCTTCCCTGCTTACCCACA--------------CTTCTGCTCCCAAACCCTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctaccctggcagcctgcaggcttccaaactg-cccaccgcac------ttggggc-taggcagccacctgtctcattcag-----ggg-----tgggagcaagcccatttagccacatatccgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtcGTG-TTTTGTTTAAGCAGAGAAAGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGGTCATTCCGTTATTCCATTC-------AGAAT------TACTAAGCATTTCCAG
s panTro5.chr12              62795198 432 + 137163284 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTTACCCACA--------------CTTCTGCTCCCAAACCTTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctaccctggcagcctgtgggcttccaaactgtcccaccgcac------ttggggc-taggcagccacctgtctcattcag-----ggg-----tgggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtgtcctttgtcGTG-TTTTGTTTAAGCAGAGAAAGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGGTCATTCCGTTATTCCATTC-------AGAAT------TACTaagcatttccag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60918998 432 + 135337776 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTTACCCACA--------------CTTCTGATCCCAAACCCTGCAAGCTTATC-------CTGttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctaccctggcagcctgcgggcttccaaactgtcccaccgcac------ttggggc-taggcagccacctgtctcattcag-----ggg-----tgggagcaagcccatttagccacatatccaaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtcGTG-TTTTGTTTAAGCAGAGAAAGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGGTCATTCCGTTATTCCATTC-------AGAAT------TACTaagcatttccag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134427 431 -  32808036 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTTACCCACA--------------CTTCTGCTCCCAAACCCTGCAAGCTTCTC-------CTGTTGGATCTGctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccctctaccctggcagcctgc-ggcttccaaaccgtcccaccgcac------ttggggc-taggcagccacctgtctcattcag-----ggg-----tgggagcaagcccgtttagccacatatctgaagctacgttctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtcATG-TTTTGTTTAAGCAGAGAAAGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGGTCGTTCCGTTATTCCATTC-------AGAAT------TACTaagcatttccag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325481 431 +  34552619 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACCCTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgcttttcattgtgcatt-gctaagtggggcaggt--ccccttaccctggcagcctgcgggcttccaaactgtcctacagcac------ttggggc-taggcagccacctgtctcattcag-----ggg-----tgggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtcGTG-TTTTGTTTAAGCAGAGAAAGAGAGAAAAGAGTTGGGGAGAAAAAAGGACTAACTAAAAGAGGTCATTCCGTTATTCCATTC-------AGAAT------TACTAAGCATTTCCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638189 427 - 133663169 AGAACCGTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACTCTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctactcttcattgtgcattggctaagtggggcaggt--ccccctacattggcagcctgcaggcttccaaactgtcccatagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctaaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtGGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTaagtatttccag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040393 427 - 137757926 AGAACCGTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACGCTGCAAGCTTCTC-------CTGTTGATTCTGctgcctacagagaggatctgttctactcttcattgtgcattggctaagtggggcaggt--ccccctacattggcagcctgcaggcttccaaactgtcccatagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtGGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTAAGTATTTCCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1411862 427 -   7948249 AGAACCGTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACGCTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctactcttcattgtgcattggctaagtggggcaggt--ccccctacattggcagcctgcaggcttccaaactatcccatagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtGGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTaagtatttccag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316480 427 -  10730278 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTTCCTGCTCACCCACA--------------CTTCTGCTCCCAAACGCTGCAGGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctacagtggtagcctgcaggcttgcaaactgtcccatagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcctttgtcGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTAAGTATTTCAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807265 427 - 128539186 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACGCTGCAAGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctacattggcagcctacaggcttccaaactgtcccacagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcatttgtct-catctcttagtctcctttgtcATG-TTTT-TTTAAGCAG----AGAGAGAAGAGAGTGGGGGAGAAAGGAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTAAGTATTTCAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203271 427 +    435186 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTCACCCACA--------------CTTCTGCTCCCAAACGCTGCAGGcttctc-------ctgttggatctgctgcctacagagaggatctgttctgctcttcattgtgcattagctaagtggggcaggt--ccccctacattggtagcctgcaggtttccaaactgtcccatagcac------ttggggc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcctaccagcttatcaggagtaaggctggcgtttgtct-catctctcagtctcctttgtcGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTAGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAAT------TACTAAGTATTTCAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603269 427 +   9309688 AGAACCCTCACTGG--ACACCACTCCCAACAGCTTCCCTGCTGACCCACA--------------CTTCTGCTCCCAAACGCTGCAAGcttctc-------ctattggatctgctgcctacagacaggatctgttctgctcttcattgtgcattggctaagtggggcaggt--ccccctacatcggtagcctgcaggcttccaaactgtcccacagcac------ttggagc-taggcagccacctgtctcattcag-----gga-----taggagcaagcccatttagccacatatctgaagccacattctcttaccagcttatcaggagtaaggctggcatttgtct-catctctcagtctcttttgtcGTG-TTTT-TTTAAGCAG----AGAGAGAAAAGAGTGGGGGAGAAAAAAGGACTAACTAAGAGAGATCATTCCGTTATTCCATTC-------AGAGT------TACTaagtatttccag
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11421850 425 -  29834108 AGGTCCCTCACTGG--ACA-----CCAAAGAGGTTCCCTGCCCACCCACA--------------CTTCTGCTCTCAAACCCTGTAAGcttctc-------ctgttggatctgccagctacagagaggatccattctgctcttcattgtgcatcggctaagtggatcaggt--ccccctacactggcagcctacaggcttccaaactgtcccacagcac------ttggggc-taggcagccatctgtctcattcag-----ggg-----tgggagcaagcccacttagccacatatctgaagccacattctcccaccagcatgtcaggagtgaggctggcatttatct-catctctcagtctcctttgtcATGCTTTT-TTTAAGCAGAGAAAGAAAGAAAAGAGTAGG-CGGAAAAAAGGACTAGCTAAGGAAG-TCATTCTATTATTCCATTC-------AGAAG------TACTaagcatttccag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       872856 428 -   1015025 AGGTCCCTCACTGG--ACACCACTCCAAAGAGGTTCCCTGCTCACCCACA--------------CTTCTGCTctcaaaccctgcaagcttctc-------ctgttggatctgccacctacagagaggatccattctgctcttcattgtgcagtggctaagtggatcaggt--ccccctacactggcagcctacaggcttccacactgtcccacagcac------ttggggc-taggcagccagctgtctcattcag-----ggg-----tgggagcaagcccatttagccacatatctgaagccacattcttccagcagcttgtcaggagtgaggctgg-attcatct-catctctcagtctcctttgtcATGCTTTC-TTTAAGCAGAGAAAGAAAGAAAAGAGTAGG--GGTGAAAAGGACTCACTAAAGGAG-TCATTCTATTATTCCATTC-------AGAAT------TACTAAACATTTCCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1894665 429 -   2295209 AGGTCCCTCACTGG--ACACCACTCCAAAGAGGTTCCCTGCTCACCCACA--------------CTTCTGCTctcaaaccctgcaagcttctc-------ctgttggatctgccacctacagagaggatccattctgctcttcattgtgtattggctaagtgggtcaggt--tcccctacactggcagcctgcaggcttccaaactgtcccacagcac------ttggggc-taggcagccacttgtctcattcag-----ggg-----tgggagcaagcccatttagccatatatctgaagccacattctcccaccagcttgtcaggagtgaggctggcatttatct-catttctcagtctcctttgtcATG-TTTT-TTTAAGCAGAGAAAGAAAGAAAAGAGTAGG-GGGGAAAAAGGGCTAACTAAGGAAG-TCATTCTATTATTCCATTC-------AGAAT------TACTaagcatttccag
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4593783 399 -  12054995 AGGACCTCCG-TGG--ATGCCACTCCTGACAGACTGCTTGCTCACC------------------CCTCTGTTCCCGCAGCCAGCCCACTTCTT-------CTGTTGGATCCGCTGCCTGCAGACCGCAGCTGTCCTTCTGTCCTCTGCA-GTGGGCCACAAGGCACAAGTTCCCCCCTACACTGGCAGCCTGCAGAGCTCCAAACCATCCCCCAGCAT------CTGGGAT-GAGGCGG-TGCCTGTGTCATCCAG-----GAG-----TGA---------CGTGGGGCCGCGAGTCTGAAGCCACGTTCGCCTGTCAGCTTATCGGCAGTGAGGCTGGCATTCACCTCCATCGCTCATTCTCCC---------ATCT-CTCAACCAG----ATAA--------------GGCAAGAAAGGACTGACCAAGAGAGGTCCTTCCATGGCTGCATTCACAGGGAACAAT------TACCaagcattgccag
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2437925 416 - 149736546 AAAATCTCCTGTGGGAAAACTAATACC----TTTTCCTTGTGAGTCCACACACCTGAAAGCTCTCATCTGCTTACAAGCACTTCAAGAAGCCCAGGCACTCTTTTGGGATACCTGCCTACAGACAAGACAGGTTCACCCTGTT----------------GTAGAGAAGGT---CCTCTATACAGG-GGTCTAC-----------TTGTCACACTGCACAGGTGGAGGGGGCACAGGTAGCCAGTCATCTGCCTGAG-----TGGTGTCCTGAAAGCAAACCCATTTGAACACAGATCTGAGGC-ACTTCGGTGTGTCAGGTAATCCTGCCTGA-----GCTTTAGCTC-CACCCCTCAGGATCCTTTGTCGTA-TTT--CTCAATCAG----AAGGGGGCTGCTGGAGAGGAAAGAAGAGG-CCAACTAAGGGCAGCAATTCCATTTCTGTGCTC-------AGAAT------TATT-----TTTCCAG
i mm10.chr6                 I 99 I 385
s canFam3.chr27              19746518 384 +  45876710 AGGAACCTTACTGG--ACAAAAATTCTGACAG-TTCTCTCCTCACTCACA--------------TTTCTTCT--------------GCTCCTT-------CTGCT----------CCTTTGGAGAAGACCC--TAAGCACTTC--TGT---TGGGTTGAGTAGGGCAGGT--TGCCCTCCATGGGCAGCCCATGGGGTCCCCTGTTATCCC-TGGTGC-------CAGAAT-CAGGTAGCTGGATTCTTCAGTCAGGAGCTGGA-----TGGGAGCAAGCGCATTCAGCCACATGACTACCGCCAC-TTGTCCAATCAGTTTCTCAGTCATAAGGCCACATTTTATCT----CTCTCAGACTTCCTTGTCCTG-TTT--CTGAACCAG----GGAAAGA--------------AAGAAAGGACTATC-AAGGGAGGTCCTTCTATTACTGTGTTC-------ACAACAAACAATAATTAGTATTTTCAG
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=1586740.000000
s hg38.chr12_GL383549v1_alt    104124 152 +    120804 AAACCCCAGACTGGGTGGTAGTTGCTCTGTCTCTGACTTTGGTGGCCTTATCTTACCACTTCACACAGAAACATCCTCCttataagtccgttttcctgactagactgtaggaccttaaagacatgaactatgtatcatcaacatttgtatcc
s panTro5.chr12              62795630 152 + 137163284 aaaccccaggctgggtggtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaacatcctctttataagtctgttttcctgactagactgtaggaccttaaagacatgaactatgtatcatcaacatttgtatcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919430 152 + 135337776 aaaccccaggctgggtggtagttactctgtctctgattttggtggccttatcttaccactgcacacagaaacatcctctttataagtctgttttcctgactagactgtaggaccttaaagacatgaactatgtatcatcaacatttgtatcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3134858 151 -  32808036 aaaccccaggctgggtggtagttgctctgtctctgactttggtggccttatcttaccacttcgcacagaaacatcctctttataagtctgttttcct-actagactgtaggaccttaaagacatgaactatgtatcatcaacatttgtatcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7325912 152 +  34552619 AAACCCCAGGCTGGGTGGTAGTTGCTCTGTCTCTGACTTTGGTGGCCTTATCTTACCACTTCACACGGAAACATCCTCCttataagtctgctttcctgactagacagtaggaccttaaagtcatgaactatgtatcatcgacatttgtatcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638616 152 - 133663169 aaactccaggctggatggtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaatatcctccttataagtctgttttcctgactagactgcaggaccttaaagacatgaactatgtatcattggcatttgtatcc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040820 152 - 137757926 AAACTCCAGGCTGGATGGTAGTTGCTCTGTCTCTGACTTTGGTGGCCTTTTCTTACCACTTCACACAGAAATATCCTCCttataagtctgttctcctgactagactgcaggaccttaaagacatgaactatgtatcattggcatttgtatcc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412289 152 -   7948249 aaactccaggctggatggtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaatatcctccttataagtctgttttcctgactagactgcaggaccttaaagacatgaactatgtatcattggcatttgtatcc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8316907 152 -  10730278 AAActccaggctggatagtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaatatcctccttataagtctgttttcctgactagactgcaggaccttaaagacatgaactatgtatcattggcatttgtatcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807692 152 - 128539186 AAACTCCAGGCTGGATAGtagctgctctgtctctgactttggtggccttatcttaccacttcacatggaaatatcctccttataagcctgttttcctgactagactgcaggaccttaaagacatgaactatgtatcattgacatttgtatcc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203698 152 +    435186 AAActccaggctggatagtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaatatcctccttataagtctgttttcctgactagactgcaggaccttacagacatgaactatgtatcattggcatttgtatcc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603696 152 +   9309688 aaactccaggctgtatggtagttgctctgtctctgactttggtggccttatcttaccacttcacacagaaacatcctccttataagtctgttttcctgactagactgtaggaccttaaaggcatgaactatgtatcattgacatttgtatcc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422275 152 -  29834108 aaagcccaggctgggtagtagttgctctgtctctgactttggtgaccttatcttacaacttcacacagaaatgtcctggttataagtctgctttcctgaccagactgtaggaccttaaggacacgaactatgtatcattgaaatttgtatcc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873284 152 -   1015025 AAACCCCAGGCTGGGTGGCAGTTGCTCCATCTCTGACTTCGGTGGCCTTATCTTACTACTTCACACAGAAACGTCCTGGTTATAAGTCTCCTTTCCTGATCATACTGTAGGACCTTAAGGACACTAACTATATATCATTGAAATTTATATCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895094 152 -   2295209 aaaccccaggctgggtggtagttgctccgtctctgacttcggtggccttatcttaccacttcacacagaaacgtcctggttataagtctgctttcctgaccagactgtaggaccttaaggacacgaactatatatcattgaaatttgtatcc
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4594182 147 -  12054995 aaaccccagactgggtggtggtggttctgtctctgactgctgtggccttatc-----gctttgcatagaaatttcctggttaaacgtccattttcctgagtagactataggttcttaaggacgtgaactatatagtgttgacatctgtatcc
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19746902 150 +  45876710 AAGTTCCAGGCTGGGTGATGGTTGTTCTGTCTCTGATTTCTGTGGCTTTATCTTAC--CTGAAAACAGAaatcttctgggtatatgtttgttttcctgactagactgtagacccttaaggacatgaactggatattatccatatttgtatcc
i canFam3.chr27             C 0 I 516
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=1356721.000000
s hg38.chr12_GL383549v1_alt    104276 145 +    120804 ccaAAAGTT----AGAGGATACAAATGGCCCCTTATGTAGCcagggccagcttcatgggcatgtgacccacaccgccagacatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttaataa-tttCTTCCC
s panTro5.chr12              62795782 145 + 137163284 ccaAAAGTT----AGAGGATACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcatgtgacccacaccgccagccgtgtggggctccacctttggcttaatgctctgctgccaccatcttgactttcttaataa-tttttTTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919582 145 + 135337776 ccaAAAGTT----AGAGGATACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcatgtgacccacaccgccagccatgtggggctccacctttggcttaatgctctgctgccaccatcttgactttcttaataa-tttttTTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135009 145 -  32808036 ccaAAAGTT----AGAGGACACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcatgtgacccacaccgccagccatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttaataa-tttttTTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326064 143 +  34552619 ccaaaagtt----agaagatactaATGGCCCCTTATGTAGCTagggccagcttcatgggcatgtgacccacaccgccagccatgt-gggctccacctttgctttaatgctctgctgccaccatcttgactttcttaatag-ctt-ttTCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638768 145 - 133663169 ccaAAAGTT----CGAGGATACAAATGGCCCTTTATGTAGCTagggccagcttcatgggcaggtgacccacaccgccagccatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttcataa-tttttTTTC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109040972 145 - 137757926 ccaAAAGTT----CGAGGATACAAATGGCCCTTTATGTAGCTagggccagcttcatgggcaggtgacccacaccgccagccatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttcataa-tttttTTTC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412441 146 -   7948249 ccaAAAGTT----CGAGGATACAAATGGCCCTTTATGTAGCTagggccagcttcatgggcaggtgacccacaccgccagccatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttaataatttttTTTTC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317059 145 -  10730278 ccaAAAGTT----CGAGGATACAAATGACCCCTTATGTAGCTagggccagcttcatgggcaggtgacccacaccgccagccatgtggggctccacctttggtttaatgctccgctgccaccatcttgactttcttaataa-tttttTTCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807844 145 - 128539186 ccaAAAGTT----CGAGGATACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcaggtgacccacaccggcagccacgtggggctccacctttggtttaatgctctgctgcccccatcttgactttcttaataa-tttttTTCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203850 145 +    435186 ccaAAAGTT----CGAGGATACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcaggtgacccacactgccagccatgtggggctccacctttggtttaatgctccgctgccaccatcttgactttcttaataa-tttttTCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603848 145 +   9309688 ccaAAAGTT----TGAGGATACAAATGGCCCCTTATGTTGCTagggccagtttcataggcaggtgacccacactgccagccatgtggggctccacctttggtttaatgctctgctgccaccatcttgactttcttaataa-tttttTTCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422427 143 -  29834108 ccaAAAGTT----AGAGAATACAAATGGCCCCTTAGGTAGCTagggccagcttcatgggcacgtgacccacatcacgagccatgtggggctccacctttggtttaatgctctactaccaccatcttgactttcttaatca---tttttCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873436 144 -   1015025 CCAAAAGTT----AGAGAATACAAATGGCCCCTTGTGTAGCTagggccagcttcatgggcatgtgacccacaccaccagccatgtggggctccacctttggtttaatgctctgctaccaccattgtgactttcttaatca--tttttTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895246 144 -   2295209 ccaAAAGTT----AGAGAATACAAATGGCCCCTTATGTAGCTagggccagcttcatgggcatgtgacccacaccaccagccatgtggggctccacctttggtttaatgctctactaccaccatcttgactttcttaatca--tttttTCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4594329 130 -  12054995 taagAAGTTAGGAAGAGAATA------------TATGCAAT----gccagttgcatggacatatgaccccggccaccagccactcagggccccacatttggtttgatgctctgctgtccacatcttgaatttcttaataa-tttttt---
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e canFam3.chr27              19747052 516 +  45876710 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=301478.000000
s hg38.chr12_GL383549v1_alt    104421 32 +    120804 CACCTTTTAAGAAACAAGAGACAACAAAGAGC
s panTro5.chr12              62795927 32 + 137163284 CACCTTTTAAGAAACAAGAGACAACAAAGAGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919727 32 + 135337776 CACCTTTTAAGAAACAAGAGACAACAAAGAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135154 32 -  32808036 CACCTTTTAAGAAACAAGAGACAACACAGAGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326207 32 +  34552619 CACATTTTAAGAAACAAGAGACAGCAAAGAGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638913 32 - 133663169 CACCTTTTAAGAAACAAGAGACAACAAAGAAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041117 32 - 137757926 CACCTTTTAAGAAACAAGAGACAACAAAGAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412587 32 -   7948249 CACCTTTTAAGAAACAAGAGACAACAAAGAAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317204 32 -  10730278 CACCTTTTAAGAAACAAGAAAAAACAAAGAGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100807989 32 - 128539186 CACATTTTAAGAAACAAGAAACAACAAAGAGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       203995 32 +    435186 CACCTTTTAAGAAACAAGAGACAACAAAGAGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3603993 32 +   9309688 CACCTTTTAAGAAACAAGAGACAACAAAGAGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422570 31 -  29834108 CACCTTTTAAGAAACAA-AGACAACAAAGAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873580 31 -   1015025 CACCTTTTAAGAAGCAA-AGAGAACAAAGAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895390 31 -   2295209 CACCTTTTAAGAAACAA-AGACAACAAAGAGC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4594459 10 -  12054995 ----------------------aactaggggc
i otoGar3.GL873576          C 0 I 948
s canFam3.chr27              19747568 32 +  45876710 CATCTTTTAAGAAACAAGAAACAGCAAAGAGC
i canFam3.chr27             I 516 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=34353.000000
s hg38.chr12_GL383549v1_alt    104453 4 +    120804 ATTT
s panTro5.chr12              62795959 4 + 137163284 ATTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919759 4 + 135337776 ATTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135186 4 -  32808036 ATTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326239 4 +  34552619 ACTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638945 4 - 133663169 ATCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041149 4 - 137757926 ATCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412619 4 -   7948249 ATCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317236 4 -  10730278 ATCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808021 4 - 128539186 ATCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204027 4 +    435186 ATCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604025 4 +   9309688 ATCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422601 4 -  29834108 ATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873611 4 -   1015025 ATTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895421 4 -   2295209 ATTT
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19747600 4 +  45876710 ATTT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4594469 948 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=918008.000000
s hg38.chr12_GL383549v1_alt    104457 91 +    120804 GCAATTCCC-A-CACAAGCAGTAATCATGAAAACTAGATCTCTTGAAAGATTTCCCACAGGGAAGTAAAAATGCCTGCCTACTATTCCACAct
s panTro5.chr12              62795963 91 + 137163284 GCAATTCCC-A-CACAAGCAGTAATCATGAAAACTAGATCTCTTGAAAGATTTCCCACAGGGAAGTAAAAATGCCTGCCTACTACTCCACAct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919763 91 + 135337776 GCAATTCCC-A-CACAAGCAGTAATCATGAAAACTAGATCTCTTGAAAGATTTCCCACAGGGAAGTAAAAATGCCTGCCTACTACTCCACAct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135190 91 -  32808036 GCAATTCCC-A-CACAAGCAGTAATCATGAAAACTAGATCTCTTGAATGACTTCCCACAGGGAAGTAAAAATGCCTGCCTGCTATTCCACAct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326243 91 +  34552619 GCAATTCCC-A-CATAAGCAGTAATCATGAAAACTAGATCTCTTGAAAGATTTCCCACAGGGAAGTAAAAATGCCTGCCTACTATTCCACAct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104638949 91 - 133663169 GCAATTCCC-A-CACAAGCAATAATCAGGAAAACTAGATGTCTTGAAAGATTTCCCACCGGAAAGTAAAAATGCCCACCTACTATTCCGCAct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041153 91 - 137757926 GCAATTCCC-A-CACAAGCAATAATCAGGAAAACTAGATCTCTTGAAAGATTTCCCACCGGAAAGTAAAAATGCCCACCTACTATTCCGCAct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412623 91 -   7948249 GCAATTCCC-A-CACAAGCAATAATCAGGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGTAAAAATGCCCACCTACTATTCCGCAct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317240 91 -  10730278 GCAATTCCC-A-CACAAGCAATAATCAAGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGTAAAAATGCCCGCCTACTATTCCGCAct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808025 91 - 128539186 GCAATTCCC-A-CACAAGCAATAATCAGGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGTAAAAATGCCCGCCTACTATTCCGCAct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204031 91 +    435186 GCAATTCCC-A-CACAAGCAATAATCAAGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGTAAAAATGCCCGCCTACTATTCCGCACT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604029 90 +   9309688 GCAATTCCC-A-CACAAGCAGTCATCAGGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGT-AAAATGCCCGCCTACAATTCCGCAct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422605 91 -  29834108 GCAATTATC-A-TACAAGCAGTAATCATGAAAACTAGATCTCTTGAAAGATTTCCCACAGGAAAGTAAAAATGCCTGCCTACTATTCCATAct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873615 91 -   1015025 GCACTTATC-A-TACAAGCAGTAATCATGAAAACTAGATCTCTTGAAATATTTCCCACAGGAAAGTAAAAATGCCTGCCTACTATTCCATATT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895425 91 -   2295209 GCAATTATC-A-CACAAGCAGTAATCAAGAAAACTAGATCTCTTGAAAGATCTCCCACAGGAAAGCAAAAATGCCTGCCTACTATTCCATAct
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4595417 92 -  12054995 GCAATTCTCTC-CGTAAGCAGTAATCATTAAAATTAGATCTCTTGAAAGATTTCTGAAAATAAAGTAAAAATGCCTGTTTACTATTCTGCATT
i otoGar3.GL873576          I 948 T 1040
s canFam3.chr27              19747604 73 +  45876710 GCAATTCCC-ATCACAAACAGTAATCATT-AAACTGGATCTCTAGAAAGATTTCTGACA------------------TCTACTCTTCTGCATT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3030139 1048 +  31815103 I
e proCoq1.NW_012140524v1      5119485 762 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=245280.000000
s hg38.chr12_GL383549v1_alt    104548 19 +    120804 ccacatttttatcttgcaa
s panTro5.chr12              62796054 19 + 137163284 ccacatttttatcttgcaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919854 19 + 135337776 ccacatttttatcttgcaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135281 19 -  32808036 ccacatttttatcttgcaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326334 19 +  34552619 ccacatttttatcttgcaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639040 19 - 133663169 ccatatttttattttgcaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041244 19 - 137757926 ccacatttttattttgcaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412714 19 -   7948249 ccacatttttattttgcaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317331 19 -  10730278 ccacatttttattttgcaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808116 19 - 128539186 ccacatttttattttgcaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204122 19 +    435186 CCACATTTTTATTTTGCAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604119 19 +   9309688 ccacatttttattttgcaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422696 19 -  29834108 ccacatttttattttgcag
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873706 19 -   1015025 CCACAATTTTATTTTGCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895516 19 -   2295209 ccacatttttattttgcag
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031187 19 +  31815103 ccacatttttattttgcag
i micMur3.chr21             I 1048 C 0
s proCoq1.NW_012140524v1      5120247 19 +  13104022 ccatatttttattttgtaa
i proCoq1.NW_012140524v1    I 762 C 0
s otoGar3.GL873576            4594469 19 -  12054995 ctgtatttttatttttcaa
i otoGar3.GL873576          T 1040 C 0
s canFam3.chr27              19747677 19 +  45876710 CCTCCCTCCCATCCTACAA
i canFam3.chr27             C 0 T 610
e mm10.chr6                   2438341 385 - 149736546 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=1780889.000000
s hg38.chr12_GL383549v1_alt    104567 149 +    120804 caggccttgc-aaattatgtgtccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgactcctggctctgccacttg----ctatgtgaccttggcaaagttatttaagc
s panTro5.chr12              62796073 149 + 137163284 caggccttgc-aaattatgtgtccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgactcctggctctgccacttg----ctatgtgaccttggcaaagttatttaagc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60919873 149 + 135337776 caggccttgc-aaattatgtgtccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgactcctggctctgccacttg----ctatgtgaccttggcaaagttatttaagc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135300 149 -  32808036 aaggccttgc-aaattacgtgtccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGCA-TAAACGACAACAGAGTTCAAggcctgactcctggctctgccacttg----ctatttgaccttggcaaagttatttaagc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326353 149 +  34552619 caggacttgc-aaattatgtatccagtcctgGCTGTAGTAGGCCCTCAGTATTTAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgactcctggctctgccacttg----ctatgtgaccttggcaaagttatttaacc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639059 149 - 133663169 caggccttgc-aaattacgtatccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgacccctggctctgccacttg----ctatgtgacctcggcaaagtcatttaacc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041263 149 - 137757926 caggccttgc-aaattacgtatccagtcctgTCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgacccctggctctgccacttg----ctatgtgacctcggcaaagtcatttaacc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412733 149 -   7948249 caggccttgc-aaattacgtatccagtcctgGCTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgacccctggctctgccacttg----ctatgtgacctcggcaaagtcatttaacc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317350 150 -  10730278 tatgccttgcaaaattacgtatccagtcctgGCTGTAGTAAGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAAcagagttccaggcctgacccctggctctgccacttg----ctatgtgaccttggcaatatcatttaacc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808135 149 - 128539186 caggccttgc-aaattgcgtatccagtcctgGCTGTAGTAGGCCCTCAGTATTAACAGAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgacccctggctctgccacttg----ctatgtcaccttggcaatgtcatttaacc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204141 150 +    435186 TATGCCTTGCAAAATTACGTATCCAGTCCTGGCTGTAGTAAGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTCAAggcctgacccctggctctgccacttg----ctatgtgaccttggcaatgtcatttaacc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604138 149 +   9309688 caggccttgc-aaattatgtatccagtcctgGTTGTAGTAGGCCCTCAGTATTAAAATAAAATTGCATGTTAGGA-TAAATGACAgcagagttcgaggcctgacccctggctctgccacttg----ctatgtgactttggcaaagtcatttaacc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422715 153 -  29834108 caggctttgc-aaattatatatccagtcctgGCTGTAGTAGGCCCTGAGTATTCAAATAAAATTGCATGTTAGGA-TAAATGACAACAGAGTTTAAggtatgactcttggctctgccacttgctatctatgtgaccttggcaaagttatttaacc
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       873725 153 -   1015025 CAGGCTTTGC-ACATTAGATATCCAGTCCTGGCTGTAGTAGACCCTGAGTATTCAAATAAAATTGCATGTTAGGA-TAAATGACAAcagagctcaaggcctgactcttggctctgccacttgctatctatgtgaccttggcaaagttatttaacc
i cebCap1.NW_016107911v1    C 0 I 1
s aotNan1.NW_018488218v1      1895535 153 -   2295209 caggctctgc-aaattatatatccagtcctgGCTGTAGTAGGCCCTGAGTATTCAAATAAAATTGCTTGTTAGGA-TAAATGACAACAGAGTTCAAggcctgactgttggctctgccacttgctatctatgtgaccttggcaaagttatttaacc
i aotNan1.NW_018488218v1    C 0 I 1
s micMur3.chr21               3031206 152 +  31815103 tgggccttgc-aaattatgtgtccagccctggttgtagtaggcactcagtaTTAAGATAAAATTGCATGTTAAGG-TAAATGGCAACATAGTTCAAGGACTGACT-ctggctctgccacttgctctctatgtgaccttgacaaagtcatttaagc
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5120266 153 +  13104022 tgggccttac-aaattatggatccagtcctggttgtagtaggcactcagtaTTAAGATAAAATTGCATGTTAAGG-TAAATGACAACATAGTTCAAGGACTGTCtcctggctctgccacttgctatctatgtgaccttgacaaagtcatttaagc
i proCoq1.NW_012140524v1    C 0 I 20
s otoGar3.GL873576            4594488 153 -  12054995 tgggtcttac-aaattacgtatccatccctgATTGTAGTGGGCACTCAGTATTAAGATAGAATTGCACATTAGGGTTAAATGGTAACATAGTTCAAGGACTgactcctggctct-ccactggctatctatgtgaccttgagaaagtcatttaatt
i otoGar3.GL873576          C 0 I 1
e mm10.chr6                   2438341 385 - 149736546 I
e canFam3.chr27              19747696 610 +  45876710 T
e dasNov3.JH562883             948270 963 -   1687904 I

a score=227698.000000
s hg38.chr12_GL383549v1_alt    104716 20 +    120804 cctgaagcctcagtctcttc
s panTro5.chr12              62796222 20 + 137163284 cctgaagcctcagtctcttc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920022 20 + 135337776 cctgaagcctcagtctcttc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135449 20 -  32808036 cctgaagcctcagtcttttc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326502 20 +  34552619 cctgaagcctcagtatcttc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639208 20 - 133663169 cctgaagcctcagtctcttc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041412 20 - 137757926 cctgaagcctcagtctcttc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412882 20 -   7948249 cctgaagcctcagtctcttc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317500 20 -  10730278 cctgaagcctcagtctcttt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808284 20 - 128539186 cctgaagcctcagtctcttt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204291 20 +    435186 cctgaagcctcagtctcttt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604287 20 +   9309688 cctgaagcctcagtctcttc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422869 20 -  29834108 cctgaagcctcagtctcttc
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       873879 19 -   1015025 cctgaagcctcagtctc-tc
i cebCap1.NW_016107911v1    I 1 C 0
s aotNan1.NW_018488218v1      1895689 20 -   2295209 cctgaagcctcagtctcttc
i aotNan1.NW_018488218v1    I 1 C 0
s micMur3.chr21               3031359 20 +  31815103 ccttaagcctcagtctcttc
i micMur3.chr21             I 1 I 3
s otoGar3.GL873576            4594642 20 -  12054995 ccttaagtcccagtctctac
i otoGar3.GL873576          I 1 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e canFam3.chr27              19747696 610 +  45876710 T
e proCoq1.NW_012140524v1      5120419 20 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=3955516.000000
s hg38.chr12_GL383549v1_alt    104736 450 +    120804 atctctaaaattggaataatagtaaaaataatagttataatgaaaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattacgctaaatgaaattagcc----aaagacaa------acaaataccacctgttctcacttatgtatggaatctaaaacaatcaacccacacaagcagagaacagaatggtagtttccagatgctgagggtggagagaat-gggagattatacccaaagggtataaagcct---ttagctaggaggaataagttcaa-ttttttt-g---------agaactattgcacagcatagtgaatataactaataattgggcactgtctatttcaataacactaagagtaaatctcaaatc---tcatcacaaaaaaatgtcaagtacttgaggtcatggaaaggttaattagtttgatttaatcacttcacattgca
s panTro5.chr12              62796242 450 + 137163284 gtctctaaaattggaataatagtaaaaataatagttataatgaaaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattacgctaaatgaaattagcc----aaagacaa------acaaataccacctgttctcacttatgtatggaatctaaaacgatcaacccacacaagcagagaacagaatggtagtttccagatgctgagggtggagagaat-gggagattatacccaaagggtataaagcct---ttagctaggaggaataagttcaa-ttttttt-g---------agaactattgcacagcatagtgaatataactaataattgggcactgtctatttcaatatcactaagagtaaatctcaaatc---tcatcacaagaaaatgtcaagtacttgaggtcatggaaaggttaattagtttgatttaatcacttcacattgca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920042 446 + 135337776 gtctctaaaattggaataatagtaaaaataatagttataatgaaaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattacgctaaatgaaattagcc----aaagacaa------acaaataccacctgttctcacttatgtatggactctaaaacgatcaacccacacaagcagagaacagaatggtagtttccagatgctgagggtggagagaac-gggagagtatacccaaagggtataaagcct---ttagctaggaggaataagttcca-ttttttt-g---------agaactattgcacagcatagtgaatataactaataattgggca----ctatttcaatatcactaagagtaaatctcaaatc---tcatcacaaaaaagtgtcaagtacttgaggtcatggaaaggttaattagtttgatttaatcacttcacattgca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135469 450 -  32808036 atctctaaaattggaataagagtaaaaataatagttataatgaaaaattaaattagaaactccaggttaggtgcttGCTGTAATTCCATCCATGTTGTCGCAattacgctaaatgaaattagcc----aaagacaa------acaaataccacctgttctcacttatgtatggaatctaaaacaatcaacccacacaagcagagaacagaatggtagtttccagatgctgagggtggagagaat-gggagattatacccaaagggtataaagcct---ttagttaggaggaataagttcaa-ttttttt-g---------agaactattgcacaacatagtgaatataaccaataattgggcactgtctatttcagtatcactaagagtaaatctcaaatc---tcatcacaaaaaaatgtcaagtacttgacgtcatggaaaggttaattagtttgatttaatcacttcacattgca
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326522 448 +  34552619 atctctaaaattggaataatagtaaaaataatagttataatgaaaaattaaattagaaactccaagttaggtgtttgctacaattccATCCATGTTGTCGCAattatgctaaatgaaataagcc----aaagacag------acaaataccacctgttctcacttatgtatggaatctaaaataatcaacccacacaagcagag-atagaacggtagtttccagatgctgagggtggagagaat-gggagattata-ccaaagggtataaagcct---ttagctaggaggaataagttcaa-ttttttt-g---------agaactattgcacagcatagtgaatataactaataattgggcactgtctatttcaatatcaataagagtaaatctcaaatc---tcatcacaaaaaaatgtcaagtatttgaggtcatggaaaggttaattagcttgatttattcacttcacattgca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639228 443 - 133663169 atctctaaaactggaataatagtaaaaataatagttataatg-aaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattactctaaatgaaataagcc------agacag------acaaataccacctgttctcacttatgtgtggaatctaaaataatccacccacacaagcagagaatagaacagtagtttccagatgctgagggtggagagaat-gggagattataaccaaagggtataaagcct---ttagctgggaggaatattttcaa-ttttttt-g---------agaactattgcgcagtacagtgaatataactaataattgggcactgtttatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatggaaaggttaattaacttgatttaatcacttcacgttgta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041432 443 - 137757926 atctctaaaactggaataatagtaaaaataatagttataatg-aaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattactctaaatgaaataagcc------agacag------acacataccacctgttctcacttatgtgtggaatctaaaataatccacccacacaagcagagaatagaacagtagtttccagatgctgagggtggagagaat-gggagattataaccaaagggtataaagcct---ttagctggaaggaatattttcaa-ttttttt-g---------agaactattgcgcagtacagtgaatataactaataattgggcactgtttatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatggaaaggttaattaacttgatttaatcacttcacgttgta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1412902 443 -   7948249 atctctaaaactggaataatagtaaaaataatagttataatg-aaaattaaattagaaactccaggttaggtgcttgctacaattccATCCATGTTGTCGCAattactctaaatgaaataagcc------agacag------acaaataccacctgttctcacttatgtgtggaatctaaaataatccacccacacaagcagagaatagaacagtagtttccagatgctgagggtggagagaat-gggagattataaccaaagggtataaagcct---ttagctgggaggaatattttcaa-ttttttt-g---------agaactattgtgcagtacagtgaatataactaataattgggcactgtttatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcacggaaaggttaattaacttgatttaatcacttcacgttgta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317520 445 -  10730278 atctctaaaactggaataatagtgaaaataatagttataatg-aaaattaaattagaaactccaggttaggtgcttgctacaatTTCATCCATGTTGTCGCAattactctaaatgaaataagcc----aaagacag------acaaataccacctgttctcacttatgtgtggaatctaaaataatccacccacacaagcagagaatagaacggtagtttccagatgctgagggtggagagaat-ggaagattataaccaaagggtataaagcct---ttagctgggaggaatacttttaa-ttttttt-g---------agaactgttgtgcagtacagtgaatataactaataattgggcactgtttatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatggaaaggttaattaacttgatttaatcacttcacgttgta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808304 445 - 128539186 atctctgaaactggaataatagtaaaaataatagttataatg-aaaattaaattagaaactccaggttaggtgcttgctacaatTTCATCCATGTTGCCGCAattactctaaatgaaataagcc----aaagacag------acaaataccacctgttctcacttatgtatggaatctgaaataatccacccacacaagcagagaatagaacggtagtttccagatgctgagggtggagagaat-ggaagattataaccaaagggcataaagcct---ttagctgggaggaatactttcaa-ttttttt-g---------agaactattgcacagtacagtgaatataacttataattgagcactgtctatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatggaaaggttaattaacttgatttaaccacttcacgttgta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204311 445 +    435186 atctctaaaactggaataatagtgaaaataatagttataatg-aaaattaaattagaaactccaggttagatgcttgctacaatTTCATCCATGTTGTCGCAattactctaaatgaaataagcc----aaagacag------acaaataccacctgttctcacttatgtgtggaatctaaaataatccacccacacaagcagagaatagaacggtagtttccagatgctgagggtggagagaat-ggaagattataaccaaagggtataaagcct---ttagctgggaggaatactttcaa-ttttttt-g---------agaactgttgtgcagtacagtgaatataactaataattgggcactgtttatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatggaaaggttaattaacttgatttaatcactgcacgttgta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604307 444 +   9309688 atctctgaaactggaataatagtaaaaataatagttataatg-aaaattaaattagaaactccagattaggtgcttgctacaataccATCCATGTTGTCGCAattactctaaatgaaataagcc----aaagacag------acaaataccacctcttctcacttatgtgtggaatctaaaataatcaacccacacaagcagagaatagaacggtagtttccagatgctgagggtggagagaat-gggagattataaccaaagggtataaagcct---ttagctgggaggaatactttcaatttttttt-g---------agaactattgcacagt--agtgaatataactaataattgggcactgtctatgtcaatatcactaagagtaaatct-aaatc---tcatcacaaaaa---gtcaagtatttgaggtcatgaaaaggttaattaacttgatttaatcacttcacgttgta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11422889 453 -  29834108 atctctaaaattggaatgataacaaaaataatagttataatg-aaaattttattagaaactccaggttaggtgcttgctacaattccATCCATGTTACTGCAattatgctaagtgaaataagccaggcaacaacag------gcaaataccacctgttcccacttatgtatagaatctaaaacaatcaacccacacaagcagagaatagaatggcagtttccagaatctgagggtgcagagaat-gggagataataaccaaagggtataaagcct---taagataggaggaataagtataa-tttttttaa---------agaactattgcacaacatagtgaatataactaataattgggtactgtatatttcaatatcactaagagtaaatctcaaatc---tcatcacaaagaag-gtcaaatatttgaggtcatagaaagcttaattatcttgatttaatcatgtcacattgta
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       873898 447 -   1015025 atctctaaaattggaatgataaaaaaaataatagttataatg-aaaatttaattagaaactccatgttaggtgcttgctacaattccATCCATGTTATTGcaa-tatgctaagtgaaataagccagacaaagacag------gcaaataccacctgttctcacttatgtatggaatctaaaa----caacccacacaagcagagaatagaatggcagtttccagaacctgagggtgcagagaat-gggagataataaccaaagggtataaagcct---taagataggaggaataagttcaa-ttttttt-g---------agaactattgcacggcatagtgaatataactaataattgggtactgtatatttcaatatcactaagagtaaatctcaaatc---tcatcacaaaaaag-gtcaaatatttgaggtcatagaaagcttaattatcttgatttaatcacgtcacattgta
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1895709 447 -   2295209 atctctaaaattggaatggtaacaaaaataatagttataatg-aaaatttaattagaaactccaggttaggtgcttgctacaattccATCCATGTTATTGCAattatgctaagtgaaataagccagacaaagacag------acaaataccacctgttctcacttatgcatggaatctaaaa----caacccacacgagcagagaatagaatggcagtttccagaacctgagggtgcagagaat-gggagataataaccaaagggtataaagcct---taagacaggagggataagttcaa-ttttttt-g---------agaactattgcacagcatagtgaatataactaataattgggtactgtatatttcaatatcactaagagtaaatctcaaatc---tcatcacaaaaaag-atcaaatatttgagatcatagaaagcttaact-tcttgatttaatcaggtcacactgta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4594662 446 -  12054995 atctctaaagttggaataat------aataagagtgttaatg-aaaattaaattagataccccagggcaagtgctt-CTGAAATTTTATCCATGCTGTTATAattatgctaagtgaaataagcc----aaatgtagaaagtcaaaaattctgcacactctcattcaaagacaaaatctgaaacagttaacttacagaagccgagagggaaatgat-------ggagtctgctactagagggaacagagagatgacaggcaaagggtccaaagcctcagttaaatgggaggaatacgtttgt-ttatttt-gttttgttttagatctattgaatagtttggtaaatatagctaataatt-agtactgtacattttaatatcactaaagagaaatctcaaatcttttcatcacaaaaatt-atcaaacatttg----cttgga-----taattagcttggttcaatcattccacgttgca
i otoGar3.GL873576          C 0 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031379   3 +  31815103 I
e canFam3.chr27              19747696 610 +  45876710 T
e proCoq1.NW_012140524v1      5120419  20 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=1631709.000000
s hg38.chr12_GL383549v1_alt    105186 170 +    120804 ttcaaaaattataacatcacttatatatacaattatatatataattgata-taaattgtatatacaactataGTTTGTCAACATATAATT--AAAGTGCTTGCTACAATACCTGACACATAATAAAGTCTTAACAAATATTCAATACTTCACTTATTACTACTGCTACCAGTG
s panTro5.chr12              62796692 167 + 137163284 ttcaaaaattat---atcacttatatatacaattatatatataattgata-taaattgtatatacaactataGTTTGTCAACATATAATT--AAAGTGCTTGCTACAATACCTGACACATAATAAAGTCTTAACAAATATTCAATACTTCACTTATTACTACTGCTACCGGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920488 170 + 135337776 ttcaaaaattataacatcacttatatatacaattatatatataattgata-taaattatatatacaactataGTTTGTCAACATATAATT--AAAGTGCTTGCTACAATACCTGACACATAATAAAGTCTTAACAAATATTCAAtacttcacttattactactgctaccagta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3135919 170 -  32808036 ttcaaaaattataacatcacttatatatacaattatatatataattgata-taaattgtatatacaactataGTTTGTCAACATATAATT--AAAGTGCTTGCTACAATACCTGACACATAATAAAGTCTTAACAAATATTCAAtacttcacttattactactgctaccagta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7326970 170 +  34552619 ttcaaaaattataacatcacttacatatacaattatATATATAATTGATA-TAAATTGTATATACAACTATAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGACACATAATAAAGTCTTAACAAATATTCAATACTTCATTTATTACTACTGCTACCAGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639671 165 - 133663169 ttcaaaaattataacatcacttacatatacaattatATATATAATTGATA-TAAATTGCATATACAACTACAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGACACATAATAAAGTCTTAACAAATATTCAAt-----acttattactactgctaccagta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109041875 170 - 137757926 ttcaaaaattataacatcacTtacatatacaattatatatataattgata-taaattgcatatacaactacaGTTTgtcaatatataatt--aaagtgcttgctacaatgcctgacacataataaagtcttaacaaatattCAAtacttcacttattactactgctaccagta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413345 170 -   7948249 ttcaaaaattataacatcacttacatacacaattatatatataattGATA-TAAATTGCACATACAACTACAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGACACATAATAAAGTCTTAACAAATATTCAATATTTCACTTATTACTACCGCTACCAGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8317965 170 -  10730278 ttcaaaaattataacatcacttatatatacaattatGTATATAATTGATA-TAAATTGCATATACAACTACAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGACACATAATAAAGTCTTAACAAATATTCAATATTTCACTtattactactgctaccagta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808749 170 - 128539186 ttcaaaaattataacatcacttatatatacaattatatatataattGACA-TAAATTGCATATACAACTACAGTTTgtcaatatataatt--aaagtgcttgctacaatgcctgacacataataaagtcttaacaaatACTCAAtacttcacttattactactgctaccagta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204756 170 +    435186 ttcaaaaattataacatcacttatatatacaattatATATATAATTGATA-TAAATTGCACATACAACTACAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGACACATAATAAAGTCTTAACAAATATTCAATATTTCACTtattactactgctaccagta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604751 170 +   9309688 ttcaaaaattataacatcacttatatataaaattatatatataattGATA-TAAATTGCATATACAACTACAGTTTGTCAATATATAATT--AAAGTGCTTGCTACAATGCCTGAAACATAATAAAGTCTTAACAAATATTCAATACTTCACTTATTACTACTGCTACCAGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423342 170 -  29834108 ttcaaaaattctaacattgcttatatatacaattaAATATATCATTGATA-TAAATTATATATACATCTATAGTTTGTCAGTATACAATA--AAAGTGCTTGCTAGAATTCCTGACACATAATAAAGTCTTAACAAATCTTCAATACTTCACTTATTACTACTGCAACCAATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874345 170 -   1015025 ttcaaaaattataacatcgcttatatatacaattatATATCTAATTGATA-TAAATTGTATATACACCTATAGTTTGTCAGTATACAATA--AAAGTGCTTGCTACAATTCCTGACACATAACAAAGTCTTAACAAATATTCAGtacttcacttattactactgcaaataata
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896156 170 -   2295209 tttgaaaattatagcatcgcttatatatacaattatATATATAATTGATA-AAAATTGTATATACACCTATATTTTGTCGGTATACAATA--AAAGTGCTTGCTACAAGTCCTGACACATAATAAAGTCTTAACAAATATTCAATACTTCACTTATTACTACTGCAACCAATA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4595108 130 -  12054995 ttcaagaatcataactccactt-tgtatcc------------------ca-taaat---acatacaaatataatttgtcaatATATAATTTAAAAGTGCTTGCTATAGCCCCTGACACA-AATAAAGACTTAACAAATATTCAATACTCCACTT-------------------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19747086 142 +  45876710 tttaaaaattaaaataata---------acagtaatagctataatgaaaattaaattaggtgc--------------------tctaggt--taggtacttgctccagtgcctgacacataataaagtctcaattaatatCCAATACTCCACTTACTACTACATTTACCATTA
i canFam3.chr27             T 610 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031379   3 +  31815103 I
e proCoq1.NW_012140524v1      5120419  20 +  13104022 I
e dasNov3.JH562883             948270 963 -   1687904 I

a score=1597786.000000
s hg38.chr12_GL383549v1_alt    105356 149 +    120804 CTAATACCATTGCTGCTACGGCTAATAT-AAAACTCAACTGGATTCCAAGGAGAAGACGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTTTGTTGATTTTAGCTCCCAAACTTTCTTCCGCTAGCTCT----------TAAA------------AGACCTCTGAGG
s panTro5.chr12              62796859 149 + 137163284 CTAATACCATTGCTGCTACGGCTAATAT-AAAACTCAACTGGATTCCAAGGAGAAGACGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTTTGTTGATTTTAGCTCCCAAACTTTTTTCCGCTAGTTCT----------TAAA------------AGACCTCTGAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920658 149 + 135337776 ctaataccattgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGACGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTTTGTTGATTTTAGCTCCCAAACTTTTTTCCGCTAGTTCT----------TAAA------------AGACCTCTGAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136089 149 -  32808036 ctaataccattgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTTTGCTGATTTTAGCTCCCAAACTTTTTTCCGCTAGCTCT----------TAAA------------AGATCTCTGAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327140 149 +  34552619 CTAACACCATTGCTGCTACGGCTAATAT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTATGCAATGTCCTGTGCTTGTGTTGATTTTAGCTCCCAAACTTTTTTCCGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639836 149 - 133663169 ataataccactgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGATATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTGTGTTGACCCTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042045 149 - 137757926 ataataccactgctgctacggctaataT-AAAACTCAACAGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTGTGTTGACCCTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413515 149 -   7948249 ATAATACCACTGCTGCTACGGCTAATAT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTGTGTTGACCCTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318135 149 -  10730278 ctaataccactgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTGTGTTGATCCTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100808919 148 - 128539186 ctaataccattgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGATATTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTG-GTTGATCCTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       204926 149 +    435186 ctaataccactgctgctacggctaataT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTGGAATGTTCTGTGCTTGTGTTGATCCTAGCTCCCGAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3604921 149 +   9309688 CTAATACCATTGTTGCTATGGCTAATAT-AAAACTCAACTGGATTCCAAGGAGAAGATGTTGACATGGTC---------ATGTCTTCTAGAATGTTCTGGGCTTGTGTTGATCCTAGCTCCCAAACATTTTTCTGTTAGCTCT----------TAAA------------AGACCTCTGAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423512 145 -  29834108 CTAATACCACTGCTGCTACGGCTAATAT-AAAAATCAACTGGATTCCAGGG---AGATGTTGACATGGTC---------ATGTCTTCTGGGATGTTCTGTGCTCGTGTTGATTTTAGCTCCCAAAA-TTTTTCTGGTAGCTCT----------TAAA------------AGACCTCTGAGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874515 145 -   1015025 ctaataccactgctgctacagctaataT-AAAAATCAACTGGATTCCAAGG---AGATGTTGACATGGTC---------ATGTCTTCTGGGATGTTCTGTGTTCATGTTGATTTTAGCTCCCAAAC-TTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896326 146 -   2295209 CTAATACCACTGCTGCTATGGCTAATAT-AAAAATCAACTGGATTCCAAGG---AGATGTTGACATGGTC---------ATGTCTTCTGGGATGTTCTGTGCTCGTGTTGATTTTAGCTCCCAAACTTTTTTCTGCTAGCTCT----------TAAA------------AGACCTCTGAGG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4595238 143 -  12054995 --------ACTGCTAATACAACTAACATAAAAAATCAACTGGATTCCAAGAAAAGGATGTCGACATGGTC---------CCATCTTCTGGAATGTTCTGTGCTTGCATTCATTCTAGTTTCCAAAC--TTTCCTGCTAATTTTTCTTTTCCTCTGAA------------AGACT-------
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19747228 169 +  45876710 CTAAT-TCAATGCCATGACAACTAACAT-AAAAATAAATTGGATCCCAAGGAAAAGATATCGACATGGGCACAGAATTAACATCTTCAGGAATGTTTTGTGCTTATGTGGATTCTAGTTCCTCAACTTTTCTCTGCTAGCTGT----------TAAAAAAACTTCTGAGAGAACTCTgagg
i canFam3.chr27             C 0 I 158
s dasNov3.JH562883             949233 155 -   1687904 CTAATATTACTACGGAAACAACTAACAT-AAAAGTCAGTAGGATCCCAAAGAGAAGATATT-ACTTGAGC--AGAGTGGACCTCTGCAGGGATGTTCTGCTCTTGCATGGCTGATAACTCCCAAACTTTCCTCTTCTAGCTTT----------TAAG------------AGACCCCTGAGA
i dasNov3.JH562883          I 963 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031379   3 +  31815103 I
e proCoq1.NW_012140524v1      5120419  20 +  13104022 I

a score=678941.000000
s hg38.chr12_GL383549v1_alt    105505 63 +    120804 -----GAAGTTATTGTTTCACCTTTTAAGAAAC---GAGACAACAAAGAGCATCTGTAATTCCCA-CACAAG
s panTro5.chr12              62797008 65 + 137163284 -----GAAGTTACTGTTTCACCTTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGTAATTCCCA-CACAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920807 63 + 135337776 -----GAAGTTATTGTTTCACCTTTTAAGAAAC---GAGACAACAAAGAGCATCTGTAATTCCCA-CACAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136238 65 -  32808036 -----GAAGTTATTGTTTCACCGTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGTAATTCTCA-CACAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327289 65 +  34552619 -----GAAGTTATTGTTTCACCTTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGTAATTCCCA-CACAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104639985 65 - 133663169 -----GAAGTTATTGTTTCACCTTTTAAGAAAA-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CACAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042194 65 - 137757926 -----GAAGTTATTGTTTCACCTTTTAAGAAAA-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CACAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413664 65 -   7948249 -----GAAGTTATTGTTTCACCTTTTAAGAAAA-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CGCAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318284 65 -  10730278 -----GAAGTTATTGTTTCACCTTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CACAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809067 65 - 128539186 -----GAAGCTATTGTTTCACCTTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CACAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205075 65 +    435186 -----GAAGTTATTGTTTCACCTTTTAAGAAAC-AAGAGACAACAAAGAGCATCTGCAATTCCCA-CACAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605070 65 +   9309688 -----GAAGTTATTGTTTCACCTTTTAAGAAAT-AAGAGACAACAAAGAGCATCTGCTATTCCCA-TACAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423657 65 -  29834108 -----GAAGTTATTGTTTCACCTTTTAAGACAC-AAGAGACAACAAAGAGCGAATACAATTCCCA-CACAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874660 65 -   1015025 -----TAAGTTATTGTTTCACCTTTTAAGACAC-AAGAGACAACAAAGAGCAATTACAATTCCCA-CACAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896472 65 -   2295209 -----GAAGTTATTGTTTCACCTTTTAAGACAC-AAGAGACAACAAAGAGCAATTGCAATTCCCA-CACAAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4595381 53 -  12054995 -----GAAGTTACTCTTT-ACCTTTTAAGAAACAAAGAGACAGCAA------------TTCTCTC-CGTAAG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19747555 66 +  45876710 -----GAAACTACCATTTCATCTTTTAAGAAAC-AAGAAACAGCAAAGAGCATTTGCAATTCCCATCACAAA
i canFam3.chr27             I 158 C 0
s dasNov3.JH562883             949388 68 -   1687904 GAGCTGAAGCTATTACTTTACTTGTTAAGGAAC-CAAAG---GAAAAGAGCAATCATATTCCCCTCCACAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031379  3 +  31815103 I
e proCoq1.NW_012140524v1      5120419 20 +  13104022 I

a score=61470.000000
s hg38.chr12_GL383549v1_alt    105568 4 +    120804 CAGT
s panTro5.chr12              62797073 4 + 137163284 CAGT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920870 4 + 135337776 CAGT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136303 4 -  32808036 CAGT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327354 4 +  34552619 CAGT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640050 4 - 133663169 CAGT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042259 4 - 137757926 CAGT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413729 4 -   7948249 CAGT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318349 4 -  10730278 CAGT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809132 4 - 128539186 CAGT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205140 4 +    435186 CAGT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605135 4 +   9309688 CAGT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423722 4 -  29834108 CAGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874725 4 -   1015025 CAGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896537 4 -   2295209 CAGT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5120439 4 +  13104022 caGT
i proCoq1.NW_012140524v1    I 20 C 0
s otoGar3.GL873576            4595434 4 -  12054995 CAGT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19747621 4 +  45876710 CAGT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             949456 4 -   1687904 CTGT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031379 3 +  31815103 I

a score=297569.000000
s hg38.chr12_GL383549v1_alt    105572 23 +    120804 AATCATGAAAACTAGATCTCTTG
s panTro5.chr12              62797077 23 + 137163284 AATCATGAAAACTAGATCTCTTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920874 23 + 135337776 AATCATGAAAACTAGATCTCTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136307 23 -  32808036 AATCATGAAAACTAGATCTCTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327358 23 +  34552619 AATCATGAAAACTAGATCTCTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640054 22 - 133663169 CATCATGAAAACTAGAT-TCTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042263 22 - 137757926 CATCATGAAAACTAGAT-TCTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413733 22 -   7948249 CATCATGAAAACTAGAT-TCTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318353 22 -  10730278 CATCATGAAAACTAGAT-TCTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809136 23 - 128539186 CATCATGAAAACTAGATCTCTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205144 22 +    435186 CATCATGAAAACTAGAT-TCTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605139 23 +   9309688 CATCATGAAAACTAGATCTCTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423726 23 -  29834108 AATCATGAAAACCAGATCTCCTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874729 23 -   1015025 AATCTTGAAAACCAGATCTCCTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896541 23 -   2295209 AATCATGAAAACCAGATCTCCTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031382 23 +  31815103 AATCATTAAAACTAGATCTCTTG
i micMur3.chr21             I 3 C 0
s proCoq1.NW_012140524v1      5120443 23 +  13104022 AATCATTAAAACTAGATCTCTTG
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4595438 23 -  12054995 AATCATTAAAATTAGATCTCTTG
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19747625 22 +  45876710 AATCATT-AAACTGGATCTCTAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             949460 23 -   1687904 AATCATGAAAACCAGACCTCTTg
i dasNov3.JH562883          C 0 I 218
e mm10.chr6                   2438341 385 - 149736546 I

a score=1280317.000000
s hg38.chr12_GL383549v1_alt    105595  94 +    120804 AAAGATTTCTCACAGGAAAGTAAA---------AATGCCTGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACGTTCTC-TCTCCTTTA
s panTro5.chr12              62797100  94 + 137163284 AAAGATTTCTCACAGGAAAGTAAA---------AATGCCTGCCTACTATTCTACACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACATTCTC-TCTCCTTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920897  94 + 135337776 AAAGATTTCTCACAGGAAAGTAAA---------ACTGCCTGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACGTTCTC-TCTCCTTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136330  94 -  32808036 AAAGATTTCTCACAGGAAAGTAAA---------AATGCCTGCCTACTATCCTGCACTCGTCTGTCCCA-TCCCACAAGTGAACATTTACGTTCTC-TCTCCTTTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327381  94 +  34552619 GAAGATTTCCCACAGGGAAGTAAA---------AATGCCTGCCTACTACTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACGTTCTC-TCTCCTTTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640076  94 - 133663169 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACATTCTC-TCTCCTTTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042285  94 - 137757926 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACATTCTC-TCTCCTTTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413755  94 -   7948249 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACATTCTC-TCTCCTTTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318375  94 -  10730278 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACATTCTC-TCTCCTTTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809159  94 - 128539186 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTATGTTCTC-TCTCCTTTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205166  94 +    435186 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCGCCTACTATTCTGCACTCCTCTGTCCCA-TCCCACAAGTGAACATTTACGTTCTC-TCTCCTTTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605162  94 +   9309688 AAAGATTTCCCACAGGAAAGTAAA---------AATGCCCACCTACTATTCTGCACTCCTCTGTCCCA-TCTCACAAGTGAACATTTACCTTCTC-TCTCCTTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423749  94 -  29834108 AAGAATTTCCCACAGGAAAGTGAA---------AATGCCTGCCTTCTATTCAGCACTCCTGTGTCCCA-TCCCACAAGTGAATATTTACATTCTG-TCTCCTTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874752  94 -   1015025 AAAGATTTCCCACAGGAAAGTGAA---------AATACCTGCCTACTATTCAGCACTCCTGTGTCCCA-TCCCACAAGTGAACATTTACGTTCTG-TCTCCTTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896564  94 -   2295209 AAAGATTTCCCACAGGAAAGTGAA---------AACGCCTGCCTACTATTCAGCACTCCTGTGTCACA-TCCCGCAAGTGAATATCTACGGTCTG-TCTCCTTTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031405  93 +  31815103 AAAGACTTCTGACCATCAAGTAAA---------AATGCCTGCTTACTATTCTGTGTTCCTCTGTCCCA-TCCCACAAATGA-CATTTACTTTCTC-TCTTCTTTA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5120466  93 +  13104022 AAAGACTTCTGACCGTCAAGTAAA---------AATGCCTGCTTACTATTCTGCGTTCTTCTGTCCCA-TCCCACAAGTGAGCATTTACTTTCTC-TC-CCTTTA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4595461  94 -  12054995 AAAGATTTCTGAAAATAAAGTAAA---------AATGCCTGTTTACTATTCTGCATTCCTCTGTCCTA-TTCCACAAGTGAACATTTACTTTCTC-TCTTCTTCA
i otoGar3.GL873576          C 0 I 26
s canFam3.chr27              19747647  77 +  45876710 AAAGATTTCTGACA---------------------------TCTACTCTTCTGCATTCCTCCCTCCCA-TCCTACAAGTGAACATTTGTGATCTCTTCCCCTTTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             949701 104 -   1687904 AAAGATTTCTGACATGGACATAAGATCTACCTTAAGATCTACCTATTATTCTGCATTCCTCTGTTCCATTCCCACAAGCGAATATTTACGTTCTC-TTCTCTTTA
i dasNov3.JH562883          I 218 C 0
e mm10.chr6                   2438341 385 - 149736546 I

a score=233453.000000
s hg38.chr12_GL383549v1_alt    105689 17 +    120804 TCTCATCTAAAGAAAAA
s panTro5.chr12              62797194 17 + 137163284 TCTCATCTAAAGAAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60920991 17 + 135337776 TCTCATCTAAAGAAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136424 17 -  32808036 TCTCATCTAAAGAAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327475 17 +  34552619 TCTCATCTAAAGAAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640170 17 - 133663169 TCTCATCTAAAGAAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042379 17 - 137757926 TCTCATCTAAAGAAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413849 17 -   7948249 TCTCATCTAAAGAAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318469 17 -  10730278 TCTCATCTAAAGAAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809253 17 - 128539186 TCTCATCTAAAGAAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205260 17 +    435186 TCTCATCTAAAGAAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605256 17 +   9309688 TCTCATCTAAAGAAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423843 17 -  29834108 TCTCATCTAAAGAGAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874846 17 -   1015025 TCTCATCTAAAGAGAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896658 17 -   2295209 CCTCATGTAAAGAAAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031498 17 +  31815103 TCTCATATAAGGaaaaa
i micMur3.chr21             C 0 I 98
s proCoq1.NW_012140524v1      5120559 17 +  13104022 TCTCATATAACGaaaaa
i proCoq1.NW_012140524v1    C 0 I 7
s canFam3.chr27              19747724 17 +  45876710 TCTCATCCAAAAaaaga
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             949805 17 -   1687904 TCTCATCTAAGGAAAAA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I

a score=69410.000000
s hg38.chr12_GL383549v1_alt    105706 7 +    120804 CGAAGAA
s panTro5.chr12              62797211 7 + 137163284 CGAAGAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921008 7 + 135337776 CGAAGAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136441 7 -  32808036 TGAAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327492 7 +  34552619 TGAAAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640187 7 - 133663169 TGAAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042396 7 - 137757926 TGAAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413866 7 -   7948249 TGGAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318486 7 -  10730278 TGAAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809270 7 - 128539186 TGAAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205277 7 +    435186 TGAAAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605273 7 +   9309688 TGAAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423860 7 -  29834108 TGAAAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874863 7 -   1015025 TGAAAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896675 7 -   2295209 TGAAAAA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5120583 7 +  13104022 aaaaaaa
i proCoq1.NW_012140524v1    I 7 C 0
s canFam3.chr27              19747741 7 +  45876710 agaaaga
i canFam3.chr27             C 0 I 338
s dasNov3.JH562883             949822 7 -   1687904 GGTAAAA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031515 98 +  31815103 I

a score=882769.000000
s hg38.chr12_GL383549v1_alt    105713 81 +    120804 GGAGGCTTT--AAC-AGCCCCCGATGCTGTTACAGAGTGGGG---------GAACATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAATG
s panTro5.chr12              62797218 82 + 137163284 GGAGGCTTT--AACAAGCCCCTGATGCTGTTACGGAGTGGGG---------GACCATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921015 82 + 135337776 GGAGGCTTT--AACAAGCCCCTGATGCTGTTACAGAGTGGGG---------GAACATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136448 82 -  32808036 GGAGGCTTT--AACAAGCCCCTGATGCTGTTACGGAGTGGGG---------GAACATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327499 82 +  34552619 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGGCTTCCCTTGGAGAGATGGTAGAAATGAGCAAATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640194 82 - 133663169 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGACTTCCCTTGGGGAGATGGTAGAAACGAGCAAGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042403 82 - 137757926 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGACTTCCCTTGGGGAGATGGTAGAAACGAGCAAGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413873 82 -   7948249 GGAGGCTTT--AACAAGCCCCTGATGCTGTTACGGAGTGGGG---------GAACATGACTTCCCTTGGGGAGATGGTAGAAACGAGCAAGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318493 82 -  10730278 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGACTTCCCTTGGGGAAATGGTAGAAACGAGCAAGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809277 82 - 128539186 TGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGACTTCCCTTGGGGAGATGGTAGAAACAAGCAAGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205284 82 +    435186 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACATGACTTCCCTTGGGGAGATGGTAGAAACGAGCAAGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605280 82 +   9309688 GGAGGCTTT--AACAAGCCCCTGATGCTGTTATGGAGTGGGG---------GAACAAGACTTCCCTTGGGGAGATGGTAGAAACGAGCAAGTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423867 82 -  29834108 GGAGGCGTT--AACAAGACCCTGATGGTGTTATGAAGTGGGG---------GAACATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874870 82 -   1015025 GGAGGCTTT--CACAAGACCCTGATGGTGTTGTGGAGTGGGG---------GAACATAGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896682 82 -   2295209 GGAGGCTTT--CACAAGACCCTGATGGTGTTATGGAGTGGGG---------GAACATGGCTTCCCTTGGGGAGATGGTAGAAATGAGCAAGTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5120590 80 +  13104022 aGAGGCTTT--AACAA-CCCCCGGTGGTGTTGCGGGGTGGGA---------GAAGGCGGCTTCCC-TGGGCAGATGGTAGAAGGAAGCAAACC
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19748086 88 +  45876710 gGAGTCTTT--AACAAGCCTCTGGTGATGG---GGGGTGGGGTGCTGGGCAGAATGTGGTTTCCCTAGGGAAGATGGCAGAAATAAGAAAGCA
i canFam3.chr27             I 338 I 1
s dasNov3.JH562883             949829 72 -   1687904 AGATGTTTTTAAACAGGCCCC---------TACACGATGGGG-----------ACCAGGCTT-CCTTGAGGAGGTGGTGGAAGTAAGAAAGCA
i dasNov3.JH562883          C 0 I 1
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031515 98 +  31815103 I

a score=803722.000000
s hg38.chr12_GL383549v1_alt    105794 65 +    120804 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTCT-
s panTro5.chr12              62797300 64 + 137163284 GCCCTGGGTGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921097 64 + 135337776 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136530 64 -  32808036 GCCATGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327581 63 +  34552619 GCCCTGGGAGGCAATGCACACCCCCATT-ATTT-GGGAAAACTC---------TTTTCTTGGTAAATGGGTCTC--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640276 64 - 133663169 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGAGAAAACTC---------TTTTCTTGGTAATTGGGTCTC--
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042485 64 - 137757926 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGAGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1413955 64 -   7948249 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGAGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318575 64 -  10730278 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809359 64 - 128539186 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205366 64 +    435186 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605362 64 +   9309688 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11423949 64 -  29834108 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       874952 64 -   1015025 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGtctc--
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896764 64 -   2295209 GCCCTGGGAGGCAATGCACACCCCCATT-ATTTAGGGACAACTC---------TTTTCTTGGTAATTGGGTCTC--
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031613 64 +  31815103 GCCCTGTGAGGCAATGTGCAGCACCATT-ATTTAGGGGCAACTT---------TTTTCCTGGTAATTTAGtctc--
i micMur3.chr21             I 98 I 80
s proCoq1.NW_012140524v1      5120670 64 +  13104022 GCCCTGTGAGGTGATGCGCAGCACCGTT-ATTTAGGGACAACTA---------TTTTCCTGGTAATTTAGTCTC--
i proCoq1.NW_012140524v1    C 0 I 1
s canFam3.chr27              19748175 74 +  45876710 GTCCTGTGAGACAGTGTGCACCCCTGTTAACTTAGGGACAACTCTTTTTTTTTTTTTTTTGGTAAATTAGTTTC--
i canFam3.chr27             I 1 I 1
s dasNov3.JH562883             949902 50 -   1687904 GCCCTGTGAGACAATGGGCATTCCCACC-------------------------ATCCCTTAGTGATTTAGTCCT-T
i dasNov3.JH562883          I 1 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I

a score=245398.000000
s hg38.chr12_GL383549v1_alt    105859 34 +    120804 TT---------------TTTTTTTTTCCTAGCTCCTT---TTTAAAATTTCA
s panTro5.chr12              62797364 34 + 137163284 TT---------------TTTTTTTTTCCTAGCTCTTT---TTTAAAATTTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921161 34 + 135337776 TT---------------TTTTTTTTTCCTAGCTCTTT---TTTAAAATTTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136594 34 -  32808036 TT---------------TTTTTTTTTCCTAGCTCTTT---TTTAAAATTTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327644 33 +  34552619 TC---------------TTTTTTTTT-CTAGCTCTTT---TTTAAAATTTCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640340 32 - 133663169 TC---------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042549 32 - 137757926 TC---------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414019 32 -   7948249 TC---------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318639 32 -  10730278 TC---------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809423 33 - 128539186 TCT--------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205430 33 +    435186 TCT--------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605426 32 +   9309688 TC---------------TTTTTTTT--CTAGCTCTTT---TTTAAAATTTCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424013 39 -  29834108 TCTCTCTC---------TTTTTTTTC-CTAGCTCTTT---TTTAAAATTTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875016 48 -   1015025 tctctctctctctctTTTTTTTTTTC-CTAGCTCTTT---TTAAAAATTTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896828 33 -   2295209 TC---------------TTTTTTTTT-CTAGCTCTTT---TTTAAAATTTCA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5120735 36 +  13104022 ---CTATA---------TTTTTTTCC-TTAGCTCTTT---TAAAATTTTTCA
i proCoq1.NW_012140524v1    I 1 C 0
s canFam3.chr27              19748250 27 +  45876710 -------------------CTTTTT--CTAACT-TTT---TAGAAATCTTCA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             949952 21 -   1687904 -------------------------------CTCTCtatatataaaatttaa
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I
e micMur3.chr21               3031677 80 +  31815103 I

a score=179485.000000
s hg38.chr12_GL383549v1_alt    105893 14 +    120804 ATATATTTAACTTG
s panTro5.chr12              62797398 14 + 137163284 ATATATTTAACTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921195 14 + 135337776 ATATATTTAACTTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136628 14 -  32808036 ATATATTTACCTTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327677 14 +  34552619 ATATATTTAACTTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640372 14 - 133663169 ATATATTTAACTTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042581 14 - 137757926 ATATATTTAACTTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414051 14 -   7948249 ATATATTTAACTTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318671 14 -  10730278 ATATATTTAACTTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809456 14 - 128539186 ATATATTTAACTTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205463 14 +    435186 ATATATTTAACTTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605458 14 +   9309688 ATATATTTAACTTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424052 14 -  29834108 ATATATTTAACTTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875064 14 -   1015025 ATATATTTAACTTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896861 14 -   2295209 ATATATTTAACTTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031757 14 +  31815103 ATATATTTGACTTC
i micMur3.chr21             I 80 C 0
s proCoq1.NW_012140524v1      5120771 14 +  13104022 ATACATTTAACTTC
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19748277 14 +  45876710 ATATATTCAATTCC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             949973 14 -   1687904 taatatttaaCTCC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2438341 385 - 149736546 I

a score=5691689.000000
s hg38.chr12_GL383549v1_alt    105907 436 +    120804 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCAGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTCTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACGAGAAGCGAGGTTTT--TCCAGAGGTGGTGGGTTAAAGATCTTGATTCTGCAACCGGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATATATGATGCAAACCTTTTTGAAGCTAACAGTTAAGTAACTTTTGTGTTTGTGTCTCGCCTCATCAAATCTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
s panTro5.chr12              62797412 436 + 137163284 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGGGCTGCTGGGAAAG-TTCTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACGAGAAGCGAGGTTTT--TCCAGAGGTGGTGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATATATGATGCAAACCTTTTTGAAGCTAACAGTTAAGTAACTTTTGTGTTTGTGTCTCGCCTCATCAAATCTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCTAGCCACCCACAATGGTTAGACAAATGACAGAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921209 436 + 135337776 CAGAGAAGTCATGTCATTTAAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTCTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACGAGAAGCGAGGTTCT--TCCAGAGGTGGTGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATATATGATGCAAACCTTTTTGAAGCTAACAGTTAAGTAACTTTTGTGTTTGTGTCTCGCCTCATCAAATCTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3136642 436 -  32808036 CAGAGAAGTCGTGGCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTCTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGAGAGACTCCTAGCATGACTAGAAGCGAGGTTTT--TCCAGAGGTGGTGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATATATGATGCAAACCTTTTTGAAGCTAACAGTTAAGTAACTTTTGTGTGTGTGTCTCACCTCGTCAAATCTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTTTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7327691 436 +  34552619 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCTCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGCAAGGTTTT--TCCAGAGGTGGCGTGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATATATGATGCAAACCTTTTTGAGGCTAACAGTTAAGTAACTTTTATGTTTGTGCCTCACCTCATCAAATCTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640386 436 - 133663169 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGTGATGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATACAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCTGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTACGTTTCGCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109042595 436 - 137757926 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGTGATGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATACAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCTGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCGTTTCGCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414065 436 -   7948249 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGTGATGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATACAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCTGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCGTTTCGCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8318685 436 -  10730278 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGTGATGGGATAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATGTAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCCGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTAAATATATTCTGTCTTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809470 436 - 128539186 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGTGATCGGTTAAAGATCTTGATTCTGCAACCAGTGAGATTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATGCAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCTGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205477 436 +    435186 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCTCATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGTGAGGTTTT--TCCAGAAGCGATGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATATGTATGATGCAAACCTTTTTGAGGCTAATAGTTAAGTAACTTCCGTGTTTGTGTCTCACCTCATCAAATTTTGGTTCTTCAATATATTCTGTCTTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605472 436 +   9309688 CAGAGAAGTCATGTCATTTGAGGTAAGTTTTCTGAGAATGTTCACATTTTATCACCTCCCTGCTGATTCCCTTGTACTCCTCTGAGCTGCTGGGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAAGCGAGGTTTT--TCCAGAGGTGATGGGTTAAAGATCTTGATTCTGCAACCAGTGGGCTTT---TCATTATTTCTC-CTCTCAGTTTTAGAAGAGGAGAGGATGTCAAATGTATATGATGCAAACCTTTTTGAGGCTAACAGTTAAGTAACTTCTGTGTTTGTGTCTCACCTCATCAAATTTTAGTTCTTAAATATATTCTGTCCTTAATCTAGACTTAGTTTACCTGCATTTCTCTCTA-TCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424066 435 -  29834108 CAGAGAAGTCATGTCATTTGAGGTAAATTTTCTGAGAATGTTCTCAATTTATCACCTCCCTGCTGATTCCTTTGTACTTCTCTGAGCGGCGCAGAAAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGCATGACTAGAACTGAGGTTTT--TCCAGAGGTAGTGGGTTAGAGATCTTGATTCTGTAACCAGCGAGCGTT---TCATTATTTCTC-CTCTAAGTTTTAGAAGAGGAGAGGA-GTCAAATATATATGATGCAAATCTCTTTGAGGCCAACAGTTAAGTAACTTTTGGGTTTGTGTCCCGCCTTATCAAATGTTGGTTCTTAAATATATTCTGTCCTCAATCTAGACTTAGTTTACCTGTATTCCTCTCTA-GCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875078 431 -   1015025 CAGAGAAGTCATGTCATTTGAGGTAAATTTTCTGAGAATGTTCTCAATTTATCACCTCCCTGCTGATTCCCTTGTACTTCTCTGAGCGGCTTGGAGAG-TTTTGAAT--CTATTTTCTCTTGACTAATTGG----GACAGACTCCTAGCATGACTAGAACCGAGGTTTT--TCCAGAGGTAGTGGGTTAAAGATCTTGATTCTGCAACCAGTGAGCTTT---TCACTATTTCTC-CTCTTAGTTTTAGAAGAGGAGAGGA-GTCAAATATATATGACGCAAATCTCTTTGAGGCCAACAGTTAAGTAACTTTTGTGTTTGTGTCTCGCCTCATCAAATCTTGGTTCTTAAATATATTCTGTCCTCAATCTAGACTTAGTTTACCTGCAATCCTCTCTA-GCCCCATAACTTCCAGCCACCCACAATGGTTAGACAAATGACAGAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1896875 434 -   2295209 CAGAGAAGCCATGTCATTTGAGGTAAATTTTCTGAGAATGTTCTCAATTTATCACCTCCCTGCTGATTCCCTTGTACTTCCCTGAGCGGCTTGGAAAG-TTTTGAAT--CTA-TTTCTCTTGACTAATTGGGTCAGACAGACTCCTAGAATGACTAGAACTGAGGTTTT--TCCAGAGGTAGTGAGTTAAAGATCTTGATTCTGCAACTGGTGAGCTTT---TCATTATTTCTC-CTCTTAGTTTTAGAAGAGGAGAGGA-GTCAAATACATATGACGCAAATCTCTTTGAGGCCAACAGTTAAGTGACTTTTGTGTTTGTGTCTCGCCTCATCAAATCTTGGTTCCTAAATATATTCTGTCCTCAATCTAGACTTAGTTTACCTGCATTCCTCTCTA-GCCCCATAACTTCCAGCCACTCACAATGGTTAGACAAATGACAGAAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3031771 427 +  31815103 CAGAGAAGTCATGTCATTTGAGGTAGGGTTTCAGAGAATGTTCTCAATGGGTCACTTCCCTGCTGATTCTTTTGTACATTTTTAAGCTTGTTTGAAGG-TTTTGAAT--CTATCTTCTCTTGACTAATTGGGTCAAGTGGACTCCTAGGATGACTAGAGCCAAAGCTTT--TCCA-AGAGGATGGGTTAAAGATCTTTATTCTGCAACCACTAAGCTTT---TCATTATTT----ATCTTAGATTTGGAAGATAAGAGGATGTCACCTGTCTATGACATAAATCTTTTTGAGACTCAC-----AGTACCTTTTCCGTTTATCTCTCACCTTGTCAGATCTTGGTTCTCAACTATAGTCTATCCTTAATCTAGGCTTCTTTTACCTGCATTCCTCTCCA-GCCCCCAAAACTCCAACCACCCAGGATGATTAGACAGACCATAGAAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5120785 428 +  13104022 CAGAGAAGTCATGTCATTTGAGGTAGGTTTTCAGAGAATGTTCTCAATGTGTCACTTCCCTGCTGATTCTTTTGTACATTTCTGAGCTTGTTTGAAAG-TTTTGAAT--CTATCTTCTCTTGACTAATTGGGTCAGGTGGACTCCTAGGATGACTAGAGCCAAAGCTTT--TCCAGAGATGGTAGGTTAAAGATCTTTATTCTGCAACCACTAAGCTTT---TCATTATTT----CTCTTAGTTTTGGAAGATAAGAGGATGTCACATGTCTACGACATAAATCTTTTTGAGACTCAC-----AGTACCTTTTACGTTTATCTCTCACCTTGTCAAATCTTGGTTCTTAACTATAGTCTATCCTTAATCTAAGCTTGTTTTACCTGTATTCCTCTCCA-GCCCCCAAAACTCCAACCACCCATGATGGTTAAACAGACCACAGAAT
i proCoq1.NW_012140524v1    C 0 I 17
s mm10.chr6                   2438726 401 - 149736546 CGGAGAAGACATGTCATTTCAAATAAGTTGTCTTAGCATGGT------------CCTCTATG----TTCTCTGGCATTTTTC-AAACTTTGATGGAAG-CTTTGAGT------------TTGACC-ACTGGGTCAGGTAGACTTCTAGAACAAGTAGAGCTTTGGGTCT--TCAAGAGGCCATA-GTTGAAGATCTTCATCCTGCAACTCATCAGTTTTCAGCCTTCCTTTCTC-TCCTCA-TTTTGGAAGAAGAAAGGATATCACACTTGTGTCATTAGAAAACCTAGAAAGCTACCATT--AGCAACTTCTGTGCTTACCTCTTACCTCTTCAAATCTTAGTCCCCAAG---ATTTTACTGTTAATCTAGACGTAATTTATCCTCATTCCTTCCCA-ACCCACTAATCATCAAATATCCACAGTGGTTAGACCACT---ATATT
i mm10.chr6                 I 385 I 9
s canFam3.chr27              19748291 426 +  45876710 CACAGAGGTCAAGTCACTTGAAGTAGATTTTCTTAGAATGCTCTCAATTTATCACTTCCCTGCTACTGCCCTTGTACTTTCCTGAGT---TTGGAGAG-CTCTGAATCTCTATTTCTCCTTGACCAATTGGATCAGACGGACTTCCAGGATGATTAGAACCAAAGTTTTTCTCCAGAAGGGGTTAGTTAAAGATCTTTACCCTGAAGCTAGTGAGATTT----CATGATTTCTCTCTCTTAGTCTTGGGAGAGTAGAGGATTTCAAACATAAAAGACCAAAGTCTTTGGAGAGCTAATGCTTATGTAACTTTAGAGTGTATATCCTGCCTTATCAAATCTTGGTTCTTAAATGTATTCTATCCATAATCCAGATGTAGTTTACCTGCATTCCTCCTCA-GTCCCATAACCTCCAACAACCCATGATGG-----------GCATGGT
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             949987 413 -   1687904 AAGAGAAATCATGTAGTTTGAAATAGGTTTTCTGACAATGCTTGCAATTTGTTATTTCCCTGTGGTTTCTCTTGTACTATTTTGAGCTTCATGGAAAGCTTTTGAATCTCTATTTCCTCTTGACTAATTTGGTCAAGTGAACTTCTGGGAT---------TAAGGTTTT--TACAGAGGTGATGAGTTAAAGATTTTCATTCTGCAACCAGTGAGCTTT---GAATTATTT----CTCTTAGTTTTGGAAGAGAAGAGGATGGCAAATTTATAT-----AAGATTTTTTGAGGCTAACAGTTAAGTAACCTTTAAGTTTATCTCTCATTTCCTTAAATCTTGGTTCCTAAAAGTATTTCACCCTGAGTATAGA----------CTGCACTTTTCCCAGCTCCCCTCAACCTCCAACCACCCACGATGCTTAGACAGATCATAGAAT
i dasNov3.JH562883          C 0 I 5
e otoGar3.GL873576            4595555  26 -  12054995 I

a score=17031.000000
s hg38.chr12_GL383549v1_alt    106343 2 +    120804 CT
s panTro5.chr12              62797848 2 + 137163284 CT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921645 2 + 135337776 CT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137078 2 -  32808036 CT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328127 2 +  34552619 CT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640822 2 - 133663169 CT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043031 2 - 137757926 CT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414501 2 -   7948249 CT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319121 2 -  10730278 CT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809906 2 - 128539186 CT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205913 2 +    435186 CT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605908 2 +   9309688 CT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424501 2 -  29834108 CC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875509 2 -   1015025 CC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897309 2 -   2295209 CC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032198 2 +  31815103 TT
i micMur3.chr21             C 0 I 31
s mm10.chr6                   2439136 2 - 149736546 AT
i mm10.chr6                 I 9 C 0
s canFam3.chr27              19748718 2 +  45876710 TT
i canFam3.chr27             I 1 I 8
s dasNov3.JH562883             950405 2 -   1687904 TT
i dasNov3.JH562883          I 5 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e proCoq1.NW_012140524v1      5121213 17 +  13104022 I

a score=138651.000000
s hg38.chr12_GL383549v1_alt    106345 16 +    120804 TTTCTTATTGGATCAG
s panTro5.chr12              62797850 16 + 137163284 TTTCTTATTGGATCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921647 16 + 135337776 TTTCTTATTGGATCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137080 16 -  32808036 TTTCTTATTGGATCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328129 16 +  34552619 TTTCTTATTGGATCGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640824 16 - 133663169 TTTCTTATTGGATTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043033 16 - 137757926 TTTCTTATTGGATTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414503 16 -   7948249 TTTCTTATTGGATTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319123 16 -  10730278 TTTCTTATTGGATTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809908 16 - 128539186 TTTCTTATTGGATTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205915 16 +    435186 TTTCTTATTGGATTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605910 16 +   9309688 TTTCTTATTGGATTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424503 16 -  29834108 TTTTTCGTTGAATAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875511 16 -   1015025 TTTTTCGTTGAATAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897311 16 -   2295209 TTTTTCATTGAATAGG
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2439138 12 - 149736546 TTTCTTGTCAGG----
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19748728 16 +  45876710 TGTTTTGTTTGGTTTG
i canFam3.chr27             I 8 I 72
s dasNov3.JH562883             950407 16 -   1687904 TTTTTTTTTTGACAGG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e micMur3.chr21               3032200 31 +  31815103 I
e proCoq1.NW_012140524v1      5121213 17 +  13104022 I

a score=142209.000000
s hg38.chr12_GL383549v1_alt    106361 13 +    120804 CAAAGGGCACCAA
s panTro5.chr12              62797866 13 + 137163284 CAAAGGGCACCAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921663 13 + 135337776 CAAAGGGCACCAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137096 13 -  32808036 CAAAGGGCACCAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328145 13 +  34552619 CAAAGGGCACCAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640840 13 - 133663169 CAAAGGGCACCAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043049 13 - 137757926 CAAAGGGCACCAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414519 13 -   7948249 CAAAGGGCACCAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319139 13 -  10730278 CAAAGGGCACCAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809924 13 - 128539186 CAAAGGGCACCAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205931 13 +    435186 CAAAGGGCACCAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605926 13 +   9309688 CAAAGGGCACCAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424519 13 -  29834108 CAAAGGGTACCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       875527 13 -   1015025 CAAAGGGCACCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897327 13 -   2295209 CAAAGGGCACCCA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5121230 12 +  13104022 CAAAGGGCACTG-
i proCoq1.NW_012140524v1    I 17 C 0
s mm10.chr6                   2439150 13 - 149736546 TATTGGGCACTCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19748816 13 +  45876710 CTGAGGGCAGTCA
i canFam3.chr27             I 72 C 0
s dasNov3.JH562883             950423 13 -   1687904 CAAACTTCACCCA
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e micMur3.chr21               3032200 31 +  31815103 I

a score=873351.000000
s hg38.chr12_GL383549v1_alt    106374 64 +    120804 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
s panTro5.chr12              62797879 64 + 137163284 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921676 64 + 135337776 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137109 64 -  32808036 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328158 64 +  34552619 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640853 64 - 133663169 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTTCTTCCTTTTAAGAAATCTACCAGAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043062 64 - 137757926 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414532 64 -   7948249 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319152 64 -  10730278 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100809937 64 - 128539186 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       205944 64 +    435186 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3605939 62 +   9309688 CCTATTTCACCTGAATTTAGTCC--ATGATCTCTAGTTCCTTCCTTTTAAGAAATCTACCAGAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424532 64 -  29834108 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTGATTCCTTCCTTTTAAGAAATCTGCCAGgg
i saiBol1.JH378123          C 0 I 287
s cebCap1.NW_016107911v1       875540 64 -   1015025 CCTATTTCACCTGAATTTAGTCCCTATGATCTCTAATTCCTTCCTTTTAAGAAATCTGCCAGAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897340 64 -   2295209 CCTATTTCACCCGAATTTAGTCCCTATGATCTCTAATTCCTTCTTTTTAAGAAATCTGCCAGAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032231 64 +  31815103 CCCACTTCCTCTGAATTTAGGCCCTGTGATCTCTAGTTCCTCTCTTATAAGAAATCAACCACAG
i micMur3.chr21             I 31 I 2
s proCoq1.NW_012140524v1      5121242 64 +  13104022 CCCACTTCCTCTGAATTTAGGCCCTGTGATCTCTAATTCCTCTCTTATAAGAAATCTACCACAG
i proCoq1.NW_012140524v1    C 0 I 2
s mm10.chr6                   2439163 61 - 149736546 --CCTTCCTCTGGAGTCTAGACCTAATATTCTCTA-TTCTTTGCTCATGATAAGTCTACAAGAG
i mm10.chr6                 C 0 I 7
s canFam3.chr27              19748829 62 +  45876710 CCTATTTCTTCTGAATTCAGAAC-AATAAT-TCTAGTTCTTTGTTCATGAGAAATCTACAGCAG
i canFam3.chr27             C 0 I 2
s dasNov3.JH562883             950436 64 -   1687904 CCTACTCCCTCTGAATTTAGGAGCTGTGATCTCTAGGTCCTTCCTTATGAGAAATCTACGAGAG
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I

a score=851297.000000
s hg38.chr12_GL383549v1_alt    106438 82 +    120804 TCCACATCTTTTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTCTGATAACTCCT-AGAGCAAGGTAGCAAGAGTAACAGGGC
s panTro5.chr12              62797943 80 + 137163284 TCCACATC--TTTATACGGGTTAGATTTTACTCTCT---------TCTCTTTCTGATAACTCCT-AGAGCAAGGTAGCAAGAGTAACAGGGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921740 82 + 135337776 TCCACATCTTTTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTCTGATAACTCCT-ACAGCAATGTAGCAAGAGTAACAGGGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137173 80 -  32808036 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTCTGATAACTCCT-AGAGCAAGGTAGCAAGAGTAACAGGGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328222 80 +  34552619 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTCTGATAACTCCT-AGAGCAAGGTAGGAAGAGTAACAGGGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640917 80 - 133663169 TCCACATA--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043126 80 - 137757926 TCCACATA--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414596 80 -   7948249 TCCACATA--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319216 80 -  10730278 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810001 80 - 128539186 TCTACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206008 81 +    435186 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCCCTTTCTGATAACTCCTAAAAGCAAGGTAGCAAGAGTAACAGGGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606001 80 +   9309688 TCCACATC--TTTACACAGGTTAGATTTTACTCTTT---------TCTCTTTCTGATAACTCCT-AAAGCAAGGTAGCAAGAGTAACAGGGC
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875604 80 -   1015025 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTGTGATAACTCCT-ACAGCAAAGTAGCAAGAGTAACAGGGC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897404 80 -   2295209 TCCACATC--TTTATACAGGTTAGATTTTACTCTCT---------TCTCTTTGTGATGACTCCT-ACAGCAAAGTAGCAAGAGTAACAGGGC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032297 80 +  31815103 TCCTCAT---TTTATACAGGTTAGATTTCCCATTCT---------TCTCTCTCTAATAACTCCTCAGAGCAAGGTAGCAAGAGTAACAAGGC
i micMur3.chr21             I 2 C 0
s proCoq1.NW_012140524v1      5121308 79 +  13104022 TCTGCAT---TTTGTACAGGTTAGATTTCCCATTCT---------TCTCTCTCCAATAACTCCT-AGAGCAAGGTAGCAAGAGTAATAAGGC
i proCoq1.NW_012140524v1    I 2 C 0
s mm10.chr6                   2439231 87 - 149736546 TACACCAC--CATAGTATGGATAGATTGTG-TCTGTGCATGACTGTCCCTTTCTAA-GACTTTA-GGGGCATGATTGTTACATTCACTGACC
i mm10.chr6                 I 7 I 170
s canFam3.chr27              19748893 76 +  45876710 TCCTCATT--TTCATAAAATTTAGATTTT--CCTCT---------TCTCTT--CAAGAATTCCT-GAAGCAACGTAGCAAGATCAAGGGGGT
i canFam3.chr27             I 2 C 0
s dasNov3.JH562883             950500 76 -   1687904 CACCCATT--TTCATACAGGTTA-ATCTTCCTCTCT---------TCTCTCTCCTAT-ACTCCC-GAGGGCAGGTAGCAGGAGCAACAGC--
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=115031.000000
s hg38.chr12_GL383549v1_alt    106520 11 +    120804 ACACTAATCCC---
s panTro5.chr12              62798023 11 + 137163284 ACACTAATCCC---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921822 11 + 135337776 ACACTAATCCC---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137253 11 -  32808036 ACACTAATCCC---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328302 11 +  34552619 ACACTAATCCT---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104640997 11 - 133663169 ACACTAATCCC---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043206 11 - 137757926 ACACTAATCCC---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414676 11 -   7948249 ACACTAATCCC---
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319296 11 -  10730278 ACACTAATCCC---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810081 11 - 128539186 ACACTAATCCC---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206089 11 +    435186 ACACTAATCCC---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606081 11 +   9309688 ACACTAATCCT---
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875684 11 -   1015025 ACACTGATCCC---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897484 11 -   2295209 ACACTGATCTG---
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032377 11 +  31815103 ACACTGATGCC---
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5121387 11 +  13104022 ACACTGATGCC---
i proCoq1.NW_012140524v1    C 0 C 0
s canFam3.chr27              19748969 11 +  45876710 ACACTGAGGCC---
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             950576 14 -   1687904 ACACTGATGTCCTT
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4595555 26 -  12054995 I
e mm10.chr6                   2439318 170 - 149736546 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=1167954.000000
s hg38.chr12_GL383549v1_alt    106531 98 +    120804 GTGTAGAAAGATGGTATCTGCTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGGAATTCTTAAATTCGCTGACCCTACATTTCTCAACAATCAG
s panTro5.chr12              62798034 98 + 137163284 GTGTAGAAAGATGGTATCTGCTCGTGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCGCTGACCCTACATTTCTCAACAATCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921833 98 + 135337776 GTGTAGAAAGATGGTATTTGCTCGTGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCGCTGACCATACATTTCTCAACAGTCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137264 98 -  32808036 GTGTAGAAAGATGGTATCTGCTCGTGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCGCTGACCCTACATTTCTCAACAATCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328313 98 +  34552619 GTGTAGAAAGATGGTATCTGCTCGTGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAACTTCGCTGACCCTACGTTTCTCAACAATCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641008 98 - 133663169 ATGTAGAAAGATGGTGTCTGCTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTATGTTTCTCAACAATCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043217 98 - 137757926 ATGTAGAAAGATGGTGTCTGCTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTATGTTTCTCAACAATCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414687 98 -   7948249 ATGTAGAAAGATGGTGTCTGCTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTATGTTTCTCAACAATCAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319307 98 -  10730278 ATGTAGAAAGATGGTGTCTGTTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTACGTTTCTCAACAATCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810092 98 - 128539186 ATGTAGAAAGATGGTGTCTGCTCATGACTATCACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTACATTTCTCAACAATCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206100 98 +    435186 ATGTAGAAAGATGGTGTCTGCTCGTGACTATGACTTCTCTAGGTTACTAGAAACAGGCAATTCTTAAATTCACTGACCCTGTGTTTCTCAACAATCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606092 98 +   9309688 ATGTAGAAAGATGGTGTCTGCTCGTGACTATCACTTCTCTAGGTTACTAGAAACAGGCAGTTCTTAAATTCACTGACCCTACGTTTCTCAACAATCAG
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875695 98 -   1015025 ATGTAGAAAGATGGTGTCTGCTCATGACTGTCACTTCTCTAGGTTGCTAGAAACAGGCAAGTCTTAAATTCGCTGACCCTACATTTCTCAACAATTAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897495 98 -   2295209 GTGTAGAAAGATGGTGTCTGCTCATGACTGTCACTTCTCTAGGTTGCTAGAAACAGGCAATTCTTAAATTCGCTGACCCTACATTTCTCAACAATCAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032388 91 +  31815103 ATATAGACAGATGGTATCTGCTCCTCACTATCTCTTCTCTAAGGCACTAGAAACAG-------TTAAATTCAATGACCCTACATTTCTCAACCATCAA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5121398 91 +  13104022 ATATAGACAAATGGTATCTGCTCCTGACTATCTCTTCTCTAAGACACTAGAAACAG-------TTAAATTCACAGACCCTACATTTCTCAACAATCAA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4595581 91 -  12054995 GTGGAGACAGACGGTATCTGTTCCTTACTATCTCCTCTATAGGTCACCAAAAACAG-------TAAAATTCACTGAATCTACTTTTCTCAACAACCAA
i otoGar3.GL873576          I 26 C 0
s canFam3.chr27              19748980 94 +  45876710 TTGTAGAAAGATGGTATCTGTTTATGACTAGCACTTCTTTAGAGCACTAGAGACA----ATTATTAATTTCATTGAACCTATATTTCTCAATACTCAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             950590 97 -   1687904 GGAAAGAAAGATGCCCTCTGTTCATGCCTCGCCCTTCTCTAGAGTGACAGAGGCAG-CAATTCTTCATCTCACCACGCCTGTATTTCTCAACAATCAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2439318 170 - 149736546 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=609453.000000
s hg38.chr12_GL383549v1_alt    106629 51 +    120804 CACCATCTG---------TTTTTCAGGTTCCATCCATTCCTTGACTACATGAGGA-AGTCT
s panTro5.chr12              62798132 51 + 137163284 CACCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921931 51 + 135337776 CACCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137362 51 -  32808036 CACCATCTG---------TTTTTCAGCTTCTATCCATTCCTTGACTACATGAGGA-AGTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328411 51 +  34552619 CACCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641106 51 - 133663169 CATCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043315 51 - 137757926 CATCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414785 51 -   7948249 CATCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319405 51 -  10730278 CATCATTTG---------TTTTTCAGCTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810190 51 - 128539186 CATCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206198 51 +    435186 CATCATCTG---------TTTTTCAGTTTCCATCCATTCCTTGCCTACATGAGGA-AGTTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606190 51 +   9309688 CATCATCTG---------ATTTTCAGTTTCCATCCATTCCTTGACTACATGAGGA-AGTTT
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875793 51 -   1015025 CACCATCTC---------TTTTTCCGTTTCCATCCATTCCTTGACTACATATAGA-AGTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897593 51 -   2295209 CACCATCTA---------TTTTTCAGTTTCCATCCATTCCTTGACTACATGTGGA-AGTCT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032479 51 +  31815103 CACCATCTA---------ATTTTCAATTTCCATCCATTCTTTTCCTACATGCCAA-AGTAT
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5121489 51 +  13104022 CACAACCTA---------ATTTTCCATTTCCATCCATTCCTTCACTATATGCCAA-AGTAT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4595672 60 -  12054995 TACCATCCAATTTATCTCATTTTCAATTTCCATCCATTTCTTTACTACATGCCAA-AGTAT
i otoGar3.GL873576          C 0 I 232
s mm10.chr6                   2439488 51 - 149736546 tacaGTCTA---------TGTTCTGTTTTCCATCCTCTCCTTGACTATGTGGTGA-AGTGT
i mm10.chr6                 I 170 C 0
s canFam3.chr27              19749074 50 +  45876710 CACCATCTA---------TATTTTAATTT--ATCTCCTTTTTGACTATAGGCAGATTATCT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             950687 46 -   1687904 CACT--------------AATTTCAATTTCCATCTGTTCCTTGACCACATGAGGA-AGTCT
i dasNov3.JH562883          C 0 C 0
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=423467.000000
s hg38.chr12_GL383549v1_alt    106680 35 +    120804 GTGTCTTAAAATTTTTAGATTATCTGAATCTAGTA
s panTro5.chr12              62798183 35 + 137163284 GTGTCTTAAAATTTTTAGATTATCTGAATCTAGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60921982 35 + 135337776 GTGTCTTAAAATTTTTAGATTATCTGAATCTAGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137413 35 -  32808036 GTGTCTTAAAATTTTTAGATTATCTCAATCTAGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328462 35 +  34552619 GTGTCTTAGAATTTCTAGATTATCTGAATCTAGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641157 35 - 133663169 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043366 35 - 137757926 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414836 35 -   7948249 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319456 35 -  10730278 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810241 35 - 128539186 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206249 35 +    435186 GTGTCTTACAATTTTTAGATTATCTAAATCTAGGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606241 35 +   9309688 GTGCCTTACAATTTTTACATTATCTAAATCTAGGA
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875844 35 -   1015025 ATGTCTTAGAATTTTTAGATTATCTTAATCTAGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897644 35 -   2295209 GTATCTTATAATTTTTAGATTATCTGAATCTAGTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3032530 35 +  31815103 CTGTCTTCTAATTTTTAGATTCTCTGAATCTAGTA
i micMur3.chr21             C 0 I 698
s proCoq1.NW_012140524v1      5121540 35 +  13104022 CTGTCTTCTAATTTTTAGATTCTCTCAATCTAGTA
i proCoq1.NW_012140524v1    C 0 I 9
s otoGar3.GL873576            4595964 35 -  12054995 GTATCTTCTAATGTATAGATTCTCTAAATCTAGTA
i otoGar3.GL873576          I 232 I 9
s mm10.chr6                   2439539 35 - 149736546 CTATCTTCTGATTTTTAGGTTTTCTGAATCTAATA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19749124 32 +  45876710 --GTCTTTCCATTT-TAGTTGCTCTCAATCTAAGA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             950733 35 -   1687904 CTATCTTCCAATTTTTAGACATTCTGCATTTGGTA
i dasNov3.JH562883          C 0 C 0
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=1219096.000000
s hg38.chr12_GL383549v1_alt    106715 121 +    120804 AGa--------atttaattataattaat--tataatgtacaattgaaaatatTTTCAAATTCTTTCTGTGACTTTAGTACCTTCCTAAATAAAA----TAAATT-TAAGGATGATGGTAAGACTATTGTCTAAGTA
s panTro5.chr12              62798218 121 + 137163284 AGa--------atttaattataattaat--tataatgtacaattgaaaatatTTTCAAAGTCTTTCTGTGACTTTAGTACCTTCCTAAATAAAA----TAAATT-TAAGGATGATGGTAAGACTATTGTCTAAGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922017 121 + 135337776 AGa--------atttaattataattaat--tataatgtacaattgaaaatatTTTCAAACTCTTTCTGTGACTTTAGTACCTTCCTAAATAAAA----TAAATT-TAAGGATGATGGTAAGACTATTGTCTAAGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137448 121 -  32808036 AGa--------atttaattataattaat--tataatgtacaattgaaaatatTTTCAAATTCTTTCTGTGACTTTAGTACCTTCCTAAATAAAA----TAAATT-TAAGGATGATGGTAAGACTATTGTCTAAGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328497 121 +  34552619 AGa--------atttaattataattaat--tataatgtacaattgaaaatatTTTCAAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641192 121 - 133663169 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTTGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043401 121 - 137757926 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414871 121 -   7948249 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319491 121 -  10730278 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810276 121 - 128539186 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206284 121 +    435186 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606276 121 +   9309688 AGA--------ATTTAATTATAATTAAT--TATAATGTACTATTGAAAATATTTTCGAATTCTTTCTGTGACTTTAGTGCCTTCCTAAATAAAA----TAAATT-TAAGGATGATAGTAAGACTATTTTCTAAGTA
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875879 104 -   1015025 AG------------------------AT--TATAATGTACAATTG-AAATATTTTCAAATTCTTTCTGTGACTTTAGTGCCTTCCTCAATAAAA----TAAATT-TAAGGTTGACAGTAAGACTATTTTCTAAGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897679 120 -   2295209 AGG--------atttaattataattaat--tataatgtacaattG-AAATATTTTCAAATTCTTTCTGTGACTTTAGTGCCTTCCTGAATAAAA----TAAATT-TAAGGATGACAATAAGACTATTTTCTAAGTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5121584 127 +  13104022 AGAC---ACTTAGTTAATTACAGTTAGC--TATAATGTACAATTGAAAATATTGTCAGATTTCTTTTGTGAAGTTAAGGCCTTCCTAAATAAAA----AAAAAAATAAGGATGATAGTAAGACTATTTTCTAAATA
i proCoq1.NW_012140524v1    I 9 C 0
s otoGar3.GL873576            4596008 109 -  12054995 AGAC---ACCTAGTCTATTACAGTTATCTATATAATGTACAATTAAAAATATTTTTGGATTCCTTTTGTGATGGTAAGGTCTTCC--------------------TAAGGATGATAGTAAGACTATTGTC----TA
i otoGar3.GL873576          I 9 C 0
s mm10.chr6                   2439574 115 - 149736546 ---GTA-ATTTAGTTAATGATGGTTAAT--TGTGATGTTCAACTTAAAATATTTTCAGGTTATGTTTGTGACTTTAAGTCCTTCTTAAATAATAAGTTAAAAAA-TAAGGATGGTAGTAAG--------------A
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19749156 120 +  45876710 --------CACTTTTAATTATGGTTAAT--TATAACTTATACTTAAAAACATTTCCAGATTCCTTTTGCAACTTTAAGGCCTTCCTGAATGAAA-----ATATT-TAAGAGCTAgggacgcctgagtggctcagtg
i canFam3.chr27             C 0 I 326
s dasNov3.JH562883             950768 121 -   1687904 ----GATACTCAGGTAACAATGGTCGAT--TATAATGTAC-ACTGGAAATATTTTCAGATTCTTTTTGTG-CTTTAG-ACCTTCCTGAATAAAA-----ATATT-TAAGGCTAAGTATAAGTCTATGTTCTAAATA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3032565 698 +  31815103 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=179034.000000
s hg38.chr12_GL383549v1_alt    106836 17 +    120804 CCATTAAAAATAGACAT
s panTro5.chr12              62798339 17 + 137163284 CCATTAAAAATAGACAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922138 17 + 135337776 CCATTAAAAATAGACAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137569 17 -  32808036 CCATTAAAAATAGACAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328618 17 +  34552619 CTATTAAAAATAGACAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641313 17 - 133663169 CTATTAAAAATAGACAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043522 17 - 137757926 CTATTAAAAATAGACAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1414992 17 -   7948249 CTATTAAAAATAGACAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319612 17 -  10730278 CTATTAAAAATAGACAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810397 17 - 128539186 CTATTAAAAATAGACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206405 17 +    435186 CTATTAAAAATAGACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606397 17 +   9309688 CTATTAAAAATAGACAT
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       875983 17 -   1015025 CTATTAATCATAAACAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897799 17 -   2295209 CTATTAATCATAGACAT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5121711 17 +  13104022 CTATTAAAAATATACAT
i proCoq1.NW_012140524v1    C 0 I 547
s otoGar3.GL873576            4596117 17 -  12054995 CTGCTAAAAATATACAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2439689 17 - 149736546 CCATTAAAAATATTCAC
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             950889 16 -   1687904 -CTGTAAAAATATAAAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=613528.000000
s hg38.chr12_GL383549v1_alt    106853 64 +    120804 GGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatccgctgt
s panTro5.chr12              62798356 64 + 137163284 GGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatccgctgt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922155 64 + 135337776 GGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatccgctgt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137586 64 -  32808036 GGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatctgctgt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328635 64 +  34552619 TGAAGTCACTGGGAACACAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641330 64 - 133663169 TGAAGTCACTGGGAACCAAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043539 64 - 137757926 TGAAGTCACTGGGAACCAAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415009 64 -   7948249 TGAAGTCACTGGGAACCAAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319629 64 -  10730278 TGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810414 64 - 128539186 TGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206422 64 +    435186 TGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606414 64 +   9309688 TGAAGTCACTGGGAACCCAAAATATTCTTTGGATGTTG-----g-----aatctctgtccacaaaatcagctgt
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876000 64 -   1015025 TGCAGTCACTGGGAGCCCAAAATATTCTTTGGATAGTG-----g-----aatctcagtccacaaactcagctgt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897816 65 -   2295209 TGAAGTCACTGGGAGCCCAAAATATTCTTTGGATAGTT----Cg-----aatctcagtccacaaactcagctgt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4596134 69 -  12054995 CTGAATCACTGAGCACTCAGAATATCCTTTGAATAATGGTCATG-----AATCTTAGTCCATAAAATCAGTTGT
i otoGar3.GL873576          C 0 I 19
s mm10.chr6                   2439706 69 - 149736546 CAGAGTCACTGTGGGCCCCAAATACCCTTTGGATGGTG-----GTCATCCATCTTGGCTCTCAAAATTGGATCT
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             950905 69 -   1687904 TTTGGTTAATAGGGGCCCAGAATATCCTTTAGATGGTGGTCCtg-----agtctcagtccacaaaattagctgt
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=318273.000000
s hg38.chr12_GL383549v1_alt    106917 46 +    120804 gtaagagatgtaacttcctttgtttttctataattgaacttaatt----t---
s panTro5.chr12              62798420 43 + 137163284 gtaagagatgtaacttcctttgttttcctataattgaacttaa----------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922219 43 + 135337776 gtaagagatgtaacttcctttgttttcctataattgaacttaa----------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137650 50 -  32808036 gtaagagatgtaacttcctttgtttttctatagttgaacttaatttttct---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328699 43 +  34552619 gtaagagacgtaacttcctttgtttttctataattgagcttaa----------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641394 43 - 133663169 gtaagagatgtaacttcctttgtttttccataagtgaacttaa----------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043603 43 - 137757926 gtaagagatgtaacttcctttgtttttccataagtgaacttaa----------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415073 43 -   7948249 gtaagagatgtaacttcctttgtttttccataagtgaacttaa----------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319693 46 -  10730278 gtaagagatgtaacttcctttgtttttccataactgaacttaatt----t---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810478 43 - 128539186 gtaagagatgtaacttcctttgtttttccataactgaacttaa----------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206486 43 +    435186 gtaagagatgtaacttcctttatttttccataactgaacttaa----------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606478 43 +   9309688 gtaagaaatgtaacttcctttgtttttctataactgaacttat----------
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876064 43 -   1015025 gtaagagatgtcacttcctttatttttctataattgagcttaa----------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897881 43 -   2295209 gtaagagatgtcacttcctttatttttctatcattgaacttag----------
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2439775 37 - 149736546 ACAAAAGATG------ACTTCATTTTTCTACAACTAAAGTTGA----------
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             950974 40 -   1687904 gtagaag------ctctctctattttgctataactgactctaa-------ttt
i dasNov3.JH562883          C 0 I 1204
e otoGar3.GL873576            4596203 19 -  12054995 I
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=864544.000000
s hg38.chr12_GL383549v1_alt    106963 127 +    120804 cttt-----------------ttttttttttttgagatagggtctcactctgttgcccaagctggagtgcagtggtgagatctcagctcactgcagcctcgacctcccaggctgaagtgctcctcccacctcagcctcctgagt
s panTro5.chr12              62798463 126 + 137163284 -ttt-----------------ttttttttttttgagatagggtctcactctgttgcccaagctggagtgcagtggtgagatctcagctcactgcagcctcgacctcccaggctgaagtgctcctcccacctcagcctcctgagt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922262 122 + 135337776 ----------------------tttttttttttgagatagggtctcactctgttgcccaagctggagtgcagtggtgagatctcagctcactgcagcctcgacctcccaggctgaagtgctcctcccacctcagcctcctgagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137700 127 -  32808036 tttt-----------------ttttttttttttgagatacggtctcattctgttgcccaagctggagtgcagtggtgagatctcagctcactgcagcctcgacgtgccaggctgaaattctcctcccacctcagcctcctgagt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328742 125 +  34552619 --tt-----------------ttttttttttttgagataaggtctcactctgttgcccaagctggagtgcagtggtgagatctcagctcactgcagcctcaacctcccaggctgaagtgctcctcccacctcagcctcctgagt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641437 127 - 133663169 tttt-----------------tttttttttttaaagatagggtctcactctgtcacctaggctggagtacagtggtgagatctcagctcactgcagccttgacctcccaggctgaagtgctcctcccacctccacctcctgagt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043646 127 - 137757926 tttt-----------------ttttttttttttaagatagggtctcactctgtcacctaggctggagtacagtggtgagatctcagctcactgcagccttgacctcccaggctgaagtgctcctcccacctccacctcctgagt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415116 125 -   7948249 --tt-----------------ttttttttttttaagatagggtctcactctgtcacctaggctggagtacagtggtgagatctcagctcactgcagccttgacctcccaggctgaagtgctcctcccacctccacctcctgagt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319739 127 -  10730278 tttt-----------------ttttttttttttaagatagggtctcactctgtcacctaggcgggagtacagtggtgagatctcagctcactgcagccttgacctcccaggctgaagtgctcctcccacctccacctcctgagt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810521 142 - 128539186 ttttttatt--tttatttttatttttattttttcagatagggtctcactctgtcacccaggctggagtgcagtggtgagatctcagctcactgcagccttgacctctcaggctgaagtgctcctcccacctccacctcctgagt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206529 127 +    435186 tttt-----------------ttttttttttttaagatagggtctcactctgtcacctaggctggagtacagtggtgagatctcagctcactgcagccttgacctcccaggctgaagtgctcctcccacctccacctcctgagt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606521 144 +   9309688 ttatttatttatttatttatttatttattttttgagatagggtctcactctgttacccaggctggagtgcagtggtgagatctcagctcactgcagccttgacctcccaggttgaagtgttcctcccacctccacctcctgagt
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876107 119 -   1015025 -------------------------tttttttccagatacggtcttactctgttgcccaggctggagtgcagtggtgagatctcagctcactgcagccttaacctcctgggctcaagggctcctcccacctcagcctcccaagt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1897924 119 -   2295209 -------------------------ttttttttcagatagggtctcactctgttgcccaggttggagtgcagtggtgagatctcagctcactgcagccttaacctcctgggctcaagggctcctaccacctcagcctcccgaat
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2439812  44 - 149736546 TTTT--------------------------------AAAAGTCCTCAAGTTTCTGCCAAAGCTG------------------------------AGCCTTGTC--------------------------------------AGT
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4596203  19 -  12054995 I
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=782299.000000
s hg38.chr12_GL383549v1_alt    107090 105 +    120804 agccgggactacaggcacgaacaaccacgcctagctaatttttgta-ttttgtagagacaaggtttcgccatattgcccgagctggtctcaaactcctgagctcaa
s panTro5.chr12              62798589 105 + 137163284 agccgggactacaggcacaaacaaccacacctagctaatttttgta-ttttgtagagacaaggtttcgccatgttgcccgagctggtctcaaactcctgagctcaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922384 105 + 135337776 agccgggactacaggcacgaacaaccacacctagctaatttttgta-ttttgtagagacaaggtttcgccatgttgcccgagctggtctcaaactcctgagctcaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137827 105 -  32808036 agccgggactacaggcacgaacaaccacgcctagctaatttttgta-ttttgtagagacaaagtttcgccatgttgcccaagctggtctcaaactcctgagctcaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328867 105 +  34552619 agctaggactacaggcacaaacaaccacgcctagctaatttttgta-ttttgtagagacaaggtttcaccatgttgcccgagctggtctcaaactcctgagctcaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641564 105 - 133663169 aactgggactacaggcacgaacaatcatgcccagctaacttttgcg-ttttgtagagacaaggtttcaccatgttgcctgaactggtctcaaactcctgagctcaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043773 105 - 137757926 aactgggactacaggcacgaacaatcatgcccagctaacttttgcg-ttttgtagagacaaggtttcaccatgttgcctgaactggtctcaaactcctgagctcaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415241 105 -   7948249 aactgggactacaggcacgaacaatcatgcccagctaacttttgcg-ttttgtagagacaaggtttcaccatgttgcctgaactggtctcaaactcctgagctcaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319866 105 -  10730278 aactgggactagaggcacgaacaatcatgcccagctaacttttgcg-ttttgtagagacaaggtttcaccatgttgcccgaactggtctcaaactcctgagctcaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810663 105 - 128539186 tactggtactacaggcatgaacaaccatgcccagctaacttttgta-ttttgtagagacaaggtttcaccatgttgcctgaactggtctcaaactcctgagctcaa
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206656 105 +    435186 aactgggactacaggcacgaacaatcatgcccagctaacttttgcg-ttttgtagagacaaggtttcaccatgttgcccgaactggtctcaaactcctgagctcaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606665 105 +   9309688 acctgggactacaggcacgaacaaccatgcccagctaacttttgta-ttttgtagagacaaggtttcaccatgttgcctgaactgatctcaaactcctgagctcaa
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876226 106 -   1015025 ggctgggactacaggcatgaaccaccatgcccagctaatttttgtatttttgtagagacaaggtgtcaccatgttgcccgagctggtctcaaactcttgatctcaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898043 106 -   2295209 ggctggaactacaggcacgaaccaccatgcccagctaatttttgtatttttgcagagacaaggttttaccatgttccctgagctggtctcaaactcttgatctcaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4596203  19 -  12054995 I
e mm10.chr6                   2439856   0 - 149736546 C
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=95367.000000
s hg38.chr12_GL383549v1_alt    107195 12 +    120804 gcgatctgcctg
s panTro5.chr12              62798694 12 + 137163284 gcgatctccctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922489 12 + 135337776 gcgatctgcctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137932 12 -  32808036 gcgatctgcctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328972 12 +  34552619 gcaatccgcctg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641669 12 - 133663169 gcaatccgcctg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043878 12 - 137757926 gcaatccgcctg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415346 12 -   7948249 gcaatccgcctg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319971 12 -  10730278 gcaatccgcctg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810768 12 - 128539186 gcaatccgcctg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206761 12 +    435186 gcaatccgcctg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606770 12 +   9309688 gcaatccgcctg
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876332 12 -   1015025 gtgatctgcctg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898149 12 -   2295209 gtgatctgcctg
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2439856 12 - 149736546 GTGGCCCACCTG
i mm10.chr6                 C 0 C 0
e otoGar3.GL873576            4596203 19 -  12054995 I
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=372059.000000
s hg38.chr12_GL383549v1_alt    107207 50 +    120804 cctcaggctccccaagtgctgggattacaggtatgagccaacatatccag
s panTro5.chr12              62798706 50 + 137163284 cctcaggctccccaagtgctgggattacaggtatgagccaacatatccag
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922501 50 + 135337776 cctcaggctccccaagtgctgggattacaggtatgagccaacatatccag
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137944 50 -  32808036 cctcaggctccccaagtgctaggattacaggtatgagccaacatatccag
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7328984 50 +  34552619 cctcatgctcccaaagtgctgggattacaggtatgagccaccgcatctag
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641681 50 - 133663169 cgtcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043890 50 - 137757926 cgtcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415358 50 -   7948249 cgtcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8319983 50 -  10730278 cctcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810780 50 - 128539186 cctcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206773 50 +    435186 cctcaggctccccaagtgctgggattacaggtatgagccactgcatccag
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606782 50 +   9309688 cctcaggctccccaagtgctgggattataggtatgagccaccacatccag
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876344 50 -   1015025 cctaagcctcccaaagtgctgggattataggcatgagccaccacatccag
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898161 50 -   2295209 cctaagcctcccaaagtgctgggattataggcatgagccaacacatccag
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4596203 19 -  12054995 I
e mm10.chr6                   2439868  0 - 149736546 C
e micMur3.chr21               3032565 698 +  31815103 I
e canFam3.chr27              19749276 326 +  45876710 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=687122.000000
s hg38.chr12_GL383549v1_alt    107257 84 +    120804 ccagaacttaatttttattatataagtcctcatgcttcaggtagaagaa----acttaagcccagtcaatttatccctgccaccctcc
s panTro5.chr12              62798756 84 + 137163284 ccagaacttaatttttattatataagtcctcatgcttcaggtagaagaa----acttaagcccagtcaatttatccctgccacccttc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922551 84 + 135337776 ccagaacttaatttttattatgtaagtcctcatgcttcaggtagaagaa----acttaagcccagtcaatttatccctgccaccctcc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3137994 84 -  32808036 ccagaacgtaatttttattatataagtcctcatgcttcaggtagaagaa----acttaaacccagtccatttatccctgccaccctcc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329034 84 +  34552619 ccagaacttaatttttattatataagtcctcgtgcttcaggtagaagaa----acttaagcccagtcaatttatccctgccaccctcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641731 88 - 133663169 ccagaacttaaattttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109043940 88 - 137757926 ccagaacttaaattttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415408 88 -   7948249 ccagaacttaaattttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320033 88 -  10730278 ccagaacttaaattttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810830 88 - 128539186 ccagaacttaaattttattatataagtccccatgcttcagatagaagaaacttacttaagcccagtcaatgtatccttgccacccttc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206823 88 +    435186 ccagaacttaaattttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606832 88 +   9309688 ccagaacttaatttttattatataagtcctcatgcttcaggtagaagaaacttacttaagcccagtcaatttatccctgccacccttc
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876394 84 -   1015025 ccagaacttaatttttgttatataagctctcatgcttcaggtagaaaaa----agttaagcccaatcagtttatccctgtcaccctcc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898211 84 -   2295209 ccagaacttaatttttgttatataagttctcatgcttcaggtagaaaaa----acttaagcccaatcagtttatccctgtcaccctcc
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19749602 78 +  45876710 actgaacttaattttca--atataaactttcatgcttcagttaggagaa----ggttaaacccagtcaacgtaggcttgtcatt----
i canFam3.chr27             I 326 C 0
e otoGar3.GL873576            4596203 19 -  12054995 I
e mm10.chr6                   2439868  0 - 149736546 C
e micMur3.chr21               3032565 698 +  31815103 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=2365593.000000
s hg38.chr12_GL383549v1_alt    107341 282 +    120804 ctctccctggagttgtgtataatttccagaagagtttatgtggtgccagagcctgagaggtatgtcctctt---agagtcg-tcacctatccaTGGTGACATGTATTCAGCTGTCTTGCTTCTGTCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCC------------------A------------------CCACAGG--CTCTCCATGTCTGCGTATTT--------ATCTGTCCGTTT--ACCTGCctgtctg--tctctctctctgttttttatctgtacttttctctctcttctGGCACATGGGATCCTTTTGCTTCTCTTACA
s panTro5.chr12              62798840 284 + 137163284 ctctccctggagttgtgtataatttccagaagagtttatgtggtgccagagcctgagaggtatgtcctctta--agggtcg-tcacctatccaTGGTGACATGTATTCAGCTGTCTTGCTTCTGTCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCC------------------A------------------CCACAGG--CTCTCCATGTCTGCGTATTTC-------Atctgtccattt--acctgcctgtctg--tctctctctctgttttttatctgtacttttctctctcttctGGCACAGGGGATCCTTTTGCTTCTCTTACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922635 283 + 135337776 ctctccctggagttgtgtataatttccagaagagtttatgtggtgccagagcCTGAGAGGTATGTCCTCTT---AGAGTCA-TCACCTATCCATGGTGACATCTATTCAGCTGTCTTGCTTCTGTCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCC------------------A------------------CCACAGG--CTCTCCATGTCTGCGTATTTC-------Atctgtccgttt--acctgcctgtctg--tctctctctctgttttttatctgtacttttctctctcttctGGCACATGGGATCCTTTTGCTTCTCTTACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138078 283 -  32808036 ctctccctggagttgtgtataatttccagaagagtttatgtggtgccagagcctgagaggtatgtcctctt---agagtcg-tcacctatccaTGGTGACATGTATTCAGCTGTCTTGCTTCTGTCTCGTCTCTGACCCCATGTCAGTATAGGTCACTGTCC------------------A------------------CCACAGG--CTCTCCATGTCTGCGTATTTC-------Atctgtccgttt--acctgcctgtctg--tctctctctctgttttttatctgtacttttctctctcttctgGCACATGGGATCTTTTTGCTTCTCTTACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329118 281 +  34552619 ctctccctggagttgtgtataatttccagaagagtttatgtggtgccagagcctgagaggtatgtcctctt---agagtcg-tcacctatccaTGGTGACATGTATTCAGCTGTCTTG---CTATCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCC------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--acctgcctgtctgtctctctctctctgttttttatctgttcttttctctctcttctgGCACATGGGATCCTTTTGCTTCTCTTAC-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104641819 280 - 133663169 ctctccctggagtcgtgtataatttccaggagagtttatgtggtgccagagcctgagaggGATGTCCTCTT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCATCTCTGACCGCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctctctcttctGGTGCATAGGATCCTTTTGCTTCTCTTACA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044028 280 - 137757926 ctctccctggagtcgtgtataatttccaggagagtttatgtggtgccagagcctgagagggatgtcctctT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCATCTCTGACCCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctctctcttctGGTGCATAGGATCCTTTTGCTTCTCTTACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415496 280 -   7948249 ctctccctggagtcgtgtataatttccaggagagtttatgtggtgccagagcctgagagggatgtcctctT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCATCTCTGACCCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctctctcttctGGTGCATAGGATCCTTTTGCTTCTCTTACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320121 280 -  10730278 ctctccctagagtcgtgtataatttccaggagagtttatgtggtgccagagcctgagagggatgtcctctT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtgtttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctctctcttctGGTGCATAGGATCCTTTTGCTTCTCTTACA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100810918 280 - 128539186 ctctccctggagttgtgtataatttccaagagagtttatgtggtgccagagcctgagaggGATGTCCTCTT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCGTCTCTGACTCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctgtctCTTCTGGTGCATGGGATCCTTTTGCTTCTCTTACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       206911 280 +    435186 ctctccctggagtcgtgtataatttccaggagagtttatgtggtgccagagcctgagagggatgtcctctT---AAAGTTG-TCACCTATCCATGGTGACATGTATTCAGCTGTCTTGCTTCTATCTCGTCTCTGACCCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------gtctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatctgtacttttctctctcttctGGTGCATAGGATCCTTTTGCTTCTCTTACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3606920 280 +   9309688 ctctccctggagttgtgtataatttccaggagagtttatgtggtgccagagcctgagaggGATGTCCTCTT---AAAGTTG-TCACCTATCCATGGTGACATGCATTCAGCTGTCTTGCTTCTATCTCATCTCTGACCCCATGTCAATATAGGTCACTGTCT------------------A------------------CCACAGG--CTCTCCAtgtctgtgtatttc-------atctgtccattt--gcctgcctgtctg--tctctctctgtg---tttatgtgtacttttctctgtcttctgGTGCATGGGATCCTTTTGCTTCTCTTACA
i colAng1.NW_012114364v1    C 0 C 0
s cebCap1.NW_016107911v1       876478 278 -   1015025 ctctccctggagttgtgtataatttccaggggagtttatgtggtgccagagcctgagaaggatatcttctt---acagttg-tcacctatccatggtGACACATATCCAGCTGTCTTGCTTCTATCTCATCTCTGACCCCATGTCAATATAAGTCACTGTCC------------------A------------------CCACAGC--CTCTCCATGTCTGTGTATTTC-------ATTTGTCCATTT--ACCTGCCTGTCTG----TCTCTATGTG---TTTATCTGTACTTTTCTGTCTCTGCTGGCACATGGGATCCTTTCACTTCTCTTAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898295 277 -   2295209 ctctccctggagttgtgtataatttccaggagagtttatgtggtgccagagcctgagaggGATATCTTCTT---ACAGTTG-TCACCTTTCCATGGTGACATGTATCCAGCTGTCTTGCTTCTATCTCATCTCTGACCCCGTGTCAATATAAGTCACTGTCC------------------A------------------CCACAGG--CTCTCCATGTCTGTGTATTTC-------A-TTGTCCATTT--ACctgtctgtctg----tctctatgtg---tttatctgtacttttctctctctgctgGCACATGGGATCATTTTGCTTCTCTTACA
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2439868 259 - 149736546 CTCTCTCTGGAGTTGAGTCTAATCTCCAGAG----TCAGGTGGTACCAAAGGCTGAG--GGATGTCATCTT---GAGGAAGTTCCCCTATCCATGGTGACATCTCTCCAGCTCTCTATTATATTTCTACTCGTTGGTTCCTTGTCTACATAGCTCACTGTTCTATTGTCCCTTCTTCCTAA------------------CTACAAGAACTGTTTGTGTCTATAT---------------TGTTCTGTC--ACACACCTGTCTG-----------GTG---TTAGGCTGTGCTTTTCTCTCT-------------------TTTGACCTCTCTTACA
i mm10.chr6                 C 0 I 7
s canFam3.chr27              19749680 306 +  45876710 ctctccctggagttatgtctaatttctagga-agtct---tggtatccaagcctgag-ggggtgTCATTTTATCAGCCTCA-TCACCAAACCACAATGACATTTGTCCTGCTGTTCTGTTTCTAACTGGTCTTTGATTCCATGTCCATTGACGTCACTACTC------------------AGTTGTTCTCCCTTCCTATTTACAAGGCTTCTCCATGTCTGTCTATATCTGTTTATACCTACCTATTTAAACCTGTCCGTTTA--TGTCATTTTCTT---CTAATGTCCATGCTTCTCCCT-TTTTGGGGCATGGGATCCTTCTGTTTCCCTTACA
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4596203  19 -  12054995 I
e micMur3.chr21               3032565 698 +  31815103 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e saiBol1.JH378123           11424596 287 -  29834108 I

a score=425196.000000
s hg38.chr12_GL383549v1_alt    107623 53 +    120804 AAAGAAAGGG-------AAACCCAAATGAGACGATCAACAGGC--------------CATCTGGGTGTACAGGA
s panTro5.chr12              62799124 52 + 137163284 AAAGAAAGGG-------AAACCC-AATGAGACGATCAACAGGC--------------CATCTGGGTGTACAGGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922918 52 + 135337776 AAAGAAAGGG-------AAACCC-AATGAGACGATCAACAGGC--------------CATCTGGGTGTACAGGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138361 52 -  32808036 AAAGAAAAGG-------AAACCC-AATGAGACGATCAACAGGC--------------CATCTGGGTGTACAGGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329399 52 +  34552619 AAAGAAAGGG-------AAACCC-AATGAGATGATCAACAGGC--------------CATCTGGGTGTACAGGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642099 52 - 133663169 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CCTCTGGGTGTATAGGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044308 52 - 137757926 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CCTCTGGGTGTATAGGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415776 52 -   7948249 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CTTCTGGGTGTATAGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320401 52 -  10730278 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CATCTGGGTGTATAGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811198 52 - 128539186 ACACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CATCTGGGTGTATAGGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207191 52 +    435186 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CATCTGGGTGTATAGGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607200 52 +   9309688 AAACAAAGGG-------AAACCC-AGTGAGATGATCAACAGGC--------------CATCTGGGTGTATAGGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424883 52 -  29834108 aaataaaGGG-------AAACCT-AATGAGACCACCAACATGC--------------CATCTGGGTGTATATGA
i saiBol1.JH378123          I 287 C 0
s cebCap1.NW_016107911v1       876756 52 -   1015025 AAATAAAGGG-------AAACCT-AATGAGACCACCAACATGC--------------CATCTGGGTGTATATGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898572 52 -   2295209 AAATAAAGGG-------AAACCT-AATGAGACCACCAACATGC--------------CATCTGGGTGTATATGA
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2440134 63 - 149736546 AGGCTGTAGG-------GAACCA-GGGATGGTCATAAATTGTCCTATGTCGTAGCTGCTCCCAGGGTCACA---
i mm10.chr6                 I 7 C 0
s canFam3.chr27              19749986 59 +  45876710 AAAGGCTGGGTTACAGAAAACCC-AATGTGACTGTGAAGAAGC--------------CATCACTGTTTGCAAAC
i canFam3.chr27             C 0 I 1
e otoGar3.GL873576            4596203 19 -  12054995 I
e micMur3.chr21               3032565 698 +  31815103 I
e proCoq1.NW_012140524v1      5121728 547 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=1410947.000000
s hg38.chr12_GL383549v1_alt    107676 125 +    120804 GTGATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATCTCAAGTCCATCAGCGTGGACATACTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGTTCCTCCTGAGAAAGGGGACCCA
s panTro5.chr12              62799176 125 + 137163284 GTGATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATCTCAAGTCCATCAGCGTGGACATACTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGTTCCTCCTGAGAAAGGGGACCCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60922970 123 + 135337776 GTGATTATAAGGCTCCAG-GAC--GTGGAAATTCTGTGAGGTCATCTCAAGTCCATCAGCGTGGACATACTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGTTCCTCCTGAGAAAGGGGACCCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138413 125 -  32808036 GTGATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATCTCAAGTCCATCAGCGTGGACATACTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGTTCCTCCTAAGAAAGGGGACCCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329451 125 +  34552619 GTGATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATCTCAAGTCCATCAGCGTGGACATACTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642151 125 - 133663169 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCATCGGCATGGACATTCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044360 125 - 137757926 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCATCGGCATGGACATTCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415828 125 -   7948249 GTAATTATAAGGCTCCAA-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCATCGGCATGGACATTCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320453 125 -  10730278 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCATCGGCATGGACACGCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGCGACCCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811250 125 - 128539186 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGCCCATCGACATGGACACGCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207243 125 +    435186 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCATCGGCATGGACACGCTTCACAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607252 125 +   9309688 GTAATTATAAGGCTCCAG-GACATGTGGAAATTCTGTGAGGTCATTTCAAGTCCGTCAGCATGGACACACTTCATAG-AGAC-TTCTACTTGCCCACTCCTTAAGCTCTTCCTGAGAAAGGGGACCCA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11424935 125 -  29834108 GTAACTATAAGGCTCCAG-GACTTGTGGAAATTCTGTGAGGCCCTCTCAAGTCCATCAGCATGGACATAATTCACAG-AGCC-TTCTACTTGTCCAGTCCTTAAGCTCTTCCTGGGAAAGGGGACCCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       876808 125 -   1015025 GTAACTATAAGGCTCCAG-GACTTATGGGAATTCTGTGAGGCCATCTCAAGTCCATCATCATGGACATAGTTCACAG-AGCC-TTCCACTTGCCCATTCCTTAAGCTCTTCCTGGGAAAGGGGACCCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898624 125 -   2295209 GTAACTATAAGGCTCCAG-GACTTGTGGAAATTCTGTGAGGCCATCTCAAGTCCATCAGCATGGACATAGTTCATAG-AGCC-TTCTACTTGCCCACTCCTTAAGCTCTTCATGAGAAAGGGGACCTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3033263 127 +  31815103 GTGATTGTAAAGCTCCAG-GGCACTCGGAAATTCTGTGAGACCATCACAAGTCCATCTACGTAGGCACATTACATAGCAGCCTTTCTACTAGCCAACTCTGTAAGCTCTTCCTGggaaaggggaccca
i micMur3.chr21             I 698 C 0
s proCoq1.NW_012140524v1      5122275 127 +  13104022 GTGATTGTAAAGCTCCAG-GGCACGTGGAAATTCTGTGAGATTATGACAAGtccatccatgtggacatcgtgcatagcagcctttctactagccaactccctaagctcttcctgggaaaggggaccca
i proCoq1.NW_012140524v1    I 547 I 303
s mm10.chr6                   2440197  67 - 149736546 GTCTCTATAGAGCTTTGG-GACTTGAGCACAGTC-ATGAGTCCGTCACAGGTCCATCAACCTGGACAGA-----------------------------------------------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750046 128 +  45876710 GCTCTTGGATAGCTCCAGAAACATGTGGAAATTCTATGAGGCCATCTCAGTTCCATCAGCCTGAACACGCTACATAGCAGACTTTCTACTTGCCACCTTCCTCAGTTCTTCCCAGAAGAGAGAATCCA
i canFam3.chr27             I 1 C 0
e otoGar3.GL873576            4596203  19 -  12054995 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=855330.000000
s hg38.chr12_GL383549v1_alt    107801 84 +    120804 GGCCTTCATTGCTCTCAAATCTTCAAATCCAAAGCCAGCTTGGATTTCAGTTATCC-CCTACTCTGAACCTgagagagggagaga
s panTro5.chr12              62799301 84 + 137163284 GGCCTTCATTGCTCTCAAATCTTCAAATCCAAAGCCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923093 84 + 135337776 GGCCTTCATTGCTCTCAAATCTTCAAATCCAAAGCCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTGCgagagggagaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138538 84 -  32808036 GGCCTTCATGGCTCTCAAATCTTCAAATCCAAAGACAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329576 84 +  34552619 GCCCTTCATTGCTCTCAAATCTTCAAATCCAAAGCCAGCTTGGATTTTAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642276 84 - 133663169 GGCCTTCATCGCTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044485 84 - 137757926 GGCCTTCATCGCTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1415953 84 -   7948249 GGCCTTCATCGCTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagaaggagaga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320578 84 -  10730278 GGCCTTCATCACTCTCAAATCTTCAAATCCAAAGTCTGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811375 84 - 128539186 GGCCTTCATTGCTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CTTACTCTGAACCTgaaagagggagaga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207368 84 +    435186 GGCCTTCATCACTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607377 84 +   9309688 GGCCTTCATTGCTCTCAAATCTTCAAATCCAAAGTCAGCTTGGATTTCAGTTGTCC-CCTACTCTGAACCTgagagagggagaga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425060 84 -  29834108 GGACTTCATTGCTCTCAAATCCTCAAATCCAAAGCCAGCTTGGATTTCAGTTGTTC-CCTACTCTGAACCTgagagaaggagaga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       876933 84 -   1015025 GGACTTCATTGCTCTCAAATCCTCAAATCAAAAGCCAGCTTGGATTTCAGTTGTTC-CCTACTCTGAACCTgagagagggagaga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898749 84 -   2295209 GGCCTTAATTGCTCTCAAATCCTCAAATCCAAAGCCAGCTTGGATTTCAGTTGTCC-CCTATTCTGAACCTgagagagggagaga
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3033390 77 +  31815103 ggtctccattgccctcaaatcctc------caaaccagcttggattccagttg-cc-cctactttgaaccagagaaagagagaga
i micMur3.chr21             C 0 I 228
s mm10.chr6                   2440264 34 - 149736546 GGCACACATTT---------------------AGTCAGCCTGGA----------------ACTCCAAACCT--------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750174 65 +  45876710 ---------GGCCCTCAAACCCCCCAAACCAAA------TTGAATTTCAGTTGGCCTCCTCCTTTGAACCTGAGGGAGAG-----
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4596203 19 -  12054995 I
e proCoq1.NW_012140524v1      5122402 303 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=199554.000000
s hg38.chr12_GL383549v1_alt    107885 51 +    120804 c--agag----agacagagagagagagagagagagagagagagaAGCATGAACCCTT
s panTro5.chr12              62799385 55 + 137163284 c--aaagagacagacagagagagagagagagagagagagagagaAGCATGAATCCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923177 47 + 135337776 c--aaag----agac----agagagagagagagagagagagagaAGCATGAATCCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138622 38 -  32808036 c--aaag----agac-------------gacagagggagagagaAGCATGAACCCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329660 43 +  34552619 c--agag----agac--------agagagagagagagagagagaAGCATGAACCCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642360 43 - 133663169 c--agag----agag--------agagagagagagagagagagaAGCATGAACCCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044569 43 - 137757926 c--agag----agag--------agagagaaagagagagagagaAGCATGAACCCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416037 43 -   7948249 c--agag----agag--------agagagaaagagagagagagaAGCATGAACCCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320662 43 -  10730278 c--agag----agag--------agagagaaagagagagagagaAGCATGAACCCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811459 39 - 128539186 c----------agag--------agagagaaagagagagagagaAGCATGAACCCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207452 45 +    435186 cagagag----agag--------agagagaaagagagagagagaAGCATGAACCCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607461 45 +   9309688 cagagag----agaa--------agagaaagagagagagagagaAGCATGAACCCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425144 27 -  29834108 c--agag----agag------------------------agagagGCATGAGTCCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877017 25 -   1015025 c----ag----agag------------------------agagagGCATGAGTCCTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898833 25 -   2295209 c----ag----agag------------------------agacagGCATGAGCCCTT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2440298 21 - 149736546 ------------------------------------AGAAGAGAAGTATGAGCCTCT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750239 12 +  45876710 ---------------------------------------------GCAGGAGCCCTT
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4596203 19 -  12054995 I
e micMur3.chr21               3033467 228 +  31815103 I
e proCoq1.NW_012140524v1      5122402 303 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=1848416.000000
s hg38.chr12_GL383549v1_alt    107936 199 +    120804 CTTCCTCCAGGA-TCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTATGTACTTGTGCACTTG------TATGCATCACTGGAGGCACTTAG--TTGTGTTCATTTAGGGGCAGGGTGGGGTGGGAAGATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
s panTro5.chr12              62799440 199 + 137163284 CTTTCTCCAGGA-TCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCGCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTATGTACTTGTGCACTTG------TATGCATCACTGGAGGCACTTAG--TTGTGTTCATTTAGGGGCAGGGGGCAGTGGGAAGATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923224 199 + 135337776 CTTTCTCCAGGA-TCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCGCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTATGTACTTGTGCACTTG------TATGCATCACTGGAGGCACTTAG--TTGTGTTCATTTAGGGGCAGGGGGCGGTGGGAAGATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138660 197 -  32808036 CTTTCAT--GGA-TCACATTGTTTGTTCACCTCCTGCTTCCCTTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGCATCACTGGAGGCACTTAG--CTGTGTTCATTTAGGGGCAGGGGGCGGTGGGAAGATGCCACAGGAAGC----------CATCATAAGGTTTCCACCAAGTCTG-----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329703 201 +  34552619 CTTTCTCCAGGA-TCACGTTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGTGTGTGTGCTTGTGCACTTG------TATGCATCAGTGGAGGCACTTAGTTTTGTGTTCATTTAGGGGCAGGGAGGGGTGGGAAGATGCCACGGGAAGC----------CGTCATAAGGTTTCTACCAAGTCTG-----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642403 198 - 133663169 CTTTCTCCAGGA-CCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGCATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGGTGGGGT-GGAAAATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044612 198 - 137757926 CTTTCTCCAGGA-CCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGCATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGGTGGGGT-GGAAAATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416080 198 -   7948249 CTTTCTCCAGGA-CCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGCATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGATGGGGT-GGAAAATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320705 198 -  10730278 CTTTCTCCAGGA-CTACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGCATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGGTTGGGT-GGAAAATGCCACAGGAAGC----------CGTCATAAGGTTTCTACCAAGTCTG-----
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811498 199 - 128539186 CTTTCTCCAGGA-CCAGATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGCTTAGGGGATCTTTGCTTGTGTGTGTACTTGTGCACTTG------TATGCATCCATGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGGTGGGGTGGGAAAATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207497 198 +    435186 CTTTCTCCAGGA-CCACATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGGTTTAGGGGATCTTTGCTTGCGTGTGTACTTGTGCACTTG------TATGTATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGGTGGGGT-GGAAAATGCCACAGGAAGC----------CATCATAAGGTTTCTACCAAGTCTG-----
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607506 199 +   9309688 CTTTCTCCAGGA-CCACATTTTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCTACTCCCTGGTTTAGGGGATCTTTGCTTGCATGTGTACTTGTGCACTTG------TATGCATCAGTGGAGGTACTTAG--TTGTGTTCATTTAGGGGCAGGCTGGGGTGGGAAAATGCCACAGGAAGC----------CATCATAAGATTTCTACCAAGTCTG-----
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425171 209 -  29834108 CTTTCCCCAGGA-CCACATTGTTT----ACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGCTTTAGGGGATCTGTGCTTGC--ATGTTCTTGTGTACTTGTATGCCTATGCCTCAGTGGAGGCACTTAG--TTGTGTTCATTTAGGGGCAGAGTGGGGTGAGAAGATGCCACAGGAAGCCTTCTTTTTCTATCACAAGGTTTCTACCAAGTCTG-----
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877042 207 -   1015025 CTTTCTCCAGGA-CCATATTGTTTGTTCACCTCCTGCTTCCCCTTAAA-TGCTCCCCACTCCCTGCTTTAGGGGATCTTTGCTTGC--ATGTTCTTGTGCACTTG------TATGCATCAGTGGAGGCACTTAG--TTGTGTTCATTTAGGGGCAGAGTGGGGTGAGAAGATGCCACAGGAAGCCTTCTTTTTCCATCATAAGGTTTCTACCAAGTCTG-----
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1898858 204 -   2295209 CTTTCTCCAGGA-CCACATTGTTGGTTCACCTCCTGCTTCCCCTTAAA-TGTGCCCCACTCTCTGCTTTAGGGGATCTTTGCTTGC--ATGTACTCGTGCACTTG------TATGCATCAGTGGAGGCACTTGG--TTTTGTTCATTTAGGGGCAGAGTGGGGTGGGAAGATGCCACAGGAAGC---CTTTTTCCATCATAAGATTTCTATTAAGTCTG-----
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4596222 182 -  12054995 CTTTCTCAAGGACCCACGTTGTCTGTTCATTT----CTTCTC-----------CCCCAGCCCCTG--TCAGGGAACCTTTGCTCACATGTGTACTCACGCACCTG------CA-GCATCCCCGGAGGTACTGGA--CTGGGTTCATTT-GGGGCA----------GAAAGATGCCACAGGCAGCCTTCTCTTTGCAGCCTAAGCTTGTCCCCAAATCTA-----
i otoGar3.GL873576          I 19 I 5
s mm10.chr6                   2440319 162 - 149736546 CTTCACTCAAGA-CC-----------------------------TAGC-AAGTCTTCCTTCCTCAGTCAAGGGGATCTGTACT-----GAGCATAGCTGCACATT------CATGAATCAATGGCGGTC-------CTGTGTGCATCTGTG---AGATGTGGGTAGGAAGTCCCTGCAGGGAGC-----ATTTTTGAAATAAGCTTTCTTCTGAATCTA-----
i mm10.chr6                 C 0 I 5
s canFam3.chr27              19750251 150 +  45876710 CTTTCTCCAGGA-T-------TCAGTTCACTTTCTGCTTCCTCTTAAATTGTTCCCCACTCTCTGGCATAGGGACTCTCTGCTCATGTATGT--------ACTTG------TA----------------------------------------------------GGAGAATGCCACAGGAATCCTCCTTTTTGCGTCATGATCTTTTCCCCAAATCTATTTCA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033467 228 +  31815103 I
e proCoq1.NW_012140524v1      5122402 303 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=814463.000000
s hg38.chr12_GL383549v1_alt    108135 63 +    120804 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
s panTro5.chr12              62799639 63 + 137163284 TTTCCTCCG---AATGAGGCTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923423 63 + 135337776 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138857 63 -  32808036 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329904 63 +  34552619 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---T-ACAGA-GGGCCTGGGATTTCGAAACTCAAAAGCCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642601 63 - 133663169 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i rheMac8.chr11             C 0 I 3
s macFas5.chr11             109044810 63 - 137757926 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i macFas5.chr11             C 0 I 3
s macNem1.NW_012011422v1      1416278 63 -   7948249 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i macNem1.NW_012011422v1    C 0 I 3
s cerAty1.NW_011999477v1      8320903 63 -  10730278 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i cerAty1.NW_011999477v1    C 0 I 3
s chlSab2.chr11             100811697 63 - 128539186 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i chlSab2.chr11             C 0 I 3
s manLeu1.NW_012101287v1       207695 63 +    435186 TTTCCTCCG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGGCCTGGGATTTTGAAACTCAAAAGCCAG
i manLeu1.NW_012101287v1    C 0 I 5
s colAng1.NW_012114364v1      3607705 63 +   9309688 TTTCCTCTG---AATGAGACTTTC--TTTCCC---C-ACAGA-GGACCTGGGATTTTGAAACTCAAAAGCCAG
i colAng1.NW_012114364v1    C 0 I 3
s saiBol1.JH378123           11425380 64 -  29834108 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---CGACGGA-GGCCCTGGGATTTTGGAACTCAAAAACCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877249 64 -   1015025 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---CCACGGA-GGCCCTGGGATTTTGGAAATCAAAAACCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899062 64 -   2295209 TTTCCTCTG---AATGAGGCTTTC--TTTCCC---CCATGGA-GGCCCTGGGATTTTGGAACTCAAAAACCAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3033695 65 +  31815103 TTTCCTCTG---CATGAGGCTTTCC-TATCCC---C-ATTGAGGGGCCTAGGATTTTAAAACTCAAAAGCCAG
i micMur3.chr21             I 228 I 27
s proCoq1.NW_012140524v1      5122705 63 +  13104022 TTTCCTCTG---CATGAGGCTTTCC-TTTCCC---C-ACTGA-GGGCCTAGAATTTT-AAACTCAAAAGCCAG
i proCoq1.NW_012140524v1    I 303 I 1
s otoGar3.GL873576            4596409 64 -  12054995 TTTCCTCTG---CATGATGCTTTCCTTACCCC---C-ACTGA-AGGCCTAGAATTTG-ATACTCAAAAGCCAA
i otoGar3.GL873576          I 5 I 2
s mm10.chr6                   2440486 62 - 149736546 TTTGCTCTGTGAAGTGTTCCTTTG--CTTCCTAAAC-ACCAA-GGACCTAGGCTT-------TCCAAAGCCAG
i mm10.chr6                 I 5 C 0
s canFam3.chr27              19750401 63 +  45876710 TTTCCTCTG---TACACAGCTTTT--CTTTCC---C-CTCAA-GGACCTAAACTTTTGAAACTCAAACGCCAG
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=222580.000000
s hg38.chr12_GL383549v1_alt    108198 21 +    120804 ---CAAAAGAGCCTTGGTCCTCTC----
s panTro5.chr12              62799702 21 + 137163284 ---CAAAAGAGCCTTGGTCCTCTC----
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923486 21 + 135337776 ---CAAAAGAGCCTTGGTCCTCTC----
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138920 21 -  32808036 ---CAAAAGAGCCTTGGTCCTCTC----
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329967 21 +  34552619 ---CAAAAAAGCCTTGGTCCTCTC----
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642667 21 - 133663169 ---AAAAAAAGCCTTGGTCCTCTC----
i rheMac8.chr11             I 3 C 0
s macFas5.chr11             109044876 21 - 137757926 ---AAAAAAAGCCTTGGTCCTCTC----
i macFas5.chr11             I 3 C 0
s macNem1.NW_012011422v1      1416344 21 -   7948249 ---AAAAAAAGCCTTGGTCCTCTC----
i macNem1.NW_012011422v1    I 3 C 0
s cerAty1.NW_011999477v1      8320969 21 -  10730278 ---AAAAAAAGCCTTGGTCCTCTC----
i cerAty1.NW_011999477v1    I 3 C 0
s chlSab2.chr11             100811763 21 - 128539186 ---AAAAAAAGCCTTGGTCCTCTC----
i chlSab2.chr11             I 3 C 0
s manLeu1.NW_012101287v1       207763 21 +    435186 ---AAAAAAAGCCTTGGTCCTCTC----
i manLeu1.NW_012101287v1    I 5 C 0
s colAng1.NW_012114364v1      3607771 21 +   9309688 ---AAGAAAAGCCTTGGTCTTCTC----
i colAng1.NW_012114364v1    I 3 C 0
s saiBol1.JH378123           11425444 21 -  29834108 ---GAAAAAAGTCTTGGTCCTCTC----
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       877313 21 -   1015025 ---GAAAAAAGCCTTGGTCCTCTC----
i cebCap1.NW_016107911v1    C 0 I 1
s aotNan1.NW_018488218v1      1899126 21 -   2295209 ---GAAAAAAGCCTTGGTCCTCTC----
i aotNan1.NW_018488218v1    C 0 I 1
s proCoq1.NW_012140524v1      5122769 21 +  13104022 ---GAAAAAGTCCTTGTTTCTGTC----
i proCoq1.NW_012140524v1    I 1 I 5
s otoGar3.GL873576            4596475 21 -  12054995 ---AAAAAAGTCCTTGTTCCTGGC----
i otoGar3.GL873576          I 2 I 4
s mm10.chr6                   2440548 21 - 149736546 ---GAAACAGTCTTTATTCTTCTC----
i mm10.chr6                 C 0 I 6
s canFam3.chr27              19750464 28 +  45876710 AGGAAAATCATTCCTGTTTTTTTCTTTC
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033760 27 +  31815103 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=773271.000000
s hg38.chr12_GL383549v1_alt    108219 57 +    120804 -GGTTTGTCATCCGTCCCTTGAAGCAGTTATTATAGAGCACCCAGGAATGTCCTGAAT
s panTro5.chr12              62799723 57 + 137163284 -GGTTTGTCATCCCCCCCTTGAAGCAGTTATTATAGAGCACCCAGCAATGTCCTGAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923507 57 + 135337776 -GGTTTGTCATCCGTCCCTTGAAGCAGTTATTATAGAGCACCCAGCAATGTCCTGAAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138941 57 -  32808036 -GGTTTGTCATCCGTCCCTTGAAGCAGTTATTATAGAGCACCCAGCAATGTCCTGAAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7329988 57 +  34552619 -GGTTTGTCATCCATCTCTTGAAGCAGTTATTATAGGGCACCCAGCAATGTCCTGAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642688 57 - 133663169 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGAGTACCCAGCAATGTCCTGAAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044897 57 - 137757926 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGAGTACCCAGCAATGTCCTGAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416365 57 -   7948249 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGAGTACCCAGCAATGTCCTGAAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8320990 57 -  10730278 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGGGTACCCAGCAATGTCCTGAAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811784 57 - 128539186 -AGTTTGTCATCCAACCCCTGAAGCAGTTATTATAGAGTACCCAGCAATGTCCTGAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207784 57 +    435186 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGAGTACCCAGCAGTGTCCTGAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607792 57 +   9309688 -AGTTTGTCATCCATCCCCTGAAGCAGTTATTATAGAGTACCCAGCAATGTCCTGAAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425466 57 -  29834108 -GGTTTGTCACCTGTCCCTTGAAGCAGTTATTATAGAGCACCCAGCAATGTCCTGAAT
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       877335 57 -   1015025 -GGTTTGTCACCTGTCCCTTGAAGCAGTTATTATAGAGCACCCAGCAATGTCCCGAAT
i cebCap1.NW_016107911v1    I 1 C 0
s aotNan1.NW_018488218v1      1899148 57 -   2295209 -GATTTGTCATCTGTCCCTTGAAGCAATTATTATAGAGCACCCAGCAATGTCCTGAAT
i aotNan1.NW_018488218v1    I 1 C 0
s micMur3.chr21               3033787 57 +  31815103 -GGTTTGTCAGCCCTCCCTCGAAGCAGTCGCTATGGAGGACCCAGCAATGTCCTGAAT
i micMur3.chr21             I 27 I 256
s proCoq1.NW_012140524v1      5122795 57 +  13104022 -AGTTTGTCGTCCCTCCCTTGAAGCAGTTGTTATGGAGCACCCAGCAACGTCCTCAAT
i proCoq1.NW_012140524v1    I 5 C 0
s otoGar3.GL873576            4596500 57 -  12054995 -GGTTTGTCATCCCTCCCTTGAAGCAGTGACTATGGAGCACCCAGCAACTTCCTGAAC
i otoGar3.GL873576          I 4 C 0
s mm10.chr6                   2440575 43 - 149736546 -TGTCTATCATATCTCTCTTGAAGCAGTTGCTACAGTGCAGGGA--------------
i mm10.chr6                 I 6 C 0
s canFam3.chr27              19750492 57 +  45876710 AGGTTTG-CATTCCACCACTGAAGCAGTTATTGTAGAGCACCCAGCAACTTCCAGAAT
i canFam3.chr27             C 0 C 0
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=88889.000000
s hg38.chr12_GL383549v1_alt    108276 7 +    120804 GGAGGTA
s panTro5.chr12              62799780 7 + 137163284 GGAGGTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923564 7 + 135337776 GGAGGTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3138998 7 -  32808036 GGAGGTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330045 7 +  34552619 GGAGGTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642745 7 - 133663169 GGAGGTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044954 7 - 137757926 GGAGGTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416422 7 -   7948249 GGAGGTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321047 7 -  10730278 GGAGGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811841 7 - 128539186 GGAGGTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207841 7 +    435186 GGAGGCA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607849 7 +   9309688 GGAGATG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425523 7 -  29834108 GGAGGTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877392 7 -   1015025 GGAGGTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899205 7 -   2295209 GGAGGTA
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5122852 7 +  13104022 AGAGGTG
i proCoq1.NW_012140524v1    C 0 I 61
s otoGar3.GL873576            4596557 7 -  12054995 AGGGGTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2440618 6 - 149736546 -GAGGCA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750549 7 +  45876710 GAAAATA
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033844 256 +  31815103 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=605561.000000
s hg38.chr12_GL383549v1_alt    108283 63 +    120804 CAAATCTCCAGAGctgtgctcttcacagctctagctatcagccatgcaaggctgctgagtgct
s panTro5.chr12              62799787 63 + 137163284 GAAATCTCCAGAGctgtgctcttcacagctctagctatcagccacgcgaggctgctgagtgct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923571 63 + 135337776 GAAATCTCCAGAGctgtgctcttcacagctctagctatcagccacgcgaggctgctgagtgct
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139005 63 -  32808036 GAAATCTCCAGAGctgtgctcttcacagctctagctatcagccacacgaggctgctgagtgct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330052 63 +  34552619 GAGATCTCCAGAGctgtgctctccacagctctagctatcagccacgcgaggctgctgagtgct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642752 60 - 133663169 GAAATCTCCAGAGCTG---TATGCACAGCTgtagctatcagccacgcaaggctgctgagtgct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109044961 63 - 137757926 GAAATCTCCAGAGctgtactatgcacagctgtagctatcagccacgcaagtctgctgagtgct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416429 63 -   7948249 GAAATCTCCAGAGctgtactatgcacagctgtagctatcagccacgcaagtctgctgagtgct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321054 63 -  10730278 GAAATCTCCAGAGctgtactatgcacagctgtagctatcagccacgcaaggctgctgagtgct
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811848 63 - 128539186 GAAATCTCCAGAGctgtactatgcacagctgcagctatcagccacacaaggctgctgagtgct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207848 63 +    435186 GAAATCTCCAGAGctgtactatgcacagctgtagctatcagccacgcaaggctgctgagtgct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607856 63 +   9309688 GAAATCTCCAGAGctgtactatgcacagctgtagctatcagccacacaaggctgctgagtgct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425530 63 -  29834108 AAAATCTCTGGAGctatgctgtccacagctctagctatgagccacacgaagctgctgagtgct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877399 63 -   1015025 AAAATCTCCAGAGCGATActgtccacagctctagctatgagccacatgaggctgctgagtgct
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899212 63 -   2295209 AAAATCTCCAGAGctatgctgtccacagctctagctatgagccacatgaggctgctgagtgct
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4596564 48 -  12054995 GAAATCTTCAGAGctgtgctgtccagcaaggtagctacgagccaaata---------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2440624 63 - 149736546 GAATTCTCTAGAACTATTGtgtcaagtaggatagccatgaggtacataagactgagaaataca
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750556 63 +  45876710 GAAATCTCTAGAGctgtgttgtccagtatggtagctataagccacaagagcctatggagtact
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033844 256 +  31815103 I
e proCoq1.NW_012140524v1      5122859 61 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=1389057.000000
s hg38.chr12_GL383549v1_alt    108346 129 +    120804 tggcatatggcttgtctgaattgagatgtgaaaga----tacataccagatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaataataatatt
s panTro5.chr12              62799850 129 + 137163284 tggcatatggcttgtctgaattgagatgtgaaaga----tacataccagatttcaaagactgcaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaataataatatt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923634 128 + 135337776 tggcatatggcttgtctgaactgagatgtgaaaga----tacataccagatttcaaggactgcaaaag---------aaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaataataatatt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139068 129 -  32808036 tggcatatggcttgtctgaattgagatgtaaaaga----tacataccagatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttgtatgttaaggccatgttgaaataataatatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330115 129 +  34552619 tggcatatggcttgtctgaattgagatgtgaaaga----tacataccagatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaataataatatt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642812 128 - 133663169 tggcatgtggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagactgtaaaag---------aaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaatgataatatt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109045024 130 - 137757926 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagactgtaaaaga-------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaatgataatatt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416492 129 -   7948249 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaagaccatgttgaaatgataatatt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321117 130 -  10730278 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagacagtaaaaga-------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccatgttgaaatgataatatt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100811911 129 - 128539186 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaagactatgttgaaataataatatt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       207911 129 +    435186 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttctaagacagtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taagtcattttttatgttaaggccatgttgaaatgataatatt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3607919 129 +   9309688 tggcatatggcttgtctgaattgagatgtgaaaga----tacatactggatttcaaagactgtaaaag--------aaaaaaaaaaggtaaa-------at-atcc--taaatcattttttatgttaaggccgtgttgaaataataatatt
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425593 119 -  29834108 tggtatgtggcttgtctgaactgagatgtgaaaga----tacactccagatttcaacaagtgtaaagg---------aaaaaaaaaagtgaa-------at-atcc-----------ctttctgttaaggccatgttgaaataattatatt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877462 118 -   1015025 ttgtatgtggcttgtctgaactgagatgtgaagga----tacactccagatttcaacaactgtaaaag----------aaaaaaaaagtgaa-------at-atcc-----------ctttatgttaaggccatgttgaaataataatatt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899275 119 -   2295209 tggtatgtggcttgtctgaactgagatgtgaaaga----tacactccagatttcaacaactgtaaaag---------gaaaaaaaaagtgaa-------at-accc-----------ctttatgttaaggccatgttgaaataataatatt
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5122920 129 +  13104022 aggaatgtggcttgttggaattgagatgtgaaaga----tacacactagatttcaaagactgtaaagg----------aaaaagaatgagaa-------at-atctcacaaatcatttttgatgttaaggccatgttgaaatgacaatatt
i proCoq1.NW_012140524v1    I 61 I 1633
s otoGar3.GL873576            4596612 130 -  12054995 tggaatgtggcttgtcggaattgagacatgaaagg----tacacactcgatttcaaaggctataaaag----------caaaaaaatgcaaa-------atggtctcacaaatcattttggacttcaatgccatgttgaaatgacaatatt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2440687 142 - 149736546 tgaagtgttgctggtctagaccaacacatgaaagagagctaggtaggagatttcaagaacttctaaacaaacaaacaaacagaagatgtgaa-------cc-atctctttaatcattttttaggttaatac-atgttgaaacaatagcatt
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750619 133 +  45876710 tggaatgtggctagcccaaactgagatgtgaaaag----cacatactgaatttcaaaggccaaaaaaa--------aaaaaaaaaaaaaaagaatgtacat-atcttgttaatcatttatt-tatt-atgccatattgaaatgatttt---
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033844 256 +  31815103 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=718555.000000
s hg38.chr12_GL383549v1_alt    108475  87 +    120804 tggggcatat-taagttaaacaaa------------ctatattattaaaattaattctac------------ttgtttcttttta---tttttaatgtgactattagaaagtttT
s panTro5.chr12              62799979  87 + 137163284 gggggcgtat-taggttaaataaa------------ctatcttattaaaattaattctac------------ttgtttcttttta---tttttaatgtgactattagaaagtttT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923762  87 + 135337776 gggggcgtat-taggttaaataaa------------ctatattattaaaattaattctac------------ttgtttcttttta---tttttaatgtgactattagaaagtttT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139197  87 -  32808036 gggggtgtat-taggttaaataaa------------ctatattattaaaattaattctac------------ttgtttcttttta---tttttaatgtgactattagaaagtttT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330244  87 +  34552619 tggagcatat-tgggttaaataaa------------ctgtattattaaaattaattctac------------ttgtttcttttta---tttttaatgtgactattagaaaGTCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104642940  85 - 133663169 tggggcatat-tgggttaaataaa------------ctatattattaaaactaattctac------------ttgtttctttttg-----tttaatataactattagaaattttT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109045154  85 - 137757926 tggggcatat-tgggttaaataaa------------ctatattattaaaactaattctac------------ttgtttctttttg-----tttaatataactattagaaattttT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416621  85 -   7948249 tggggcatat-tgggttaaataaa------------ctatattattaaaactaattctac------------ttgtttctttttg-----tttaatataactattagaaattttT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321247  80 -  10730278 tggggcatat-tgggt----taaa------------ctatattattaacattaattctac------------tt-tttctttttg-----tttaatatgactattagaaattatt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812040  81 - 128539186 tggggcatat-tgggt----taaa------------ctatattattaaaattaattctac------------ttttttctttttg-----tttaatatgactattagaaattttT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208040  80 +    435186 tggggcatat-tgggt----taaa------------ctatattattaacattaattctac-------------tttttctttttg-----tttaatatgactattagaaattatt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3608048  85 +   9309688 ttggtcatat-tgggttaaataaa------------ctatattattaaaattaattctac------------ttgtttctttttg-----tttaatatgactattagaaattttT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425712  82 -  29834108 tggggcatat-tgggttaaatgaa------------ctatattattaaaattaattttac------------ttgtttttttata----ttttaatgtgac----ttaaaatttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877580  79 -   1015025 cggggtatat-tgtgttaaatgaa------------ctatattattaaaattaattttac------------t--tttttttcta----ttttaatgtaac-----aaaaatttT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899394  83 -   2295209 tggggcatat-tgtgttaaatgaa------------ctatattattaaaattaattttac------------ttgtttttttata----ttttaatgtgac---ttaaaaagttt
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4596742  90 -  12054995 ttggatatatctaggctaaataaa------------atgtattattaaaattaattctac------------ctgtttcttttcac-tcttttaaagtggctagtagaaaatgtt
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2440829  99 - 149736546 ttgtatacga-tgagataaataaa------------ataattttttaaaattaatgttaccagtctctgggcttttttttttctt---tttaaaatgtaactactaggaatattt
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750752 102 +  45876710 ttggatatat-gtggttaaataaaaatactattaagatatactattaaaattagttttac------------ctgtttctttttactttttttaatgtggctactagaaaatttt
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3033844 256 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=36452.000000
s hg38.chr12_GL383549v1_alt    108562 12 +    120804 TTT--ATTAATACA
s panTro5.chr12              62800066 12 + 137163284 TTT--ATTAATACA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923849  9 + 135337776 T-----TTAATACA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139284 12 -  32808036 TTT--ATTAATACA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330331  1 +  34552619 T-------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643025 10 - 133663169 T----ATTAATATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109045239 10 - 137757926 T----ATTAATACA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416706 10 -   7948249 T----ATTAATACA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321327 10 -  10730278 t----aTTCATAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812121 10 - 128539186 T----ATTAATACA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208120 10 +    435186 t----aTTAATACA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3608133 10 +   9309688 T----ATTAATACA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425794 10 -  29834108 t----attaataca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877659 10 -   1015025 T----ATTAATACA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899477 10 -   2295209 T----ATTAATACA
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2440928 12 - 149736546 --tgattttataca
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750854  8 +  45876710 ------atattatg
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4596832  0 -  12054995 C
e micMur3.chr21               3033844 256 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=57270.000000
s hg38.chr12_GL383549v1_alt    108574 6 +    120804 TTTATA
s panTro5.chr12              62800078 6 + 137163284 TTTATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923858 6 + 135337776 TTTATA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139296 6 -  32808036 TTTATA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330332 6 +  34552619 ATTATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643035 6 - 133663169 TTTATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109045249 6 - 137757926 TTTATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416716 6 -   7948249 TTTATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8321337 6 -  10730278 TTTATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812131 6 - 128539186 TTTATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208130 6 +    435186 TTTATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3608143 6 +   9309688 TTTATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11425804 6 -  29834108 tttata
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877669 6 -   1015025 TTTATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899487 6 -   2295209 TTTGTA
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19750862 6 +  45876710 tatata
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=531189.000000
s hg38.chr12_GL383549v1_alt    108580 70 +    120804 GTACTTTAATCTTTATACATCTTATTTTCTGTTACCATCCAGAATTCTTAAGTAACCAACCTATTTT-A------AA-
s panTro5.chr12              62800084 71 + 137163284 GTACTTTAATCTTTATACATCTTATTTTCTGTTATCATCCAGAATTCATAAGTAACCAACCTATTTTAA------AA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923864 68 + 135337776 GTACTTTAATCTTTATACATCTTATTTTCTGTTACCTTCCAGAATTCATAAGTAACCAACCTATTT---------AA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139302 71 -  32808036 GTACTTTAATCTTTATACATCTTATTTTCTGTTATCATCCAGAATTCATAAGCAACCAACCTATTTAAA------AA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330338 68 +  34552619 GTACTTTAATCTTTATACATCTTATTTTCTGTTATCATCCAGAATTCTTAAGTAACCAACCTATTT---------AA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643041 69 - 133663169 GTACTTTAATCTTTATAAATTTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i rheMac8.chr11             C 0 I 1
s macFas5.chr11             109045255 69 - 137757926 GTACTTTAATCTTTATAAATTTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAAGCTATTT--A------AA-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1416722 69 -   7948249 GTACTTTAATCTTTATAAATTTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i macNem1.NW_012011422v1    C 0 I 1
s cerAty1.NW_011999477v1      8321343 69 -  10730278 GTACTTTAATCTTTATAAATTTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i cerAty1.NW_011999477v1    C 0 I 1
s chlSab2.chr11             100812137 69 - 128539186 GTACTTTAATCTTTATAAATCTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       208136 69 +    435186 GTACTTTAATCTTTATAAATTTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3608149 69 +   9309688 GTACTTTAATCTTTATAAATCTTATTTTCTGTTATCATCCAGAATGCTTAAGTAACCAACCTATTT--A------AA-
i colAng1.NW_012114364v1    C 0 I 1
s saiBol1.JH378123           11425810 73 -  29834108 atacttttatctttataaatcttattttCTGTTAT---CCAGAATTCTTAAGTAACCAATCTATTT--TTTTaaaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877675 70 -   1015025 GTACTTTAATCTTTATAAATCTTATTTTCTGTTATCAACCAGAATTCGTAAGTACCCAACCTATTT--T------AAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899493 69 -   2295209 GTACTTTAATCTTTATAAATCTTATTCTCTGTTTTCATCCAGAATTCTTAA-TAACCAATCTGTTT--a------aaa
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4596832  0 -  12054995 C
e mm10.chr6                   2440940  0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=20004.000000
s hg38.chr12_GL383549v1_alt    108650 7 +    120804 AAAAAAA
s panTro5.chr12              62800155 7 + 137163284 AAAAAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923932 7 + 135337776 AAAAAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139373 7 -  32808036 AAAAAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330406 7 +  34552619 AAAAAAA
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109045324 7 - 137757926 GAAAAAA
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11425883 7 -  29834108 aaaaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877745 7 -   1015025 AAAAGAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899562 7 -   2295209 aaagaaa
i aotNan1.NW_018488218v1    C 0 I 56
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e colAng1.NW_012114364v1      3608218 1 +   9309688 I
e manLeu1.NW_012101287v1       208205 1 +    435186 I
e chlSab2.chr11             100812206 1 - 128539186 I
e cerAty1.NW_011999477v1      8321412 1 -  10730278 I
e macNem1.NW_012011422v1      1416791 1 -   7948249 I
e rheMac8.chr11             104643110 1 - 133663169 I

a score=4431.000000
s hg38.chr12_GL383549v1_alt    108657 2 +    120804 AG
s panTro5.chr12              62800162 2 + 137163284 AG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923939 2 + 135337776 AG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139380 2 -  32808036 AG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330413 2 +  34552619 AG
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109045331 2 - 137757926 AG
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11425890 2 -  29834108 aa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877752 2 -   1015025 AG
i cebCap1.NW_016107911v1    C 0 I 47
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e colAng1.NW_012114364v1      3608218 1 +   9309688 I
e manLeu1.NW_012101287v1       208205 1 +    435186 I
e chlSab2.chr11             100812206 1 - 128539186 I
e cerAty1.NW_011999477v1      8321412 1 -  10730278 I
e macNem1.NW_012011422v1      1416791 1 -   7948249 I
e rheMac8.chr11             104643110 1 - 133663169 I

a score=781.000000
s hg38.chr12_GL383549v1_alt    108659 1 +    120804 G
s panTro5.chr12              62800164 1 + 137163284 G
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923941 1 + 135337776 G
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139382 1 -  32808036 G
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330415 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109045333 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s saiBol1.JH378123           11425892 1 -  29834108 g
i saiBol1.JH378123          C 0 C 0
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754 47 -   1015025 I
e colAng1.NW_012114364v1      3608218 1 +   9309688 I
e manLeu1.NW_012101287v1       208205 1 +    435186 I
e chlSab2.chr11             100812206 1 - 128539186 I
e cerAty1.NW_011999477v1      8321412 1 -  10730278 I
e macNem1.NW_012011422v1      1416791 1 -   7948249 I
e rheMac8.chr11             104643110 1 - 133663169 I

a score=2653.000000
s hg38.chr12_GL383549v1_alt    108660 3 +    120804 GAg
s panTro5.chr12              62800165 3 + 137163284 GAg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923942 3 + 135337776 GAg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139383 3 -  32808036 GAg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330416 3 +  34552619 AAA
i nomLeu3.chr23             C 0 I 3
s macFas5.chr11             109045334 3 - 137757926 AAG
i macFas5.chr11             C 0 C 0
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754 47 -   1015025 I
e saiBol1.JH378123           11425893 0 -  29834108 C
e colAng1.NW_012114364v1      3608218 1 +   9309688 I
e manLeu1.NW_012101287v1       208205 1 +    435186 I
e chlSab2.chr11             100812206 1 - 128539186 I
e cerAty1.NW_011999477v1      8321412 1 -  10730278 I
e macNem1.NW_012011422v1      1416791 1 -   7948249 I
e rheMac8.chr11             104643110 1 - 133663169 I

a score=1476.000000
s hg38.chr12_GL383549v1_alt    108663 2 +    120804 gg
s panTro5.chr12              62800168 2 + 137163284 gg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923945 2 + 135337776 gg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139386 2 -  32808036 gg
i gorGor5.CYUI01000003v1    C 0 C 0
s macFas5.chr11             109045337 2 - 137757926 AG
i macFas5.chr11             C 0 I 1
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e nomLeu3.chr23               7330419 3 +  34552619 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754 47 -   1015025 I
e saiBol1.JH378123           11425893 0 -  29834108 C
e colAng1.NW_012114364v1      3608218 1 +   9309688 I
e manLeu1.NW_012101287v1       208205 1 +    435186 I
e chlSab2.chr11             100812206 1 - 128539186 I
e cerAty1.NW_011999477v1      8321412 1 -  10730278 I
e macNem1.NW_012011422v1      1416791 1 -   7948249 I
e rheMac8.chr11             104643110 1 - 133663169 I

a score=2733357.000000
s hg38.chr12_GL383549v1_alt    108665 5205 +    120804  
s panTro5.chr12              62800170 5173 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60923947 5151 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3139388 5165 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
e otoGar3.GL873576            4596832    0 -  12054995 C
e mm10.chr6                   2440940    0 - 149736546 C
e micMur3.chr21               3033844  256 +  31815103 I
e canFam3.chr27              19750868    0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569   56 -   2295209 I
e nomLeu3.chr23               7330419    3 +  34552619 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754   47 -   1015025 I
e saiBol1.JH378123           11425893    0 -  29834108 C
e colAng1.NW_012114364v1      3608218    1 +   9309688 I
e manLeu1.NW_012101287v1       208205    1 +    435186 I
e chlSab2.chr11             100812206    1 - 128539186 I
e cerAty1.NW_011999477v1      8321412    1 -  10730278 I
e macNem1.NW_012011422v1      1416791    1 -   7948249 I
e macFas5.chr11             109045339    1 - 137757926 I
e rheMac8.chr11             104643110    1 - 133663169 I

a score=66975.000000
s hg38.chr12_GL383549v1_alt    113870 14 +    120804 aaaaaaagaaagag
s panTro5.chr12              62805343 14 + 137163284 aaaaaaagaaaGAG
i panTro5.chr12             C 0 I 5523
s panPan2.chr12              60929098 14 + 135337776 aaaaaaagaaaGAG
i panPan2.chr12             C 0 I 1
s gorGor5.CYUI01000003v1      3144553 14 -  32808036 aaaaaaagaaaGAG
i gorGor5.CYUI01000003v1    C 0 I 1
s rheMac8.chr11             104643111 14 - 133663169 AAAAAAAGAAAGAG
i rheMac8.chr11             I 1 I 1
s macNem1.NW_012011422v1      1416792 14 -   7948249 AAAAAAAGAAAGAG
i macNem1.NW_012011422v1    I 1 I 1
s cerAty1.NW_011999477v1      8321413 14 -  10730278 AAAAAAAGAAAGAG
i cerAty1.NW_011999477v1    I 1 I 1
s chlSab2.chr11             100812207 14 - 128539186 AAAAAACGAAAGAG
i chlSab2.chr11             I 1 I 1
s manLeu1.NW_012101287v1       208206 14 +    435186 AAAAAAAGAAAGAG
i manLeu1.NW_012101287v1    I 1 I 1
s colAng1.NW_012114364v1      3608219 14 +   9309688 AAAAAAAGAAAGAG
i colAng1.NW_012114364v1    I 1 I 1
s saiBol1.JH378123           11425893 14 -  29834108 aaagaaaaaaaGAG
i saiBol1.JH378123          C 0 I 1
e otoGar3.GL873576            4596832  0 -  12054995 C
e mm10.chr6                   2440940  0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e nomLeu3.chr23               7330419  3 +  34552619 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754 47 -   1015025 I
e macFas5.chr11             109045339  1 - 137757926 I

a score=201161.000000
s hg38.chr12_GL383549v1_alt    113884 40 +    120804 aataCACAAT-TTTTTACAGTTTA---------TCAATACAGTGCCCCTC
s panTro5.chr12              62810880 40 + 137163284 AATACACAAT-TTTTTACAGTTTA---------TCAGTACAGTGCCCCTC
i panTro5.chr12             I 5523 C 0
s panPan2.chr12              60929113 40 + 135337776 AATACACAAT-TTTTTACAGTTTA---------TCAGTACAGTGCCCCTC
i panPan2.chr12             I 1 C 0
s gorGor5.CYUI01000003v1      3144568 40 -  32808036 AATACACAAT-TTTTTACAGTTTA---------TCAGTACAGTGCCCCTC
i gorGor5.CYUI01000003v1    I 1 C 0
s nomLeu3.chr23               7330422 40 +  34552619 AATACACAAT-TTTTTACAGTTTA---------TCAGTACAGTGCCCCTC
i nomLeu3.chr23             I 3 C 0
s rheMac8.chr11             104643126 40 - 133663169 AATACACAATATTTTTACAGTTTA---------TCAATACAGTGCCTC-C
i rheMac8.chr11             I 1 C 0
s macFas5.chr11             109045340 40 - 137757926 AATACACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i macFas5.chr11             I 1 C 0
s macNem1.NW_012011422v1      1416807 40 -   7948249 AATACACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i macNem1.NW_012011422v1    I 1 C 0
s cerAty1.NW_011999477v1      8321428 40 -  10730278 AATGCACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i cerAty1.NW_011999477v1    I 1 C 0
s chlSab2.chr11             100812222 40 - 128539186 AATACACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       208221 40 +    435186 AATGCACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3608234 40 +   9309688 AATACACAATATTTTTACAGTTTA---------TCAGTACAGTGCCTC-C
i colAng1.NW_012114364v1    I 1 C 0
s saiBol1.JH378123           11425908 37 -  29834108 AATACAA----TTTTTACAGTTTATTTAGGATGTTAAAAAA---------
i saiBol1.JH378123          I 1 C 0
e otoGar3.GL873576            4596832  0 -  12054995 C
e mm10.chr6                   2440940  0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e aotNan1.NW_018488218v1      1899569 56 -   2295209 I
e dasNov3.JH562883             951014 1204 -   1687904 I
e cebCap1.NW_016107911v1       877754 47 -   1015025 I

a score=801400.000000
s hg38.chr12_GL383549v1_alt    113924 91 +    120804 ACCCTAACAGGCTAACTTACTGTAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGGTCTATGCTGACATACAATCGATTT----TTA
s panTro5.chr12              62810920 91 + 137163284 ACCCTAACAGGCTAACTTACTGTAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGGTCTATCCTGATATACAATCGATTT----TTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929153 91 + 135337776 ACCCTAACAGGCTAACTTACTGTAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGGTCTATCCTGACATACAATCAATTT----TTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3144608 91 -  32808036 ACCCTAACAGGCTAACTTACTGTAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGGTCTATGCTGATATACAATCGATTT----TTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330462 91 +  34552619 ACCCTAACAGGCTAATTTACTGTAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTATCCTGACATACAATCGATTT----TTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643166 91 - 133663169 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i rheMac8.chr11             C 0 I 302
s macFas5.chr11             109045380 91 - 137757926 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAACGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i macFas5.chr11             C 0 I 302
s macNem1.NW_012011422v1      1416847 91 -   7948249 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i macNem1.NW_012011422v1    C 0 I 302
s cerAty1.NW_011999477v1      8321468 91 -  10730278 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCGTGGATCTACCCTGACATACAATAGATTT----TTA
i cerAty1.NW_011999477v1    C 0 I 302
s chlSab2.chr11             100812262 91 - 128539186 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i chlSab2.chr11             C 0 I 302
s manLeu1.NW_012101287v1       208261 91 +    435186 ACCCTAACAAACTAATTTACTGCAAACCACTGAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i manLeu1.NW_012101287v1    C 0 I 302
s colAng1.NW_012114364v1      3608274 91 +   9309688 ACCCTAACAAGCTAATTTACTGCAAACCACTAAATACAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTT
i colAng1.NW_012114364v1    C 0 I 304
s saiBol1.JH378123           11425945 91 -  29834108 ACCCTAACAGGCTAATTTACTGCAAACCACTGACTATAAGGTTAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTT----TTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877801 95 -   1015025 ACCCTAACAGGCTAATTTACTGCAAACCACTGACTATAGGGTAAAGAAAATGTTTAGTCATGGATCTACCCTGACATACAATAGATTTAAAAATA
i cebCap1.NW_016107911v1    I 47 C 0
s aotNan1.NW_018488218v1      1899625 91 -   2295209 ACCCTAACAGGCTAATTTACTGCAAACCACTGACTATAGGGTAAAGAAAATGTTTAGTCATGGATATACCCTGACATACAATAGATTT----TTA
i aotNan1.NW_018488218v1    I 56 C 0
e otoGar3.GL873576            4596832  0 -  12054995 C
e mm10.chr6                   2440940  0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=1635698.000000
s hg38.chr12_GL383549v1_alt    114015 190 +    120804 AATTTGCATTATTTTTAAGTGAGACTACTGAAAGCTAAGAAATTAACAATAAAATGGGTCATtggtagaagtaaatcaaatcctccctgaaacttcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccaaattctgaaacagtgtaagcaaaagt---------------cagcagaattagacaatt
s panTro5.chr12              62811011 190 + 137163284 AATTTGCATTGTTTTTAAGTGAGACTACTGAAAGCTAAGAAATTAACAATAAAATGGGTCATTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctggcaagaagctcacaatccccaaattctgaaacattgtaagcaaaagt---------------cagcagaattagacaatt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929244 190 + 135337776 AATTTGCATTATTTTTAAGTGAGACTACTGAAAGCTAAGAAATTAACAATAAAATGGGTCATtggtagaagtaaagcaaatcctccctgaaacttcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccaaattctgaaacattgtaagcaaaagt---------------cagcagaattagacaatt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3144699 189 -  32808036 AATTTGCATTATTTTTAAGTGAGACTACTGAAAGCTAAGAAATTAACAATAAAATGGGTCATtggtagaagtaaatcaaatcctccctgaaacttcacaggattcccacagctcaaggtatgctgaaaagaagctcacaatccccaaattctgaaacattgtaagcaaaa-t---------------cagcagaattagacaatt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7330553 190 +  34552619 AATTTGCATTATTTTTAAGTGAGACTACTGAAAGCTAAGAAATTAACAATAAAATGGGTCATTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgataagaagctcacaatccccaaattctgaaacattgtaagcaaaagt---------------cagcagaattcgacaatt
i nomLeu3.chr23             C 0 I 299
s rheMac8.chr11             104643559 190 - 133663169 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaattcccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i rheMac8.chr11             I 302 C 0
s macFas5.chr11             109045773 190 - 137757926 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaattcccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i macFas5.chr11             I 302 C 0
s macNem1.NW_012011422v1      1417240 190 -   7948249 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaattcccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i macNem1.NW_012011422v1    I 302 C 0
s cerAty1.NW_011999477v1      8321861 190 -  10730278 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i cerAty1.NW_011999477v1    I 302 C 0
s chlSab2.chr11             100812655 190 - 128539186 AATTTGCATTATTTTTAAGTGAAACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i chlSab2.chr11             I 302 C 0
s manLeu1.NW_012101287v1       208654 190 +    435186 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAACAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccaacttctgaaacattgtaagcaaaagt---------------cagcagaattagacgatt
i manLeu1.NW_012101287v1    I 302 C 0
s colAng1.NW_012114364v1      3608669 190 +   9309688 AATTTGCATTATTTTTAAGTGAGACCATTGAAAGCTAAGAAATTAATAATAAAATGGGTCACTGGTAGAAGTAAATCAAATCCTCCCTGAAActtcacaggattcccacagctaaaggtatgctgaaaagaagctcacaatccccatattctgaaacattgtaagcaaaagt---------------cagcagaattagacaatt
i colAng1.NW_012114364v1    I 304 C 0
s saiBol1.JH378123           11426036 192 -  29834108 AAGTCGCATTATTTTTAAGTGAGTCCACTGCAAGCTAAGAAGTTAACAATAAAATGGGTTCCTGGTAGAAGTAACTCAAATCCTCCCTGAAACT-----------TTacagctaatggcatgctgaaa--aagctcacaatcctcaaattctgaaacactgtaggcaaaagtctgcaggcatcatgccagcagaagtagacaatg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       877896 205 -   1015025 AAGTCACATTATTTTTAAGTGAGTCCACTGCAAGCTAAGAAGTTAACAATAAAATGGGTTCCTGGTAGAAGTAAATCAAatcctccccaaaacttcacaggattctcacagctaatggcatgctgaaaagaagctcacaatcctcaaattctgaaacactgtaggcaaaagtctgcaggcatcatggcagcagaaatagacaatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899716 205 -   2295209 AAGTCGTATTATTTTTAAGTGAGTCCACTGCAAGCTAAGAAGTTAACAATAAAATGGGTTCCTGGTAGAAGTAAATCAAATCCCCCCTGAAActtcacaggattctcacagctaacggcatgctgaaaagaagctcacaatcctccaattctgaaacactgtaggcaaaagtctgcaggcatcatgccagcagaagtagacaatg
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4596832   0 -  12054995 C
e mm10.chr6                   2440940   0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868   0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=1294874.000000
s hg38.chr12_GL383549v1_alt    114205 149 +    120804 aagaatttcaacaagtaatcctatcagatgatactatgaaataagtatatttgaaataattaataaaatataataaacagttaaaaacaccaaaaaAATCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
s panTro5.chr12              62811201 147 + 137163284 aagaatttcaacaagtaatcctatcagatgatactataaaataagtatatttgaaataattaataaaatataataaacagttaaaaacaCCAAAAGA-TCCTCAAAATAGAAGATTGGAGGGATTATGGGATGAAATAAA-GTAAAGAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929434 147 + 135337776 aagaatttcaacaagtaatcctatcagatgatactataaaataagtatatttgaaataattaataaaatataataaacagttaaaaataccaaaaaA-TCCTCAAAATAGAAGATTGGAGGGATTATGGGATGAAATAAA-GTAAAGAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3144888 147 -  32808036 aagaattt-aacaagtaatcctatcagatgatactatgaaataagtatatttgaaataattaataaaatataataaacagttaaaaacaccaaaaaA-TCCTCAAAGTAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331042 149 +  34552619 aagaatttcaacaagtaatcctatcagatgatactataaaataagtatatttgaaataattaataaaatataataaacagttaaaaacGCCAAAAAAACACTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i nomLeu3.chr23             I 299 C 0
s rheMac8.chr11             104643749 148 - 133663169 aagaatttcaacaagtaatcctatcagatgatactataaaataaatgtatttgaaataattaataaagtataataaatggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109045963 148 - 137757926 aagaatttcaacaagtaatcctatcagatgatactataaaataaatgtatttgaaataataaataaagtataataaatggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417430 148 -   7948249 aagaatttcaacaagtaatcctatcagatgatactataaaataaatgtatttgaaataattaataaagtataataaatggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322051 148 -  10730278 aagaatttcaacaagtaatcctatcagatgatactataaaataagtgtatttgaaataattaataaaatataataaatggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTTGAGAGATTGTGGGATGAAATAAAAGTAAAGAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812845 148 - 128539186 aagaatttcaacaagtaatcctatcagatgatactataaaataagtatattcaaaataattaataaaatataataaatggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208844 148 +    435186 aagaatttcaacaagtaatcctatcagatgacactataaaataagtgtattcgaaataattaataaaatataataaatagttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTGTGGGATGAAATAAAAGTAAAGAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3608859 148 +   9309688 aagaatttcagcaagtaatcctatcagatgatactataaaataagtgtaatagaaataattaataaaatataacaaacggttaaaaacaccaaaaaA-TCCTCAAAATAGAAGATTGGAGAGATTATGGGATGAGATAAAAGTAAAGAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426228 148 -  29834108 aagaatttcaacaagtaattctagcagatgataccataaaataagtatatttgaaataattaataaaatataataaacagcttaaaacaccaaaaaA-TCTTCAAAATAGAAAATTGGAGAGATTATGGGATGAAATAAAAGTAAATAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878101 148 -   1015025 aagaatttcaacaagtaactctagcagatgatactataaaataagtatatttgaaataattaataaaatataataaacagcttaaaacaccaaaaaA-TCCTCAAAATAGAAAATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1899921 148 -   2295209 aagaatttcaacaagtaattctagcagatgatactataaaataagtatatttgaaataattaataaaatataataaacagcttaaaacaccaaaaaA-TCCTCAAAATAGGAAATTGGAGAGATTATGGGATGAAATAAAAGTAAAGAC
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4596832   0 -  12054995 C
e mm10.chr6                   2440940   0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868   0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             951014 1204 -   1687904 I

a score=32010.000000
s hg38.chr12_GL383549v1_alt    114354 3 +    120804 tga
s panTro5.chr12              62811348 3 + 137163284 tga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929581 3 + 135337776 tga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145035 3 -  32808036 tga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331191 3 +  34552619 tga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643897 3 - 133663169 tga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046111 3 - 137757926 tga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417578 3 -   7948249 tga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322199 3 -  10730278 tga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812993 3 - 128539186 tga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208992 3 +    435186 tga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609007 3 +   9309688 tga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426376 3 -  29834108 tga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878249 3 -   1015025 tga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900069 3 -   2295209 tga
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             952218 3 -   1687904 tgg
i dasNov3.JH562883          I 1204 C 0
e otoGar3.GL873576            4596832 0 -  12054995 C
e mm10.chr6                   2440940 0 - 149736546 C
e micMur3.chr21               3033844 256 +  31815103 I
e canFam3.chr27              19750868 0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=164950.000000
s hg38.chr12_GL383549v1_alt    114357 15 +    120804 ctactagaaaattta
s panTro5.chr12              62811351 15 + 137163284 ctactagaaaattta
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929584 15 + 135337776 ctactagaaaattta
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145038 15 -  32808036 ctactagaaaattta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331194 15 +  34552619 ctactagaaaattta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643900 15 - 133663169 ctgctagaaaattta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046114 15 - 137757926 ctgctagaaaattta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417581 15 -   7948249 ctgctagaaaattta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322202 15 -  10730278 ctactagaaaattta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100812996 15 - 128539186 ctactagaaaattta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       208995 15 +    435186 ctactagaaaattta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609010 15 +   9309688 ctactagaaaattta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426379 15 -  29834108 ctactagaaaatttt
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878252 15 -   1015025 ctactagaaaatttt
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900072 15 -   2295209 ctactagaaaatttt
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034100 15 +  31815103 ctactagaaaatttt
i micMur3.chr21             I 256 C 0
s dasNov3.JH562883             952221 15 -   1687904 ctgccagaaaatgtt
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4596832  0 -  12054995 C
e mm10.chr6                   2440940  0 - 149736546 C
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=109506.000000
s hg38.chr12_GL383549v1_alt    114372 12 +    120804 aaatcacatctg
s panTro5.chr12              62811366 12 + 137163284 aaatcacatctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929599 12 + 135337776 aaatcacatctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145053 12 -  32808036 aaatcacatctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331209 12 +  34552619 aaatcacacacg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643915 12 - 133663169 aaagcatatatg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046129 12 - 137757926 aaagcatatatg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417596 12 -   7948249 aaagcatatatg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322217 12 -  10730278 aaagcatatatg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813011 12 - 128539186 aaagcatatatg
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209010 12 +    435186 aaagcatatatg
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609025 12 +   9309688 aaagcatatatg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426394 11 -  29834108 aaatca-aaatg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878267 12 -   1015025 aaatcatatatg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900087 12 -   2295209 aaatcatatatg
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034115 12 +  31815103 aaattatatatg
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4596832 12 -  12054995 aaattatatatg
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             952236 12 -   1687904 taattatatatg
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2440940  0 - 149736546 C
e canFam3.chr27              19750868  0 +  45876710 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=153700.000000
s hg38.chr12_GL383549v1_alt    114384 13 +    120804 tgatttgcatctg
s panTro5.chr12              62811378 13 + 137163284 tgactggcatctg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929611 13 + 135337776 tgactggcatctg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145065 13 -  32808036 tgatttgcatctg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331221 13 +  34552619 tgatttgcatctg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643927 13 - 133663169 tgacttgcattta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046141 13 - 137757926 tgacttgcattta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417608 13 -   7948249 tgacttgcattta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322229 13 -  10730278 tgacttgcattta
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813023 13 - 128539186 tgacttgcattta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209022 13 +    435186 tgacttgcattta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609037 13 +   9309688 tgacttgcactgg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426405 13 -  29834108 tgacttgcatctg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878279 13 -   1015025 tgacttgcatctg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900099 13 -   2295209 tgacttgcatctg
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034127 13 +  31815103 tggttttcatctg
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4596844 13 -  12054995 tggtttgcatctg
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19750868 13 +  45876710 tggcttgcatctg
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             952248 13 -   1687904 tggcttgcatgtg
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2440940  0 - 149736546 C
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=1082331.000000
s hg38.chr12_GL383549v1_alt    114397 81 +    120804 tagct--tacgttatatttctattggacagtgc---tATTCTAGCGGAATAAGTAATGGGAACCAAAAATAAATAA---A----TATTTTAAA-
s panTro5.chr12              62811391 81 + 137163284 tagct--tacgttatatttctattggacagtgc---tATTCTAGCGGAATAAGTAATGGGAACCAAAAATAAATAA---A----TATTTTAAA-
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929624 81 + 135337776 tagct--tacgttatatttctattggacagtgc---tATTCTAGCGGAATAAGTAATGGGAACCAAAAATAAATAA---A----TATTTTAAA-
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145078 83 -  32808036 tagct--tacgttatgtttctatt-gacagtgctATTATTCTAGCGGAATAAGTAATGGGAACCAAAAATAAATAA---A----TATTTTAAA-
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331234 81 +  34552619 tggct--tacgttatatttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACCAAAAATAAATAA---A----TATTTTAAA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104643940 81 - 133663169 tggct--tacattatatttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACTGAAAATAAATAA---A----TACTTTAAA-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046154 81 - 137757926 tggct--tacattatatttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACTGAAAATAAATAA---A----TACTTTAAA-
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417621 81 -   7948249 tggct--tacattatatttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACTGAAAATAAATAA---A----TACTTTAAA-
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322242 81 -  10730278 tggct--tacattatatttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACTGAAAATAAATAA---A----TACTTTAAA-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813036 81 - 128539186 tggct--tacattatagttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGCACTGAAAATAAATAA---A----TACTTTAAA-
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209035 81 +    435186 tggct--tacattatatttctattggacagtgc---tATTCTAGCAGAACAAGTAATGGGAACTGAAAATAAATAA---A----TACTTTAAA-
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609050 81 +   9309688 tggct--tacattatatttctattggacagtgc---tATTCTAGTAGAATAAGTAATGGGAACCAAAAATAAATAA---A----TACTTTAAA-
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426418 77 -  29834108 tggct--tacattatgtttctattggacagtac---tATTCTAACAGAATAAGAAATGGGAACCAAAAAC----AA---A----TATTTTAAA-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878292 81 -   1015025 tggct--tacattatgtttctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACCAAAAACAAATAA---A----TATTTTTAA-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900112 81 -   2295209 tggct--tacattatgattctattggacagtgc---tATTCTAGCAGAATAAGTAATGGGAACCAAAAACAAATAA---A----TATTTTAAA-
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034140 81 +  31815103 tggct--tacattatatttatattgggcagcgc---tgCTTTTGCAGAATAAGTAATGGGAACCCAAAATAAACAA---A----TATTCTAAA-
i micMur3.chr21             C 0 I 242
s otoGar3.GL873576            4596857 81 -  12054995 tggct--tccatcctatttacattggccagtgc---tgCTCTTGCAGAACAAGTAATGGGAACCAAAAATAAATAA---A----TATTCTAAA-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2440940 83 - 149736546 tgact--tacaacttatttatattgga-agtac---tACTCTAGCAGAAGTACTAATGGAAACCAAAAATAAATAGGCCA----TGTTTTAAA-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19750881 85 +  45876710 tggct--tacattatatttatattggacggcac---tgCTCTAACAGAATAAGTACTAAGAACTAAAAATAAATAA---ATCAGTATTTTAAA-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             952261 84 -   1687904 tggctcctacattatatttatattagatagcat---tgCTCAAAAGGAGTAGGTAATAGGAACCAAAAGTAAATAA---G----TCACTTAAAA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=1466255.000000
s hg38.chr12_GL383549v1_alt    114478 139 +    120804 ACTG-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTGCTGTTT-CTACAATTCAATAAAAGTCAGTAATTATTAACTGTGTGTTATATGCCACATCTCCACAAGAAACTGtggggataaagttgagta--atacat
s panTro5.chr12              62811472 139 + 137163284 ACTG-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACGTGCTGTTT-CTACAATtcaataaaagtcaataattattaactgtgtgttatatgccacatctccacaagaaactgtggggacaaagttgaata--atacat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929705 139 + 135337776 ACTG-TTATCACTCAACATTTACATTATATCCTGC---CCAAACGTGCTGTTT-CTACAATTCAATAAAAGTCaataattattaactgtgtgttatatgccacatctccacaagaaactgtagggacaaagttgaata--atacat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145161 139 -  32808036 ACTG-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTGCTGTTT-CAACAATTCAATAAAAGTCaataataattaactgtgtgttatatgccacatctccacaagaaactgtggggacaaagttgagta--atacat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331315 139 +  34552619 ACTG-TTATCACTCAATATTCGCATTATACCCTGC---CCAAACCTGCTGTTT-CAACAATTCAGTAAAAGtcaataattattaactgtgtgttatatgccacatctacacaagaaactgtggggacaaagttgagta--atacat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644021 139 - 133663169 ACTC-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAAAAGTCAATAACGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGAGTA--ATACAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046235 139 - 137757926 ACTC-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAAAAGTCAATAACGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGAGTA--ATACAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417702 139 -   7948249 ACTC-TTATCACTCGACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAAAAGTCAATAACGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGAGTA--ATACAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322323 139 -  10730278 ACTC-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAAAAGTCAATAATGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAACTTGGATA--ATACAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813117 139 - 128539186 ACTC-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAAAAGTCAATAATGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGAGTA--ATACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209116 139 +    435186 ACTC-TTATCACTCAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATAGAAGTCAATAATGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGGATA--ATACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609131 139 +   9309688 ACTC-TTATCACTGAACATTTGCATTATATCCTGC---CCAAACCTACTATTT-CAGCAATTCAATGAAAGTCAATAATGATTAACTGTGTGTTATATGCCACATCTGCACAAGAAACTGTGGGGATAAAGTTGAGTA--ATACAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11426495 142 -  29834108 ACTC-TTATCACTCAATATCTGCATTATATCCTGC---CCAAACCTACTGTTTCCAACAATTCAACAAAAGTCAATAATTATTAACTGTGTGTTATATACCACATCTGCAGCAGAAATTGTGGGGATAGAGTTGAGTAATATACAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878373 140 -   1015025 ACTC-TTATCACTCAACATCTGCATTATATCCTGC---CCAAACCTACTGTTTCCAAcaattcaacaaaagtcaataattattaactgtgtgttatatgccagatctgcaccagaaattgtggggatagagttgaata--atacat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900193 140 -   2295209 ACTC-TTATCACTCAACATCTGCATTATATCCTGC---CCAAACCTACTGTTTCCAAcaattcaacaaaagtcaataattattaactgtgtgttatatgccacatctgcaccagaaattgtggggatacagttgagta--atacat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4596938 139 -  12054995 ACTC-TTATCGCAAACCTTTTGCATCAGGTCCTGC---CTGAGCTTGCTGTTC-AACAAATACTTTTAAATTCAACAGTTGTTAAGTGAATGTTGTGTTCCACATGTGCACAAGAAACTGGGGGACTAAAGACGAATC--ATATGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2441023 137 - 149736546 ACTCATTTTCACGTG-CATCTGT-CCCTGTCCTGCTGTCCAAATGAGCTGTTC-GACAAACACTCTAAAATTCAGTGGTTA--AGCAGTGTGATGT-TCCCACGTCTGCACAGCACACTGTGTGAAAGGAGATGAGAA--ATG-AT
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19750966 136 +  45876710 ACTA-TTATCAC---ATATTTGCTGCATATCCTGA---CCAAATTTACTGTTT-AAAAAACACTCTGGAatttaacaattattgaatatgtgttatgtaccacatctgcacaatatgctggggaaataaagatgaata--ttatat
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             952345 134 -   1687904 ACCA-TTATCAT---ATGGTTACCTTATAACCTGC---CTAAATTTTAAGTTC-AAGAAGCACTCTAAAattcagctattactaa--atgtcttgtgtgccacaactgcatgagaaactgggggactaataataaata--acatat
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3034221 242 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=300662.000000
s hg38.chr12_GL383549v1_alt    114617 104 +    120804 tatcct----ttccatcaaggaactcagttcacagcctggtaggacatactggtgagaacataattatctatcaga-------a------tgcaacaagttcaggatgggagcaCTGATTT
s panTro5.chr12              62811611 104 + 137163284 tatcct----ttccatcaaggaactcagttcacagcctggtaggacatactggtgagaacataattatctatcaga-------a------tgcaacaagttcaggatgggagcaCTGATTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929844 104 + 135337776 tatcct----ttccatcaaggaactcagttcacagcctggtaggacatactagtgagaacataattatctatcaga-------a------tgcaacaagttcaggatgggagcaCTGATTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145300 104 -  32808036 tatcct----ttccatcaaggaactcagttcacagcctggtaggacatactggtgagaacataattatctatcaga-------a------tgcaacaagttcaggatgggagcactgacTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331454 104 +  34552619 tatcct----ttccatcaaggaactcagttcacagcctagtaggacatactggtgagaacataactaactatcaga-------a------tgcagcaagttcaggatgggagcattgattt
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11426637 104 -  29834108 TATCCT----TTCCATCAAGGAACTTAGTTCACAGCTTGGTAGCATGGACTGGTGAGAACATGACTAACTATCAGA-------A------TGCAGCAAGTTCAGGATAGGGGCATTGATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878513 103 -   1015025 tatcct----ttccatcaatgaactcagttcacagcttggtagcacggactggtgagaacatgactaactatcaga-------t------tgcagcaagttcaggattggggCATTGA-TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900333 103 -   2295209 tatcct----ttccatcaaggaactcagttcatagtttggtagcacagactggtgagaacatgactaactgtcaga-------a------tgtagcaagttcaggata-GGGCATTGATTT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4597077 109 -  12054995 TACCAGGGAATTTCATCAGGAAA-----TTCACAACTTGGTAGGACAAACTGGGGAGTAGGTAACTAAGTGCCAAA-------AATGCCCTGTGACAAATCCAAAGTAGGGGTATTGATTT
i otoGar3.GL873576          C 0 I 7
s mm10.chr6                   2441162  84 - 149736546 GAGTGT----TTTCATCAAATAC-----TCCACAACATGACAGGGCAGACAGGCAAATA-----------GTGGGA-------AATG---TGTGGCAACCTCCAGGTGGGGGCA-------
i mm10.chr6                 I 2 I 1
s canFam3.chr27              19751102  98 +  45876710 tatcct----ttccatgaaggatttcagtt-------tggtaggacagactcatgagcatgtaactaattccaaaa-------aaggccttatgacaagttcagagtggagacatt-----
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             952479 100 -   1687904 --------gacttcctcaaggaa-----tttacaac-tagcaggacagactggtgaatatgtaactaattaccaagcaataata------tgtgACAAGTACAGAGCA-GAGCATTGTTTT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3034221 242 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=1369584.000000
s hg38.chr12_GL383549v1_alt    114721 350 +    120804 ------------------------TTTTTTT---CTTTCTGAGTAGAAATGGGAAGAGCTAAGACAAGGGAAAAACCCTCTGGAGGAG---TTGTGTGAGATATGTAGACCTTGGTagaaaga--gggcattccacatggaggggacc-acacacaagagtgggtctgctcaagagatagtgaaaagcgtcatgtggctgagagtaagctggatcaggataaaagaggctggaaatttcgacaggatccagatgaggaaaggcctc-----------gaatgccaagctgcagg--------gatt-gact--ttgtcttctatgtgaatggacacccatcaaatactttcaagcagaa----aacatggttcgactggaattttagaaagataactctggcagaaaaa
s panTro5.chr12              62811715 353 + 137163284 ------------------------TTTTTTTTTTCTTTCTGAGTAGAAATCAGAAGAGCTAAGACAAGGGAAAAACCCTCTGGAGGAA---TTGTGTGAGATACGTAGACCTTGGTagaaaga--gggcattccacatggaggggacc-acacacaagagtgggtctgctcaagagatagtgaaaagcgtcatgtggctgagggtaagctggatcaggataaaagaggctggaaacttcgactggatccagatgaggaaaggcctc-----------gaatgccaagctgcagg--------gatt-gact--ttgtcttctatgtgaatggacacccatcaaatactttcaagcagaa----aacatggttcgactggaattttagaaagataagtctggcagaaaaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60929948 348 + 135337776 ------------------------TTTTT-----CTTTCTGAGTAGAAATCGGAAGAGCTAAGACAAGGGAAAAACCCTCTGGAGGAA---TTGTGTGAGATACGTAGACCTTGGTagaaaga--gggcattccacgtggaggggacc-acacacaagagtgggtctgctcaagagatagtgaaaagtgtcatgtggctgagggtaagctggatcaggataaaagaggctggaaacttcgactggatccagatgaggaaaggcctc-----------gaatgccaagctgcagg--------gatt-gact--ttgtcttctatgtgaatggacacccatcaaatactttcaagcagaa----aacacggttcgactggaattttagaaagataactctggcagaaaaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145404 351 -  32808036 ------------------------TTTTTTTT--CTTTCCGAGTAGAAATGGGAAGAGCTAAGACAAGGGAAAAACCCTCTGGAGAAG---CTGTGTGAGATACGTAGACCTTGGTagaaaga--gggcattccacatggaggggacc-acacacaagagtgggtctgctcaagagatagtgaaaagcgtcatgtggctgagggtaagctggatcaggataaaagaggctggaaacttcgactggatccagatgaggaaaggcctc-----------gaatgccaagctgcagg--------gatt-gact--ttatcttctatgtgaatggacacccatcaaatactttcaagcagaa----aacatggttcgactggaattttagaaagataactctggcggaaaaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331558 355 +  34552619 ------------------------tttttt----ctttctgagtagaaatgggaagagctaagacaagggaaaaactctctagaggag---ttgtgtgagatacgtagaccttggtagagagagggggcattccacatggaggcgacc-acacacaagagtgggtctgctcaggagatagtgaaaagtgtcatgtggctgagggcaagctggatcaggatagaagaggctggaaacttcaactggatccagatgaggaaaggcctc-----------gaatgccaagctgcagt--------gatt-gact--ttatcttctatgtgaatggacacccatcaaatactttcaagcagaaaaataacgtggttcgactggaattttagaaagataactgtggcagaaaaa
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11426741 351 -  29834108 ------------------------TTTT------CTTTCTGAGTAGAAATGGGAAGAATTTAGACAAGGGGAAAACTCTCTAGAAGAG---CTGTGTGAGATATGTAGACCTTGATagacaaa--gggcattccacatggagaggacc-acacacaagagtgggtctgctcaggagatagtgaaaagcaccatgtggctgagggcaagctgggtcaggagacaagagcatggaaagttcaactagattcagataaggaaagacctg-----------gaatgccaaactgaagg--------gatt-gact--ttatcttccatgtgaatggacatccatcaaatacttttaggaagaaaaataacatgactcgactggaattttagaaagataactctagcagaaaaa
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878616 349 -   1015025 ------------------------TTTT------CTTTCTAAGTAGAAATGGGAGGAACTTAGACAAGGGGAAAACTATCTAGAAGAG---CTGTGTGAGATATGTAAACCTTGGTagacaaa--gggcattccacatggagaagacc-acacacaagggtgggcctgctcaggagatagtgaaaagcatcatgtggctgagggcaagctgtgtcaggagacaagagcctggaaacttcaactagattcagataaggaaagacctg-----------gaatgccaaactgaagg--------gatt-gact--ttatcttctgtgtgaatggacacccatcaaatacttataagtagaaaaataacatggctcgactggaattttagaaagataa--ctggcagaaaaa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900436 350 -   2295209 ------------------------TTTT------CTTTCTGAGTAGAAATGGGAAGAACTTAGACAAGGGAAAAACTCCCTAGAAGAG---CTGTGTGAGATATGTGGACCTTGGTagacaaa--gggcattccacatggagaggacc-acacacaagagcgggtctgctcaggagacagtg-aaagcatcatgtggctgagggcaagctgggtcaggagacaagagcctggaaacttcaactagattcagataaggaaagacctg-----------gaatgccaaactgaagg--------gatt-gact--ttatcttctatgtgaatggacacccatcaaatacttttaggcagaaaaataacatggctcgactggaattttagaaagataactccggcagaaaag
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034463 352 +  31815103 ------------------------TTTTTT----CTTTCTGGGCAGAAATGGGAAGAGCTAAGACAAGGGACGGACTTCCTAGAGGGGTTGTTGTGTAAGATATGTAGACCTCAGTAgagaga--cagcattccaagtagagagaagc-acaaaaaagagtgattatgttcaggagatagtgaaaggcatcatgggactgagggcaagctgggtcagagaaaaagaggctggaaaccccaattggaaccagataatgacaggtcta-----------cagtgcggggctgaggg--------agtt-gact--ttatcttctaagagaatgggtacccatcaaagactttcagaaagat----aacatggttagattagaattttaaaaagataactctgacAAAAAAA
i micMur3.chr21             I 242 I 116
s otoGar3.GL873576            4597193 341 -  12054995 ------------------------TTTTTC----CTGTCTGGGCAGAAATAGGAAGAGGTAAGACAA-------CCTCCCTAGAGGGGTTCTTGTGTAAGATGTGTAGAGCCTGGTGGAGAGA--GGGCGTTCCAGGTGGAGAG-AGT-AC-AAAAGGAGTGACTATGTTCAGGAGACAGTGAAAAGCTTCAGGTGACTGAGGGCAAGCTGGTTCAGTGAAGAAGAGGCTGGAAACCCCAACTGGAACCAGATAATGACAAGTCTT-----------GAGGGCAGAGCTCAGGG--------CATT-GACT--TTACCGTCTAAGAGAATGGGTACCTAGCAAAGACTTCCAGAAAAAT----AACCTGGTTAGATCAGGATTTTTAAAAGATAA--CTGGCAGAAAAA
i otoGar3.GL873576          I 7 C 0
s mm10.chr6                   2441247 325 - 149736546 ------------------------TCTTTT----GTTCATGAGTAAAAATGAGGAGAGCTAAGACAAGGGGCAGACTTGTCAGAAGAGACGCTGACCAAGGCATGCAGACTGCAG----GGGA--GGGCAT--CTGATGGAAAGAGTCAACACGGAAGAGTCACTGTGTGTAAGAGGCAGAGAAAAGC--TAAGGAGCTGAGGGCAAGGTGGGCAAAG--AGAAGAGTCTGGAAGCATGGGCTACAAACAGATAATGAGAAGCCTCTGTTATCTGTTTAATGAGAAGC-GATGA--------AACA-GGCTTGTCATCTACAAAGTGATT---CACTAAACAGGTG-----AAGCATGA----AACATGGAAC-ACTGACAATTTATA---------------------
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19751201 353 +  45876710 ------------------------tttctt----ctttctaagtag-aatggggagaagtaagatgagag--agactcctcagaggaattgctatctgggatgcttaaatcttggtgtggaga--gggcattccagatacagagaact-gtacagaggagtcaatgtattcaagagataattaaaagcttagtgtggttgcagacaatctgggtcagaaaagaagtatctgggatctttgactgggaccagattatgaaaggtctc-----------aaatgtcaagctgaggg--------aattggacc--ttatcttctaagggaatggggacccatcaaagacttttaagcagaa-aatagcatggttagattggaattttagaaagataactttgacagaaaag
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             952579 363 -   1687904 TTTGTGTGTTGTTTATTTGCTTTGTTTTTT----CTTTCTGGGCAGAAACAGGAATAAGCAAAA-----------------AGAGGCATTGCTATCTGAGCTAGACAGAACTTGGTGG-GAGA--GGGTATTGCAGATACAGAGGACT-AT----CAGAGTCAACATGTTTAGGAGACAGTGAAAGGTTCGGTGTGGCTGAGGACAAGCTGTGTCCGAAGAGAAGAGGATGGAAACCTTGACTGAGACCAGATTCTGAGAGCCCTT-----------TAGTGCCTAGCCAAGGGGGGGGGGCGGTG-AACA--TTATCTTCTAAGGGCATGGGGAGCCATCGAAGATGGCTAAGCAGAGACA-TACATGTTCATATTGGAATTTTTGAAAGATAA--GTGGCAGAAAAA
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=492459.000000
s hg38.chr12_GL383549v1_alt    115071 186 +    120804 cggaggctaaactaaagtgggg--AGACTAG----ATTCTGGTGGC--CTGGGGCA---TGA---GGGATTGGGTGGTTATCAATAG-AT-----CCCTGTGACTTTGGGAGCAGCTGAGTCCATAACAGAGTTACTTGGTCTTGC--CATTGCTCACACTTAAAAATAAAA------AGACAT----TTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTT
s panTro5.chr12              62812068 186 + 137163284 cggaggctaaactaaagtgggg--AGACTAG----ATTCTGGCGAC--CTGGGGCA---TGA---GGGATTGGGTGGTTATCAATAG-AT-----CCCTGTGACTTTGGGAGCAGCTGAGTCCATAACAGAGTCACTTGGTCTTGC--CATTGCTCACACTTAAAAATAAAA------AGACTT----TTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930296 185 + 135337776 cggaggctaaactaaagtgggg--AGACTAG----ATTCTGGCGAC--CTGGGGCA---TGA---GGGATTGGGTGGTTATCAATAG-AT-----CCCTGTGACTTTGGGAGCAGCTGAGTGCATAACAGAGTCAC-TGGTCTTGC--CATTGCTCACACTTAAAAATAAAA------AGACAT----TTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145755 185 -  32808036 c-gaggctaaactaaagtgggg--AGACTAG----ATTCTGGCGGC--CTGGGGCA---TGA---GGGATTGGGTGGTTATCAATAG-AT-----CCCTGTGACTTTGGGAGCAGCTGAGTCCATAACAGAGTCACTTGGTCTTGC--CATTGCTCACACTTAAAAATAAAA------AGACAT----TTTTTTCTAAA----ATCCTGGTT-----AGAACTTCTC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7331913 185 +  34552619 cggaggctaaactaaagtgggg--AGACTAG----ATTCTGGCAGG--CTGGGGCA---TGA---GGGATTGGGTGGTTATCAATAG-AT-----CCCTGTGACTTTGGGAGCAGCTAAGTCCATAACGGAGCCACTTGGTCTTGC--CATTGCTCACGCTTAAAAATAAAC------AGACCT----TTTTTTCTGAA----ATCC-GGTT-----AGAACTTCTC
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427092 172 -  29834108 cagaggttaaatgcaagtgggg--agactag---AATGCTGGTGGG--CTGGGGCA---TGA---AGGATTGGATTGTTATCT--------------ATGTGATTTTGGGAGTGGCTGAGTCCATAACAAAGCTACTTGGTCTCGC--TGTTGCTCACACTTAAAAAGACA-----------------CTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       878965 179 -   1015025 cagaggttaaatgaaagtgggg--agactcg----atgctgggggg--ctGGGGCG---TGA---AGGATTGGCTTGTTATCTATAG-AT-----CCATGTGACTTTGGGAGTGGCTGAGTCCATAACAAAGCCACTTGGTCTCGC--TGTTGCTCACACTTAAAGAGACA-----------------TTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900786 179 -   2295209 cagaggttaaacaaaagtgggg--agactag----atgctggTGGG--CTGGGGCA---TGA---AGGATTGGAATGTTATCTATAG-AT-----CCGTGTGACTTTGGGAGTGGCTGAGTCCGTAACAAAGCCACTTGGTCTCGC--TGTTGCTCACACTTAAAAAGACA-----------------CTTTTTCTGAA----ATCCTGGTT-----AGAACTTCTC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4597534 199 -  12054995 TGGAGGCTAAACTAAAATGAGG--AGACTGACTACATGCTGGCTGA---TGGGGCC---GGG---GAGTTT-----GTCTTCTAAAG-CTACATCCCCCATGACTTTGGAAGAGGCTCAGTGCGTAACAGAGCCGCTTGGTCTAAC--CACTCCTCATGCTTGAAAAGAAAGCTTAACAGATA-----CCTTTTCTGAA----ACCCTGGGTAAAACAGAGCTCCCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2441572 177 - 149736546 ------CTAAGACAGACTGAGA--GGATGAG----ATGTTAGTGGTGACCAGTGCATTGTGA---AGAGTTGGGGCTTCACCT------------ACATGTGGTTTGGGGAAGCACTGATTCCATGACA-------TCCATCTTATAAAACTGCTGTCCCTTGAAAAGAAAA------CCAAA-----ATTACACTGAACTCCATCTTAAGT-----AAGAGTTCCC
i mm10.chr6                 C 0 I 2
s canFam3.chr27              19751554 200 +  45876710 tggagtttaaatgaaaatagggaaagaaaag----aggctagtagg-------------tgagtgggggttaGGTTCTTATTAATAT-ATTT---TCCTTTGACTTTGGGATAGACTGATTTCAGAGAAGATCCATTTGGTCTCAT--CATTGCTCATACTTGAAAATAAAGGTTTTTAAAAATGCCACTTTTTCCAAA----ATCCTGGTTAAACCAGAACTTCTC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             952942 194 -   1687904 TAGAGGATAAACCAGAATGAGGTGAGATTAG----AGGCTGGAGTG--GTGATTGG---AGA---GGGATTAGGTTCTTATCTTCAGAAC-----TCTTCTGACTTTGAAAGAGGCAGATTCCATAATAGACCCAGT-----TTGC--CATGGCTCATTCTTGAAAATAAAGTTTAAAAGTTA-----TTTTTTCTAAG----ATCCTAGTCAAAACAGAACTTCTT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3034815 116 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=401000.000000
s hg38.chr12_GL383549v1_alt    115257 105 +    120804 TAGTCTCCTATTCAAGGCTAGCTTGACAACATTTTATTTCTGGTTGCTCAATAATCAA---------------TTGTTCAGGA--AA-AAAAAAA--GCTTTTGTCTATTCTTAGAG-----AGCACTCA
s panTro5.chr12              62812254 106 + 137163284 TAGTCTCCTATTCAAGGCTAGCTTGACAACATTTTATTTCTGGTTGCTCAATAATCAA---------------TTGTTCAGGA--AA-AAAAAAA-AGCTTTTGTCTATTCTTAGAG-----AGCACTCA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930481 106 + 135337776 TAGTCTCCTATTCAAGGCTAGCTTGACAACATTTTATTTCTGGTTGCTCAATAATCAA---------------TTGTTCAGGA--AA-AAAAAAA-AGCTTTTGTCTATTCTTAGAG-----AGCACTCA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3145940 107 -  32808036 TAGTCTCCTATTCAAGGCTAGCTTGACAACATTTTATTTCTGGTTGCTCAATAATCAA---------------TTGTTCAGGA--AA-AAAAAAAAAGCTTTTGTCTATTCTTAGAC-----AGCACTCA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332098 107 +  34552619 TAGTCTCCTATTCAAGGCTAGCTTAACAACATTTTATTTCTGGTTGCTCAGTAATCAA---------------TTGTTCAGAA--AA-AAAAAGAAAGCTTTTGTCTATTCTTAGAG-----AGCACTCA
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427264 110 -  29834108 TAGTTTTCTATTCAAGGCTAGCTTAACAACATTTTATTTCTGGTTGCTCAGTAATCAA---------------TTGTTCAAGGTTGGCGGGGGGGAAGCTTTTGTCTATTCTTAGAG-----AGCACTCA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879144 109 -   1015025 TAGTTTTCTATTCAAGGCTAGCTTAACAACATTTTATTTCTGGTTGCTCAGTAATCAA---------------TTGTTCAAGGGGGG-GGGGGGAAAGCCTTTGTCTATTCTTAGAG-----AGCACTCA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1900965 107 -   2295209 TAGTTTTCTATTCAAGGCTAGCTTGACAACATTTTATTTCTGGTTGCTCAGTAATCAA---------------TTGTTCAGGG--GG-GAAAAAAAAGCTTTTGTCTGTTCTTAGAG-----AGCACTCA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3034931  94 +  31815103 TAGTCTCCTATTCAAGGCTAGGTTGGCAACATTC--TCTCTGGTAGCTCAGTAATGGA---------------ATGTTCAGG------AAAAAAG--------CTTTATTCCTTGAG-----AGCACTCA
i micMur3.chr21             I 116 C 0
s otoGar3.GL873576            4597733  97 -  12054995 TAGTCTTCTATTCCAGGCTAGCCTGACAACATTC--TCTCTGGTTTCTCGGGAATCAA---------------ATGGGCAAGC--AA-AAAAAAA--------CTTTATTCCTAGAG-----AGCGCTCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2441751  93 - 149736546 TGGTCTTC---TCAAGACAAGGCTGCCAGAAT----TCTCTGTTCAGCCCATCAACAA---------------CTGCTCAAGA--AA-AGG------------CTTGGTTCTTAGAGGAGTCGGCACTCA
i mm10.chr6                 I 2 C 0
s canFam3.chr27              19751754  99 +  45876710 TAGTCTTCTACTCAAAGCTAGCTTGGTAACATTCCATTTCTGGTTGCTCAGTAATCGA----------------TGTTCAGGT--AA-AAAG-------CTTGGTCTATTCCCAGAG-----AGCACCCA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             953136 115 -   1687904 TAGTGGCCTATTTAAGACTAG----ACAACATTCTATTTCTGGATGCTCTGTAAAAAAAAAACAAAACACCTTTTTTTCAGGG--AA-AAAAAAAGA---TTTGTCTATTTCAAAAG-----AACTTTCA
i dasNov3.JH562883          C 0 I 1196
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=145697.000000
s hg38.chr12_GL383549v1_alt    115362 36 +    120804 ATCCA-CTTACGGCTTGAACTGGTTATAGGCAGTTAA
s panTro5.chr12              62812360 36 + 137163284 ATCCA-CTTACGGCTTGAACTGGTTATAGGCAGTTAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930587 36 + 135337776 ATCCA-CTTACGGCTTGAACTGGTTATAGGCAGTTAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146047 35 -  32808036 ATCAA-CTTACGGCTTGAACTGGTT-TAGGCACTTAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332205 36 +  34552619 ATCCA-CTTATGGCTCGAACTGGTTATATGCAGTTAA
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427374 36 -  29834108 ATCCA-CTTATGGCATGAAATGGACATAGGCAGTTAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879253 36 -   1015025 ATCCA-CTTATGGCATGAACTGGACATAGGCAGTTAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901072 36 -   2295209 ATCCA-CTTATGGCATGAACTGGTCATAGGCAGTTAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035025 36 +  31815103 ATCCA-TTTATGGTTTCAACTGGTTATATGCAGTTAA
i micMur3.chr21             C 0 I 113
s otoGar3.GL873576            4597830 36 -  12054995 ATCTG-CTTATGACTTCAACTAGTTATATGCAATTTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2441844 37 - 149736546 AGCCACCTCAAGGATTCCACAGATTGAATGCAATTAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19751853 36 +  45876710 GTCTA-CTTATGGCTTCAATTGGTTATATGCAGTTAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954447 35 -   1687904 GTCCA-C-CATGGTTTCAACAAGTTGTATGCTGTTAC
i dasNov3.JH562883          I 1196 C 0
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270  0 +   9309688 C
e manLeu1.NW_012101287v1       209255  0 +    435186 C
e chlSab2.chr11             100813256  0 - 128539186 C
e cerAty1.NW_011999477v1      8322462  0 -  10730278 C
e macNem1.NW_012011422v1      1417841  0 -   7948249 C
e macFas5.chr11             109046374  0 - 137757926 C
e rheMac8.chr11             104644160  0 - 133663169 C

a score=46662.000000
s hg38.chr12_GL383549v1_alt    115398 11 +    120804 CTCTTAATTTT
s panTro5.chr12              62812396 11 + 137163284 CTCTTAATTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930623 11 + 135337776 CTCTTCATTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146082 11 -  32808036 CTCTTAATTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332241 11 +  34552619 CTCTTAATTTT
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427410 11 -  29834108 CTCTTAAATTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879289 11 -   1015025 CTCTTAAATTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901108 11 -   2295209 CTCTTAAATTT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4597866 11 -  12054995 TTTTTGAATTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2441881 11 - 149736546 CTCTTGAGTCT
i mm10.chr6                 C 0 I 113
s canFam3.chr27              19751889 11 +  45876710 CTCTTGAATTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954482 11 -   1687904 TTCTTGAATTC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035061 113 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270  0 +   9309688 C
e manLeu1.NW_012101287v1       209255  0 +    435186 C
e chlSab2.chr11             100813256  0 - 128539186 C
e cerAty1.NW_011999477v1      8322462  0 -  10730278 C
e macNem1.NW_012011422v1      1417841  0 -   7948249 C
e macFas5.chr11             109046374  0 - 137757926 C
e rheMac8.chr11             104644160  0 - 133663169 C

a score=208647.000000
s hg38.chr12_GL383549v1_alt    115409  71 +    120804 ----GCTAAATTCCTTTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAACAGCTCTGAATAAGGGTGAGTTGTACATGAAACTTATTCC
s panTro5.chr12              62812407  71 + 137163284 ----GCTAAATTCCTTTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAACAGCTCTGAATAAGGGTGAATTGTACATGAAACTTATTCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930634  71 + 135337776 ----GCTAAATTCCTTTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAACAGCTCTGAATAAGGGTGAGTTGTACATGAAACTTATTCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146093  71 -  32808036 ----TCTAAATTCCTTTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAACAGCTCTGAATAAGGGTGAGTTGTACATGAAACTTATTCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332252  71 +  34552619 ----TCTAAATTCCTTTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAACAGCTCTGAATAAGGGTGAGTTGTATATGAAACTTATTCC
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427421  71 -  29834108 ----TCTAAATTCCACTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------GAAGAGCTCTGAATAAGGGTGAGTTGTATTTGAAACTTATTCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879300  71 -   1015025 ----TCTAAATTCCACTTC---------------CAGGATTG-----------------------ATGTG-------------------------------------------------------------AAAGAGCTCTGAATAAGGGCAAGTTGTATATGAAACTTATTCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901119  71 -   2295209 ----TCTAAATTCCACTTT---------------CAGGATTG-----------------------ATATG-------------------------------------------------------------AAAGAGCTCTGAATAAGGCTGAGTTGTGTATGAAACTTATTCC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4597877 170 -  12054995 ----TCTTTTTTttttttttctgtggtttttggccagggctgggttcgaacccaccacttccagcatatggggccagcgccctactccttgagccacaggcgctgcccTATTTTTGAATTTTCTTCATTCAAGAGAGCTGTGGGTGAGGGTGGGTCATGTATGAAACTTACTCC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19751900  71 +  45876710 ----TTTTAGTTCCATTTT---------------CAGGGTTG-----------------------ATTTA-------------------------------------------------------------AAAGAGCCATGGGTAAAGGTGAGGCATGTATAAAACTGAGCCC
i canFam3.chr27             C 0 I 265
s dasNov3.JH562883             954493  75 -   1687904 TTTCTGTTCGCTCCATCTT---------------CAGTGTTG-----------------------ATAAG-------------------------------------------------------------GAAGAACTATGGGTAAAGGTGAGTCGCCTGTAAAACTTACCCC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=4095.000000
s hg38.chr12_GL383549v1_alt    115480 1 +    120804 T
s panTro5.chr12              62812478 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930705 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146164 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332323 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427492 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879371 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901190 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598047 1 -  12054995 T
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             954568 1 -   1687904 T
i dasNov3.JH562883          C 0 I 14
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270 0 +   9309688 C
e manLeu1.NW_012101287v1       209255 0 +    435186 C
e chlSab2.chr11             100813256 0 - 128539186 C
e cerAty1.NW_011999477v1      8322462 0 -  10730278 C
e macNem1.NW_012011422v1      1417841 0 -   7948249 C
e macFas5.chr11             109046374 0 - 137757926 C
e rheMac8.chr11             104644160 0 - 133663169 C

a score=60664.000000
s hg38.chr12_GL383549v1_alt    115481 23 +    120804 CAACATCCTCTCTGCAGGTGAAC
s panTro5.chr12              62812479 23 + 137163284 CAACATCCTCTCTGCAGGTGAAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930706 23 + 135337776 CAACATCCTCTCTGCAGGTGAAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146165 23 -  32808036 CAACATCCTCTCTGCAGGTGAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332324 23 +  34552619 CAACATCCTCTCTGCAGGTGAAC
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427493 23 -  29834108 CAACATCCCCTCTGGAGGTAAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879372 23 -   1015025 CAACATCCTCTCTGGAGGCGAAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901191 23 -   2295209 CAACATCGTCTCTGGAGGTGAAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598048 23 -  12054995 TAGTGTACTCTGTGGAGGTGTAC
i otoGar3.GL873576          C 0 I 1
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             954569 14 -   1687904 I
e colAng1.NW_012114364v1      3609270  0 +   9309688 C
e manLeu1.NW_012101287v1       209255  0 +    435186 C
e chlSab2.chr11             100813256  0 - 128539186 C
e cerAty1.NW_011999477v1      8322462  0 -  10730278 C
e macNem1.NW_012011422v1      1417841  0 -   7948249 C
e macFas5.chr11             109046374  0 - 137757926 C
e rheMac8.chr11             104644160  0 - 133663169 C

a score=1166814.000000
s hg38.chr12_GL383549v1_alt    115504 536 +    120804  
s panTro5.chr12              62812502 536 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60930729 536 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146188 534 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332347 542 +  34552619  
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11427516 569 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879395 559 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901214 552 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4598071   1 -  12054995 I
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e dasNov3.JH562883             954569  14 -   1687904 I
e colAng1.NW_012114364v1      3609270   0 +   9309688 C
e manLeu1.NW_012101287v1       209255   0 +    435186 C
e chlSab2.chr11             100813256   0 - 128539186 C
e cerAty1.NW_011999477v1      8322462   0 -  10730278 C
e macNem1.NW_012011422v1      1417841   0 -   7948249 C
e macFas5.chr11             109046374   0 - 137757926 C
e rheMac8.chr11             104644160   0 - 133663169 C

a score=20853.000000
s hg38.chr12_GL383549v1_alt    116040  8 +    120804 TA----TATGTG
s panTro5.chr12              62813038 12 + 137163284 TAAGTATATGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931265  8 + 135337776 TA----TATGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146722  8 -  32808036 TA----TATGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332889  8 +  34552619 TA----TATGTG
i nomLeu3.chr23             C 0 C 0
s saiBol1.JH378123           11428085  8 -  29834108 TA----TATGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879954  8 -   1015025 TA----TATGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901766  8 -   2295209 TA----TATGTA
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             954583  8 -   1687904 TA----TATGTA
i dasNov3.JH562883          I 14 C 0
e otoGar3.GL873576            4598071  1 -  12054995 I
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e colAng1.NW_012114364v1      3609270  0 +   9309688 C
e manLeu1.NW_012101287v1       209255  0 +    435186 C
e chlSab2.chr11             100813256  0 - 128539186 C
e cerAty1.NW_011999477v1      8322462  0 -  10730278 C
e macNem1.NW_012011422v1      1417841  0 -   7948249 C
e macFas5.chr11             109046374  0 - 137757926 C
e rheMac8.chr11             104644160  0 - 133663169 C

a score=58455.000000
s hg38.chr12_GL383549v1_alt    116048 6 +    120804 TTCTCT
s panTro5.chr12              62813050 6 + 137163284 TTCTCT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931273 6 + 135337776 TTCTCT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146730 6 -  32808036 TTCTCT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332897 6 +  34552619 TTCTCT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644160 6 - 133663169 TTCTCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046374 6 - 137757926 TTCTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417841 6 -   7948249 TTCTCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322462 6 -  10730278 TTCTCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813256 6 - 128539186 TTCTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209255 6 +    435186 TTCTCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609270 6 +   9309688 TTCTCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428093 6 -  29834108 TTCTCT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879962 6 -   1015025 TTCTCT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901774 6 -   2295209 TTCTCT
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             954591 2 -   1687904 ----CC
i dasNov3.JH562883          C 0 C 0
e otoGar3.GL873576            4598071 1 -  12054995 I
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=104218.000000
s hg38.chr12_GL383549v1_alt    116054 10 +    120804 CTTACTTGGC
s panTro5.chr12              62813056 10 + 137163284 CTTACTTGGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931279 10 + 135337776 CTTACTTGGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146736 10 -  32808036 CTTACTTGGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332903 10 +  34552619 CTTACCTGGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644166 10 - 133663169 CTTACCTGGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046380 10 - 137757926 CTTACCTGGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417847 10 -   7948249 CTTACCTGGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322468 10 -  10730278 CTTACCTGGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813262 10 - 128539186 CTTACCTGGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209261 10 +    435186 CTTACCTGGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609276 10 +   9309688 CTTACCTGGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428099 10 -  29834108 CTTATCTGGT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879968 10 -   1015025 CTTATCTGGT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901780 10 -   2295209 TTTATCTGGT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598072 10 -  12054995 CTTACCTAGC
i otoGar3.GL873576          I 1 C 0
s dasNov3.JH562883             954593 10 -   1687904 CTTATCTGAT
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035061 113 +  31815103 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=40919.000000
s hg38.chr12_GL383549v1_alt    116064 3 +    120804 CTA
s panTro5.chr12              62813066 3 + 137163284 CTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931289 3 + 135337776 CTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146746 3 -  32808036 CTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332913 3 +  34552619 CTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644176 3 - 133663169 CTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046390 3 - 137757926 CTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417857 3 -   7948249 CTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322478 3 -  10730278 CTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813272 3 - 128539186 CTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209271 3 +    435186 CTA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609286 3 +   9309688 CTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428109 3 -  29834108 CTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879978 3 -   1015025 CTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901790 3 -   2295209 CTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035174 3 +  31815103 CTA
i micMur3.chr21             I 113 C 0
s otoGar3.GL873576            4598082 3 -  12054995 CTA
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             954603 3 -   1687904 TTA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2441892 113 - 149736546 I
e canFam3.chr27              19751971 265 +  45876710 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=313151.000000
s hg38.chr12_GL383549v1_alt    116067 24 +    120804 AAAGTGGTCC-AATCAGCTCATCCC
s panTro5.chr12              62813069 24 + 137163284 AAAGTGGTCC-AATCAGCTCATCCC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931292 24 + 135337776 AAAGTGGTCC-AATCAGCTCATCCC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146749 24 -  32808036 AAAGTGGTCC-AATCAGCTCATCCC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332916 24 +  34552619 AAAGTGGTCC-AATCAGCTCATCCC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644179 24 - 133663169 AAAGTGGTCC-AATCAGCTCATCCC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046393 24 - 137757926 AAAGTGGTCC-AATCAGCTCATCCC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417860 24 -   7948249 AAAGTGGTCC-AATCAGCTCATCCC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322481 24 -  10730278 AAAGTGGTCC-AATCAGCTCATCCC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813275 24 - 128539186 AAAGTGGTCC-AATCAGCTCATCCC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209274 24 +    435186 AAAGTGGTCC-AATCAGCTCATCCC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609289 24 +   9309688 AAAGTGGTCC-AATCAGCTCATCCC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428112 24 -  29834108 AAAGTGATCC-AATCAGCTCATCCC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       879981 24 -   1015025 AAAGTGGTCC-AATCAGCTCATCCC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901793 24 -   2295209 AAAGTGGTTC-AATCAGCTCATACC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035177 24 +  31815103 AAAGTGGTCC-AGTCAGCTCATCCC
i micMur3.chr21             C 0 I 213
s otoGar3.GL873576            4598085 19 -  12054995 AAAGCGGCCC-AGTCAGCTA-----
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19752236 24 +  45876710 AAAGTAATCC-AATCAGCTCATCCT
i canFam3.chr27             I 265 C 0
s dasNov3.JH562883             954606 20 -   1687904 AAAGTGACCCAAATCAGTTT-----
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2441892 113 - 149736546 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=91297.000000
s hg38.chr12_GL383549v1_alt    116091 13 +    120804 CACTGCCCTCCAC
s panTro5.chr12              62813093 13 + 137163284 CACTGCCCCCCAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931316 13 + 135337776 CACTGCCCCCCAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146773 13 -  32808036 CACTGCCCCCCAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332940 12 +  34552619 CACTGCTCCCC-C
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644203 13 - 133663169 TACTGCTTCCCAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046417 13 - 137757926 TACTGCTTCCCAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417884 13 -   7948249 TACTGCTTCCCAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322505 13 -  10730278 TACTGCTTCCCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813299 13 - 128539186 TACTGCTTCCCAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209298 13 +    435186 TACTGCTTCCCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609313 13 +   9309688 TACTGCTTCCCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428136 13 -  29834108 CACGGCTCCCCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880005 13 -   1015025 CACTGCTCCCCAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901817 13 -   2295209 CACTGCTCCTCAC
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598104  9 -  12054995 ----GCTCATCCC
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19752260 10 +  45876710 -CCCATCCCCT--
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954626  7 -   1687904 ------CCCCCTC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2441892 113 - 149736546 I
e micMur3.chr21               3035201 213 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=299967.000000
s hg38.chr12_GL383549v1_alt    116104 30 +    120804 CCACGAGTCTCAG-TTCTGCCCAAC-ACAAGG
s panTro5.chr12              62813106 30 + 137163284 CCCGCAGTCTCAG-TTCTGCCCAAC-ACAAGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931329 30 + 135337776 CCCCCAGTCTCAG-TTCTGCCCAAC-ACAAGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146786 30 -  32808036 CCCCCAGTCTCAG-TTCTGCCCAAC-ACAAGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332952 30 +  34552619 CCCCCAGTCTCAG-TTCTGCCCAAC-ACAAGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644216 30 - 133663169 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046430 30 - 137757926 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417897 30 -   7948249 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322518 30 -  10730278 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813312 30 - 128539186 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i chlSab2.chr11             C 0 I 144
s manLeu1.NW_012101287v1       209311 30 +    435186 CCCCTAGTCTCAG-TTCTGCCCAAC-ACAAGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609326 30 +   9309688 CCCCCAGTCTCAG-TTCTGCCCAAC-ACAAGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428149 30 -  29834108 CCCCCAGTCTCAG-CTCTCCCCAAC-ACAAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880018 30 -   1015025 ACCCCAGTCTCAG-CTCTCCCCAAC-AGAAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901830 30 -   2295209 CCCCCAGTCTCAG-CTCTCCCCAAC-ACAAGG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598113 29 -  12054995 TCCCAAATATCAGCTTCTTCCCAGC---AAGG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442005 30 - 149736546 CTATGGTTCTCAT-TCCTCCCAAGT-ACCGGC
i mm10.chr6                 I 113 I 8
s canFam3.chr27              19752270 27 +  45876710 ----AAAATTGAC-TTCTTTTCAATTACAAAG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954633 29 -   1687904 -CCAAAATTCTGC-TTTTGCCCAAC-ACAAGA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035201 213 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=1710897.000000
s hg38.chr12_GL383549v1_alt    116134 188 +    120804 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAGAACGACAGCACCCGATCAATCCAGCTAGAGGAGGAAAGACAGCCT-GAAAACATTATTTAATCATCTCAATTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGCTTATGGATAAATCTGAAAGAATATAGCAAGCCCTTAAAC
s panTro5.chr12              62813136 189 + 137163284 -------------CACAAA--GCAGGAGCGAATG---------------TCAGCCTTACTCTTAA-CGCACAGAACGACAGCACCCGATCAATCCAGCTAGAGGAGGAAAGACAGCCT-GAAAACATTATTTAATCATCTCAATTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGCTTATGGATAAATCTGAAAGAATATAGCAAACCCTTAAAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931359 188 + 135337776 -------------CACAAT--GTAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAGAACGACAGCACCCGATCAATCCAGCTAGAGGAGGAAAGACAGCCT-GAAAACATTATTTAACCATCTCAATTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGCTTATGGATAAATCTCAAAGAATATAGCAAACCCTTAAAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3146816 188 -  32808036 -------------GACAAC--GCAGGAGCAAATG---------------TCAGCCTTACTCT-AA-CGCACAGAACGACAGCACCCAATCAATCCAGCTAGAGGAGGAAAGACAGCCT-GAAAACATTATTTAATCATCTCAATTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGCTTATGGATAAATCTGAAAGAATATAGCAAGCCCTTAAAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7332982 188 +  34552619 -------------CACAAT--GCAGGAGTAAACG---------------TCAGCCTTACTCT-AA-CACACAGAACGACAGCACCGGATTAATCCACCTAGAGGAGGAAAGAGAGCCT-GAAAACATTATTTAATCATCTCAGTTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTTTATAGATAAATCTGAAAGAATATAGCAAGCCCTTTTAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644246 182 - 133663169 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAATCCAGCTAGAGGAGGAAAGAGAGGCT-GAAAACATTATTTAATCATCTCAACTCACATCTTCGCCTGTGTTTCCAGGTCCTATTATAAGTGTACGTACAAATCTGAAAGAATATAGCAAGCTCTTTAAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046460 182 - 137757926 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAATCCAGCTAGAGGAGGAAAGAGAGGCT-GAAAACATTATTTAATCATCTCAACTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTATGTACAAATCTGAAAGAATATAGCAAGCTCTTTAAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1417927 182 -   7948249 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAATCCAGCTAGAGGAGGAAAGAGAGGCT-GAAAACATTATTTAATCATCTCAACTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTATGTACAAATCTGAAAGAATATAGCAAGCTCTTTAAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322548 182 -  10730278 -------------CACAAT--GTAGGAGCGAATG---------------TCAGCCTTACTGT-AA-CGCACAG------AGCACCTGATCAACCCAGCTAGAGGAGGAAAGAGAGGCT-GAAAACATTATTTAATCATCTCAACTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTATGTACAAATCTGAAAGAATATAGCAAACCCTTTAAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813486 182 - 128539186 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAACCCAGCTAGAGGAGGAAAGAGAGGCT-GAAAACATCATTTGATCATCTCAACTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTATGTACGAATCTGAAAGAATATAGCAAACCCTTTAAC
i chlSab2.chr11             I 144 C 0
s manLeu1.NW_012101287v1       209341 182 +    435186 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAACCCAGCTAGAGGAAGAAAGAGAGGCT-GAAAACATTATTTAATCATCTCAACTCACATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTATGTACAAATCTGAAAGAATATAGCAAACCCTTTAAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609356 182 +   9309688 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCCTTACTCT-AA-CGCACAG------AGCACCTGATCAATCCAGCTAGAGGAGGAAAAAGAGTCT-GAAAACAATATTTAATCATCTCAACTCGCATCTTTGCCTGTGTTTCCAGGTCCTATTATAAGTGTACGTACAAATCTGAAAGAGTATAGCAAGCCCTTTAAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428179 185 -  29834108 -------------TACAAT--GCAGGAGCGAATG---------------TCAGCTCTACT---AA-CCCACAGAGCAAGAGCAGCTGATCAGTCCAGAGAGAGGAGGAAAGAAAGCCT-GAAAACATTATTTAATCATCTCAATTTGCATCTTTGCCTATGTTTCCAGGTCCTATAATAAGTGTATGGATAAATCTGAAATAATATAGCAAGTCTTTAAA-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880048 184 -   1015025 -------------CACAAT--GCAGGAGCGAATG---------------TCAGCTCTACT---AA-CCCACAGAGCAAGAGCAGCTGACAAGTCCAGTGAGAGGAGGAAAGAAAGCCT-GAAAACATTTTTTAATCATCTCAATTTGCATCTTTGCCTGTGTTTCCAGGTCCTATAATAAGTGTATGGATAAATCTGAAATAATATAG-AAGTCATTTAA-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1901860 184 -   2295209 -------------CACAAT--GCAGGAGCGAATG---------------TCAGGTCTACT---AA-CCCACAGAGCAACAGCAGCTGATCCGTCCAGCGAGAGGAGGAAAGAGAGCCT-GAAAACATTATTTAATCATCTCAATTTGCATCTTTGCCTGTGTTTCCAGGTCCTATACTAAGTGTATGGATAAATCTGAAATAATATAGCAAGT-GTTTAA-
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598142 183 -  12054995 -------------CACAGT--GCAGGAGTGACTG---------------CCAGCGTGGCTCT-GC-CCCACAGAGAGAAGGAAACAGACCAATTCAGCTAGAGGAAAAAAGAGAGC---AGAAACATTATTTAATGATCTCAGTTTACTCCTTTGCCTTTGCTGCTGG--CATTTTATCAGTTTCTAGATGAATCTGAGAGAATATATCAAGTTCTTCAA-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442043 162 - 149736546 -------------CACAATGGGCACGAGTAAGCA---------------TCATC---------GT-CCCACAGGGCAGGAAGAGCTGGCTCAAATGTCTACTAGAGAAAAGAGAATTT-GCCAACATTATTAAATCATCT------GCATCTTTGGCATTGTTGTTAGGACCTTTTACAGACTTTTAGATAACTCTGAA--------------CTTTTAAA
i mm10.chr6                 I 8 I 10
s canFam3.chr27              19752297 160 +  45876710 -------------CACAAG--GAACAGGCAAATA---------------TCAGCCCTACTC--CA-CCCATAA----ACAACAGCTGATCAACGCAGCT---GAAGAAAAGAGAGCCT-GGAACCATTGTTCAATAATCTCAGTTTCCATCTCTACTTTGGTTGGGAG--------------------ATAAGTGTAGGAGAATACATAAAGTTCTTTTAA
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             954662 208 -   1687904 CACTAGACTTAAGAACTCT--GCAGGTATGACTAAACCTGCTAAGTGCTTAATTTTTACCAC-AATTTTACAGTGCAGAAGCAACCCTATAGAGCAGCTAGAGGAGAAAAGAGAGGCTGGGAAACTCTATTTAATCGTCTTGATTGGCATCTTTGGCTTTATGAATGGATCGCTTGCTCAGTTTCTAGACAAACCTGGTAGAATACATTAA----------
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035201 213 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=950570.000000
s hg38.chr12_GL383549v1_alt    116322 77 +    120804 AAAAATAGGATCCTTTCTGAAT-ATGTCGCTTTACTGGTTGGATAGATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAG
s panTro5.chr12              62813325 77 + 137163284 AAAAATAGGATCCTTTCTGAAT-ATGTCGCTTTACTGGTTGGATAGATATGT----ATTCGTTCTCTGAAGTTAAC------------TGAAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931547 77 + 135337776 AAAAATAGGATCCTTTCTGAAT-ATGTCGCTTTACTGGTTGGATAGATATGT----ACTCGTTCTCTGAAGTTAAC------------TGAAAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147004 77 -  32808036 AAAAATAGGATCCTTTCTGAAT-ATGTCGCTTTACTGATTGGATAGATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333170 77 +  34552619 AAAAATAGGATCCTTTCTGAAT-ATGTCGCTTTACTGGTTGGATAGATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644428 77 - 133663169 AAAAATAGGATCCTTTCTGAAT-ATGTTGCTTTACTGGTTGGACATATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046642 77 - 137757926 AAAAATAGGATCCTTTCTGAAT-ATGTTGCTTTACTGGTTGGACATATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418109 77 -   7948249 AAAAATAGGATCCTTTCTGAAT-ATGTTGCTTTACTGGTTGGACATATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322730 77 -  10730278 AAAAATAGGAACCTTTCTGAAT-ATGTTGCTTTACTGGTTGGATACATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813668 77 - 128539186 AAAAATAGGATCCTTTCTGAAT-ATGTTGCTTTACTGGTTGGATACATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209523 77 +    435186 AAAAATAGGAATCTTTCTGAAT-ATGTTGCTTTACTGGTTGGATACATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609538 77 +   9309688 AAAAATAGGATCCTTTCTGAAT-ATGTTGCTTTACTGGTTGGATACATATGT----ATTCATTCTCTGAAGTTAAC------------TGAAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428364 81 -  29834108 AAAAATAGGATCCTTTCTGAAT-ATGTCACTTTATTGGTTGGATGGATATGTATTCATTCATTCTCCTAAGTTAAC------------TGAAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880232 93 -   1015025 AAAAATAGGATCCCTTCTGAAT-ATGTTGCTTTATTGGTTGGATAGATATATATTCATTCATTCTGCTAAATTAACTATAGTTAATAGTGAAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902044 81 -   2295209 AAAAATAGGATCCTTTCTGAAT-ATGTCACTTTATTGGTTGGATAGATATGTATTCATTCATTCTCCTAAGTTAAC------------TGAAAG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035414 77 +  31815103 AAAAATAGAATATTTTCTGAAT-GTGTTGCTTTATTGGCTGGATAGGTTTGT----TTCCATTCTCTGGAGTTAAC------------TGAAAG
i micMur3.chr21             I 213 I 194
s otoGar3.GL873576            4598325 77 -  12054995 -AAAATAAAATCCTTTCTGAATAGTGTTGTCATCTTGGTTAGATGGGTTTGT----TTTCATTCTCTGGCGTTAAT------------TGAATG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442215 71 - 149736546 GAAAATAAGGTTCTTTCAAAA--ATGTTCTTT-----GTTGAGTGCGCGTGT----ATTCACTCTCTGGTGATGCC------------AAGAAG
i mm10.chr6                 I 10 C 0
s canFam3.chr27              19752458 77 +  45876710 AAAAATAGGATCATTTCTGAAT-ATGCTGATTTGTTGGCTGGGTAGGTATGT----ATTCGTTCTCTGGAGTTAAC------------TAAAAG
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             954870 71 -   1687904 AACAATGTTGCTCTTTCT-----ATGTTGATTTCTTGGTTGGGTAGGTATGT----GTTCATTCT--GGAGTTAAC------------TGACAG
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=61255.000000
s hg38.chr12_GL383549v1_alt    116399 5 +    120804 CACTA
s panTro5.chr12              62813402 5 + 137163284 CACTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931624 5 + 135337776 CACTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147081 5 -  32808036 CACTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333247 5 +  34552619 CACTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644505 5 - 133663169 CACTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046719 5 - 137757926 CACTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418186 5 -   7948249 CACTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322807 5 -  10730278 CACTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813745 5 - 128539186 CACTA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       209600 5 +    435186 cacta
i manLeu1.NW_012101287v1    C 0 I 446
s colAng1.NW_012114364v1      3609615 5 +   9309688 CACTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428445 5 -  29834108 CACTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880325 5 -   1015025 CACTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902125 5 -   2295209 CACTA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598402 5 -  12054995 GACTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442286 5 - 149736546 TTTTA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19752535 5 +  45876710 CACTA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954941 5 -   1687904 AAATA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035491 194 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=128899.000000
s hg38.chr12_GL383549v1_alt    116404 13 +    120804 ACAACAGCAGTAG
s panTro5.chr12              62813407 13 + 137163284 TCAACAGCAGTAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931629 13 + 135337776 TCAACAGCAGTAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147086 13 -  32808036 ACAACAGCAGTAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333252 13 +  34552619 TCAACAGCAGTAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644510 13 - 133663169 TCAACAGCAGTAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046724 13 - 137757926 TCAACAGCAGTAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418191 13 -   7948249 TCAACAGCAGTAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322812 13 -  10730278 TCGACAGCAGTAG
i cerAty1.NW_011999477v1    C 0 I 3
s chlSab2.chr11             100813750 13 - 128539186 TCGACAGCAGTAG
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3609620 13 +   9309688 TCAACAGCAGTAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428450 13 -  29834108 TCAACAGCAGTAG
i saiBol1.JH378123          C 0 I 5
s cebCap1.NW_016107911v1       880330 13 -   1015025 TCAACAGCCGTAG
i cebCap1.NW_016107911v1    C 0 I 5
s aotNan1.NW_018488218v1      1902130 13 -   2295209 TCAATAGCAGTAG
i aotNan1.NW_018488218v1    C 0 I 5
s otoGar3.GL873576            4598407 13 -  12054995 CCAATATCAATAG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442291 11 - 149736546 --AGATGCAGTAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19752540 12 +  45876710 TTGACAGTAGTA-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954946 13 -   1687904 TTGCCAGCAGTAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035491 194 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I
e manLeu1.NW_012101287v1       209605 446 +    435186 I

a score=257385.000000
s hg38.chr12_GL383549v1_alt    116417 39 +    120804 AAA---------------AAAAAAAAAAAA--------CCTGTCTGAAGCAGCATTCAGAAA
s panTro5.chr12              62813420 40 + 137163284 AAA---------------AAAAAAAAAAAAA-------CCTGTCTGAAGCAGCATTCAGAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931642 33 + 135337776 AAA---------------AAAAAA--------------CCTGTCTGAAGCAGCATTCAGAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147099 34 -  32808036 AAA---------------AAAAAAA-------------CCTGTCTGAAGCAGCATTCAGAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333265 37 +  34552619 GAA---------------AAAAAAAAAA----------CCTGTCTGAAGCAGCATTCAGAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644523 36 - 133663169 ------------------AAAAAAAAGCAA--------CCTGTCTGAAGCAGCATTCAGAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046737 36 - 137757926 ------------------AAAAAAAAACAA--------CCTGTCTGAAGCAGCATTCAGAAA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418204 36 -   7948249 ------------------AAAAAAAAACAA--------CCTGTCTGAAGCAGCATTCAGAAA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322828 39 -  10730278 aaa---------------aaaaaaaaaaaa--------CCTGTCTGAAGCAGCATTCAGAAA
i cerAty1.NW_011999477v1    I 3 C 0
s chlSab2.chr11             100813763 37 - 128539186 --A---------------AAAAAAAAAAAA--------CCTGTCTGAAGCAGCATTCAGAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210051 39 +    435186 aaa---------------aaaaaaaaaGAC--------CCTGTCTGAAGCAGCATTCAGAAA
i manLeu1.NW_012101287v1    I 446 C 0
s colAng1.NW_012114364v1      3609633 39 +   9309688 AAA---------------AAAAAAAAAAAA--------CCTGTCTGAAGCAGCATTCAGAAA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428468 49 -  29834108 AAACAAAACAAAC-----AAAAAAACAAAA--------CCTGGCTGAAGCAGTGTTCAGAAT
i saiBol1.JH378123          I 5 C 0
s cebCap1.NW_016107911v1       880348 54 -   1015025 aaacaaaacaaacaaacaaaaaaaacaaaa--------CCTGGCTGAAGCAGTGTTCAGAAT
i cebCap1.NW_016107911v1    I 5 C 0
s aotNan1.NW_018488218v1      1902148 39 -   2295209 AGA---------------AACAAAACAAAA--------CCTGGCTGAAGCAGTGTTCAGAAT
i aotNan1.NW_018488218v1    I 5 C 0
s otoGar3.GL873576            4598420 31 -  12054995 ---------------------AAAAAAAAA--------TCAGCCTGTAGCAGTATTTATA--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442302 32 - 149736546 ------------------------------GCTCTCAGGTTGTGTGATGCAAGATTCAGAAA
i mm10.chr6                 C 0 I 614
s canFam3.chr27              19752552 28 +  45876710 -----------------------AAATAAG--------TCCCTCTGAAACAA---TCAGAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             954959 26 -   1687904 ----------------------------AA--------TCAGTATGAGGTGGTGCTCAGAAA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3035491 194 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=1017993.000000
s hg38.chr12_GL383549v1_alt    116456 134 +    120804 TCAGTA-----------------AAAATAGAA----TTGGACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAAGTGAATAACATAAATAACGATGGACCAGT----TTTCTGCTG-----TGTCTCCCTACCGCTATGAACAACATGGCGGCTTCAGCAGA
s panTro5.chr12              62813460 134 + 137163284 TCAGTA-----------------AAAATAGAA----TTGGACTGTTTCGTTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAACGATGGATCAAT----TTTCTGCTG-----TGTCTCCCTACCGCTATGAACAACATGGCGGCTTCAGCAGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931675 134 + 135337776 TCAGTA-----------------AAAATAGAA----TTGGACTGTTTCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAACGATGGATCAGT----TTTCTGCTG-----TGTCTCCCTACCGCTATGAACAACATGGCGGCTTCAGCAGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147133 133 -  32808036 TCAGTA-----------------AAAATAGAA----TTGGACTGTTTCGTTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAACGATGGATCACT----TTTCTGCTG-----TGT-TCCCTACCGCTATGAACAACATGGTGGCTTCAGCAGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333302 134 +  34552619 TCAGTA-----------------AAAATAGAA----TTGGACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAATATAAATAACAATGGATCAGT----TCTCTGCTG-----TGTCTCCCTACCGCTATGAACAACATGGTGGCTTCAACAGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644559 120 - 133663169 TCAGT-----------------------------------ACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGGTTTCAACAGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046773 120 - 137757926 TCAGT-----------------------------------ACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGGTTTCAACAGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418240 120 -   7948249 TCAGT-----------------------------------ACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGGTTTCAACAGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322867 120 -  10730278 TCAGT-----------------------------------AGTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGCCTTCAACAGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813800 120 - 128539186 TCAGT-----------------------------------ACTGTTCCACTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGACTTCAACAGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210090 120 +    435186 TCAGT-----------------------------------AGTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAAGGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGCCTTCAACAGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609672 120 +   9309688 TCAGT-----------------------------------ACTGTTCCATTGTG-AGATGC--CTTAGTTCTCCTGAATGTGAATAACATAAATAATGATGGATCAGT----TTTCTGCTG-----TGTCTGCCTACCACTATGAACAACATCGTGGCTTCAACAGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428517 134 -  29834108 TCAGTA-----------------AAAATAGAA----TTGGACTGCTCCATTGTA-CAATGC--TTTAGTTCTCCTGAAGGTGAATAATGTAAATAACAATGGATCAGT----CCTCTGCTG-----TGTCTCCCTACCTCGGTGAACAACATGGTGGTTTTAACAGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880402 136 -   1015025 TCAGTA-----------------AAAATAGAA----TTGGACTGCTCCATTGTG-CGATGCCTCTTAGTTCTCCTGAAGGTGAACAACGTAAATAACAATGGATCAGT----CCTCTGCTG-----TGTCTCCCTACCTCTGTGAACAACATGGTGGTTTTAACAGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902187 136 -   2295209 TCATTA-----------------AAAATAGAA----TTGGACTGCTCCATTGCG-CAATGCCTCTTAGTTCTCCTGACGGTGAATAATGTAAATAACAACAGATCAGT----CCTCTGCTG-----TGCCTCCCTACCTCTGTGAACAGAATGGTGGTTTTAACAGG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4598451 157 -  12054995 TCAGtaaataaaaatagataaataaaataaaaCCTTTTTGACTCTTCTCTTCTGAAGACACCTCTTAGTTCTTCCAAGGCAAAATAGGATAAATTCTGATCCTCCTGT----CCTCT-CTG-----CTATCACCGACCGTCATGAACAAAACGATGGCTTCTATGGA
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19752580 135 +  45876710 TCAGC------------------AAAGT--------TTTGACTCTTTCAGTGTG-AGATGCCTCTTAGTTCTCCTGAAGCTAAATAATATAAGTAATCACACATCACTCCTACCTATATTG-----TATCACCTCACTACTATGAACAGCATGACAGCCCCAAGCGT
i canFam3.chr27             C 0 I 13
s dasNov3.JH562883             954985 111 -   1687904 ------------------------GGAGCAAATTTTTCTGACTCTTCCTGTGTG-AGAGGCCTTCTAGCCCTCC----------------ACGTTAGGATGGGCCAGT----CCCGCGCTGCCTCATGGCCTCTTCTGAGTGTGCAC-----------TTTAAGAAA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2442334 614 - 149736546 I
e micMur3.chr21               3035491 194 +  31815103 I
e proCoq1.NW_012140524v1      5123049 1633 +  13104022 I

a score=40624.000000
s hg38.chr12_GL383549v1_alt    116590 3 +    120804 TGA
s panTro5.chr12              62813594 3 + 137163284 TGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931809 3 + 135337776 TGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147266 3 -  32808036 TGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333436 3 +  34552619 TGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644679 3 - 133663169 TGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109046893 3 - 137757926 TGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418360 3 -   7948249 TGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322987 3 -  10730278 TGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813920 3 - 128539186 TGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210210 3 +    435186 TGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609792 3 +   9309688 TGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428651 3 -  29834108 TGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880538 3 -   1015025 TGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902323 3 -   2295209 TGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035685 3 +  31815103 TGA
i micMur3.chr21             I 194 C 0
s proCoq1.NW_012140524v1      5124682 3 +  13104022 TGA
i proCoq1.NW_012140524v1    I 1633 C 0
s otoGar3.GL873576            4598608 1 -  12054995 --T
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19752728 3 +  45876710 TGG
i canFam3.chr27             I 13 C 0
s dasNov3.JH562883             955096 3 -   1687904 TGA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2442334 614 - 149736546 I

a score=475000.000000
s hg38.chr12_GL383549v1_alt    116593 33 +    120804 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
s panTro5.chr12              62813597 33 + 137163284 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931812 33 + 135337776 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147269 33 -  32808036 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333439 33 +  34552619 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104644682 33 - 133663169 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i rheMac8.chr11             C 0 I 313
s macFas5.chr11             109046896 33 - 137757926 AAGAGATTATGTGATAGCT-GCTCAGAATTTGGA
i macFas5.chr11             C 0 I 313
s macNem1.NW_012011422v1      1418363 33 -   7948249 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8322990 33 -  10730278 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813923 32 - 128539186 AAGAGATGATGTGATTGCT-GCTCAGA-TTTGGA
i chlSab2.chr11             C 0 I 1
s manLeu1.NW_012101287v1       210213 33 +    435186 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i manLeu1.NW_012101287v1    C 0 I 1
s colAng1.NW_012114364v1      3609795 33 +   9309688 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428654 33 -  29834108 AAGAGATGATGTGATAACT-GCTCAGAATTTGTA
i saiBol1.JH378123          C 0 I 1
s cebCap1.NW_016107911v1       880541 33 -   1015025 AAGAGATTATGTGATAGCT-GCTCCGAATTTGGA
i cebCap1.NW_016107911v1    C 0 I 2
s aotNan1.NW_018488218v1      1902326 33 -   2295209 AAGAGATTATGTGATAGCT-GCTCAGAGTTTGGA
i aotNan1.NW_018488218v1    C 0 I 2
s micMur3.chr21               3035688 34 +  31815103 AAGAGATTGTGTGAAAGCTGGCTCAGAGTTTGGA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5124685 34 +  13104022 AAGAGATTGTGTGATAGCTGGCTCACAGTCTGGA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4598609 34 -  12054995 GAGAAACTAGGTGATAGCTGGCCCAGAGCTGGGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2442948 34 - 149736546 AGGAAATTATGTGATAGCTGGCTCAAACTTTGGG
i mm10.chr6                 I 614 I 4
s canFam3.chr27              19752731 34 +  45876710 TAGAGATTATATGACAGCTGACTCAGAGTTTAAA
i canFam3.chr27             C 0 I 2
s dasNov3.JH562883             955099 31 -   1687904 -AGAGAGGATATGA-GGTG-GCTTGTAGTTTGGA
i dasNov3.JH562883          C 0 C 0

a score=81710.000000
s hg38.chr12_GL383549v1_alt    116626  8 +    120804 -TTTTTTTT--
s panTro5.chr12              62813630  8 + 137163284 -TTTTTTTT--
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931845  8 + 135337776 -TTTTTTTT--
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147302  8 -  32808036 -TTTTTTTT--
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333472  8 +  34552619 -TTTTTTTT--
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645028  8 - 133663169 -TTTTTTTT--
i rheMac8.chr11             I 313 C 0
s macFas5.chr11             109047242  8 - 137757926 -TTTTTTTT--
i macFas5.chr11             I 313 C 0
s macNem1.NW_012011422v1      1418396  8 -   7948249 -tttttttt--
i macNem1.NW_012011422v1    C 0 I 309
s cerAty1.NW_011999477v1      8323023  8 -  10730278 -TTTTTTTT--
i cerAty1.NW_011999477v1    C 0 I 1
s chlSab2.chr11             100813956  8 - 128539186 -TTTTTTTT--
i chlSab2.chr11             I 1 C 0
s manLeu1.NW_012101287v1       210247  8 +    435186 -TTTTTTTT--
i manLeu1.NW_012101287v1    I 1 C 0
s colAng1.NW_012114364v1      3609828  8 +   9309688 -TTTTTTTT--
i colAng1.NW_012114364v1    C 0 I 2
s saiBol1.JH378123           11428688  6 -  29834108 -TTTTTT----
i saiBol1.JH378123          I 1 C 0
s cebCap1.NW_016107911v1       880576  6 -   1015025 -TTTTTT----
i cebCap1.NW_016107911v1    I 2 C 0
s aotNan1.NW_018488218v1      1902361  6 -   2295209 -TTTTTT----
i aotNan1.NW_018488218v1    I 2 C 0
s micMur3.chr21               3035722  8 +  31815103 -CTTTTTGT--
i micMur3.chr21             C 0 I 1
s proCoq1.NW_012140524v1      5124719  8 +  13104022 -CTTTTTCT--
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4598643  8 -  12054995 -CTTTTTTT--
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2442986  8 - 149736546 -TTTTTTTT--
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19752767  6 +  45876710 -TTTTTT----
i canFam3.chr27             I 2 C 0
s dasNov3.JH562883             955130 11 -   1687904 TTTGCTTTTCC
i dasNov3.JH562883          C 0 C 0

a score=117926.000000
s hg38.chr12_GL383549v1_alt    116634 8 +    120804 CCAGTAAA
s panTro5.chr12              62813638 8 + 137163284 CCAGTAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931853 8 + 135337776 CCAGTAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147310 8 -  32808036 CCAGTAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333480 8 +  34552619 CCAGTAAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645036 8 - 133663169 CCAGCAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109047250 8 - 137757926 CCAGCAAA
i macFas5.chr11             C 0 C 0
s cerAty1.NW_011999477v1      8323032 8 -  10730278 CCAGCAAA
i cerAty1.NW_011999477v1    I 1 C 0
s chlSab2.chr11             100813964 8 - 128539186 CCAGCAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210255 8 +    435186 CCAGCAAA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609838 8 +   9309688 CCAGCAAA
i colAng1.NW_012114364v1    I 2 C 0
s saiBol1.JH378123           11428694 8 -  29834108 CCAGTAAA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880582 8 -   1015025 CCAGTAAA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902367 8 -   2295209 CCAGTAAA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035731 8 +  31815103 CCAGTAAC
i micMur3.chr21             I 1 C 0
s proCoq1.NW_012140524v1      5124728 8 +  13104022 TCTGTAAA
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4598652 8 -  12054995 CCAGCAAG
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2442994 8 - 149736546 CCAGTAAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19752773 8 +  45876710 CCAGTAAA
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             955141 8 -   1687904 CCAGTAAA
i dasNov3.JH562883          C 0 C 0
e macNem1.NW_012011422v1      1418404 309 -   7948249 I

a score=3363865.000000
s hg38.chr12_GL383549v1_alt    116642 263 +    120804 TATTTCTGAGAATCTTAGAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATACAGATAAGTCTGAGAATTACAC---TTGTAGTGCTCAAACCTGTGTTTAAAAGTGGTATTG--CTCT--AA--TTGCCTGCATGCAGCTGGTCAGAGGGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATTAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAATAGTAAGTGATCGCAAGGGTTAAATATTTA---
s panTro5.chr12              62813646 263 + 137163284 TATTTCTGAGAATCTTACAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCAGATCCTGCTAAGTCTGAGAATTACAC---TTGTAGTGCTCAAACCTATGTTTAAAAGCGGCATTG--CTCT--AA--TTACCTGCATGCAGTTGGTCAGAGGGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATTAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAGTAAGTGATCGCAAGGGTTAAATATTTA---
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60931861 263 + 135337776 TATTTCTGAAAATCTTAGAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATACAGATAAGTCTGAGAATTACAC---TTGTAGTGCTCAAACCTGTGTTTAAAAGCGGCATTG--CTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGGGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATTAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAGTAAGTGATAGCAAGGGTTAAATATTTA---
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147318 263 -  32808036 TATTTCTGAGAATCTTACAGTACGAGTCAAGAGATTCTTGAGGATAACCCTCAGATCCAGATAAGTCTGAGAATTACAC---TTGTAGTGCTCAAACCTATGTTTAAAAGCGGCATTG--CTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGGGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATTAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAGTAAGTGATCGCAAGGGTTAAATATTTA---
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333488 265 +  34552619 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTATTGAGGACAACCCTCAGATCCAGATAAGTCTGAGAATTACAC---TTGCAGTGCTCAAACCTGTGTTTAAAAGCGGCATTGCTCTCT--AG--TTGCCTGCATGCTGTTGGTCAGAGGGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATTAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATCGCAACGGTTAAATATTTA---
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645044 263 - 133663169 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTTAAAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109047258 263 - 137757926 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTTAAAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418713 263 -   7948249 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTTAAAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i macNem1.NW_012011422v1    I 309 C 0
s cerAty1.NW_011999477v1      8323040 262 -  10730278 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100813972 263 - 128539186 TATTTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAGAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGCTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTTAAAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210263 262 +    435186 TATGTCTGAGAATCTTATAGTATGAGTCAAGAGATTCTTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACAC---TT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTCCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT-AAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3609846 265 +   9309688 TATTTCTGAGAATCTTATAGTATCAGTCAAGAGATTCCTGAGGATAACCCTCGGATCCAGATAAGTCTGAGAATTACACTTGTT---GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTCTCT--AA--TTGCCTGCATGCAGTTGGTCAGAGAGGCAGAAGG-TTTGACCTCCTGGGTCTTGGCCTT-AAAAAAAATGAAGAAAATAATTTAGAACAAAGCTGAGAAG----ATGGTATTGGTAAACAATAAGTGATTGCAAGGGTTAAATATTTA---
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428702 260 -  29834108 TATTTCTGAGAATCTTATGGTATGAATCAAGAGATTCTTGAGGATAACCCTCAGATCCAGATAAGTCTGAGAATTACAC---T----GTGCTCAAACCTGTGTTTAAAAGGGGCATTGCTGTCT--AA--TTACCTGCATGCAGCTGGTCGGAGGGGCAGAGGG-TTTGACCTTCTGGCTCTTGGCCTT--AAGAAAATAAAGAAAATAATTTCGAATAAAGCCAAGAAG----ATGGTATTGGTAAACAGTAAGTGATCGCAAGGGTTAAAAATTTA---
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880590 260 -   1015025 TATTTCTGAGAATCTTATGGTATGAATCAAGAGATTCTTGAGGATAACCCTCAGATCCAGATAAGtctgagaattacac---t----gtgctcaaacctgtgtttaaaaggggcactgctgttt--aa--ttacctgcatgcagctggtcAGAGGGGCAGAGGG-TTTGACCTCCTGGCTCTTGGCCTT--AAGAAAATAAAGAAAATAATTTCAAATAAAGCCAAGAAG----ATGGTATTGGTAAGCAATAAGTGATCGCAAGGGTTAAAAATTTT---
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902375 260 -   2295209 TATTTCTGAGAATCTTATAGTATGAATCAAGAGATTCTTGAGGATAACCCTCAGATCCAGATAAGtctgagaattacac---t----ttgctcaaacctgtgtttaaaaggggcactgctgtct--aa--ttacctgcatgcagctggtcAGAGGCGCAGAAGG-TTTGACCTCCTGGCTCTTGGCCTT--AAGAAAATAAAGAAAATAATTTCAAATAAAGTCAAGAAG----ATGGTATTGGTAAACAATAAGTGATCACAAGGGTTAAAAATTTT---
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3035739 263 +  31815103 TATTTCTGAAAATCTTATAACGTGGGTCAGGAGACTCTTTAGGATAACTCCTGGATGCAGATAAGTCTGAGAGTTATAC---CTGGTATGCTCACACCTGTGTTAA-AAGGGGCATTCCCACCT--AA--TTGCCTGCAGTTAGCTGATCAGAGGAGCAGAAGGTTTTAGCCTCGTGGTTCTTGGGCTT---AAAAAATAAAGAAAATAATTCAGAACAAACCTGGGAAG----GTGGTATCGGTAAACAATAATTGATCAGAAGAGTTACATTTTTT---
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5124736 262 +  13104022 TATTT-TGAAAATCTTATAGCACGGGTCAGGAGATTCTTTAGGATAACTCTTGGATGCAGATAAGTCTGAGAATTATAA---CTGGTGTGCTCACACCTGTGTTTA-CAGGGGCATTGCCACCT--AA--TTACCTGCATTTGGCTGATGGGAGGAGTAGAAGGTTTTGGCCTCGTGGTTCTTGGGCTT---AAAAAATAAAGAAAATAGTTTAGAACAAACCTGAGAAG----ATGGTATCAGTAAACAATAAGTGATTGCAAGAGTTACATTTTTT---
i proCoq1.NW_012140524v1    C 0 I 64
s otoGar3.GL873576            4598660 249 -  12054995 TATTTCTGAAAATCTTCT-----GAGTCAGGAGGTTCTTGAGGATCACCTTTAGATCCAGTGAAGTCTGAGAATTACAA---CGGGTGTGCTCAACCCTGCGTTTC-CAGGGGCACCGCCACCT--AA--TTACCCACATTCAGCTAATTAGAGGAGCAGGTAGTTTTGGTCTCCTGGCTCTTGGGCTT---A------AAAGAAAATACTTTAGGAAAAATCTGAGAAG----ATCGTATCGGTAAACAAGA---GATAGCAAGAGTTAAAGTTTTT---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2443002 242 - 149736546 ----TCTTAAGAGCCTGTAATGTGAGTCAGGAGATTCATGAGGATAACCCT-AAATCCAGGAAAGCCTGAGACTCGCAC---CTGGAATGTCCAAACCT--GCCTGGAAGGAGCTTTGACACCT--ACCTTTGCCCACAGGAAGCTGTGCAGGAGAGTGGAGGGTTTCAACCTTGTAGCTCTTGTTATT--------------------TCCAAGAAGAAAGCTGAGAAG----CTAATGTCAGAAATCAGTATGTGCCCAACAGAGCTATGTTTTCA---
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19752781 245 +  45876710 TATTTCTGAAAATTTTATAGCATGAGTCAAGGAATTCTTAAGGATAACTCTTGGATTTA-ATAAGTTTGAGAATAACAA---CTGGTATGCTCCCACCTGTTTTTA-AAGGGGCATTTCTACCT--AT--TTGTCTGCGTTTAGCTGGTCAGAGGTATAGGAGG-----------------------TT-CAAAAAAAGAAAGAAAATAATTTAGCACAAATCTGAGAAGTAAATCAGTACCAATAAATAATATGTGACCATAAGAGTTATGTATTTT---
i canFam3.chr27             C 0 I 194
s dasNov3.JH562883             955149 240 -   1687904 TACTTCTTAAAACCTTAT----TAAGGTGGGCCATTTTTGAAGATAGCCTCTGGGTACAGAGAAG-----------------CTGG------------CGTGTTTGAAAGGCGCAGCACCACCTAGAA--TTGCCTGCATTTAGCTGGTCAGAGGAATGGAAGGTTTTGGTCTCCTGGTTCTTAGGCTT--AAACAAAGAAAGAAAATAATTTAAAATAAAGATTACAAG----ATGAATTTGGTAAACAATCAGTGATAACAGAGTTATTATTTTTTTTA
i dasNov3.JH562883          C 0 C 0

a score=688550.000000
s hg38.chr12_GL383549v1_alt    116905 66 +    120804 AAATTGGTGTTACCCAAATCCAAAAAAGC-GCTCTCATAGTTGCACGT-GTGGGGGCAATCACTCATC
s panTro5.chr12              62813909 66 + 137163284 AAATTGGTGTTACCCAAATCCAAAAAAGC-GCTCTCATAGTTGCACGT-GTGGGGGCAATCACTCATC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60932124 66 + 135337776 AAATTGGTGTTACCCAAATCCAAAAAAGC-GCTCTCATAGTTGCACGT-GTGGGGGCAATCACTCATC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147581 66 -  32808036 AAATTGGTGTTGCCCAAATCCAAAAAAGC-GCTCTCATAGTTGCACGT-GTGGGGGCAATCACTCATC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333753 66 +  34552619 AAATTGGTGTTACCCAAATCCAAAAAAGC-GCTCTCATAGTTGCACGT-GTGGGGGCAATCACCTGTC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645307 67 - 133663169 AAATCGGTGTTACTCAAATCCAAAAAAGCAGCTCTCATAGTTGCACGT-GTGTGGGCCATCACCCATC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109047521 67 - 137757926 AAATCGGTGTTACTCAAATCCAAAAAAGCAGCTCTCATAGTTGCACGT-GTGTGGGCCATCACCCATC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1418976 67 -   7948249 AAATCGGTGTTACTCAAATCCAAAAAAGCAGCTCTCATAGTTGCACGT-GTGTGGGCCATCACCCATC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8323302 67 -  10730278 AAATTGGTGTTACTCAAATCCAAAAAAGCAGCTCTCATAGTTGCACGT-GTGTGGGCCATCACCCATC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100814235 67 - 128539186 AAATTGGTGTTACTCAAATCCAAAAAAGCAGCTCTCGTAGTTGCACGT-GTGTGGGCCATCACCCATT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210525 67 +    435186 AAATTGGTGTTACTCAAATCCAAAAAAGCAGCTCTCATAGTTGCACGT-GTGTGGGCCATCACCCATC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3610111 66 +   9309688 AAATTGGTGTTACTCAAATCCAAAATC-CAGCTCTCATAGTTGCACGT-GTGTGGGCCGTCACCCATC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11428962 67 -  29834108 AAATTGGTGTTACCCAAATCCAAAAAATCAGTTCTCATAGTTGCACGT-GTGTGGGCACTCACCCATC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880850 67 -   1015025 AAATTGGTGTTACCCAAATCCAAAAAATCAGTTCTCATAGTTGCATGT-GTGTGGGCAATCACCCATC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902635 67 -   2295209 AAATTGGTGTTACCCAAATCCAAAAAATCAGTTCTCATAGTTGCACGT-GTGTGGGCAATCACCCATC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3036002 63 +  31815103 AAATCGATGTGACAAAAATCCAAAA-AGCAGCTTCTGGAGTTGCAGGT-GGGTGGGCAATCACCA---
i micMur3.chr21             C 0 C 0
s otoGar3.GL873576            4598909 64 -  12054995 ACCTCGGTGTGACAAAACTCCAAAA-AGCAGCTCTGATGGCTGCAGGTGGGGTAGGCAATCCCCA---
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2443244 64 - 149736546 AATGTGGTTCAGCAAAAGTCCCAAAAA-CATCTCCAGGAATGGCAGGT-GGTTGGGCAGCCAGCAC--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19753220 62 +  45876710 AAATTGGTGTGGCCAAAATCCAAAA-TGCAGGTCCTATAGTCCCAGGT-GGGTGCACAATCACT----
i canFam3.chr27             I 194 C 0
s dasNov3.JH562883             955389 65 -   1687904 AAACTGGTGT-ACCAAAACCCAAAA-CTTAGGTCCTATTGTCACAGAT-AGATGGGCAATCACCTGAC
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5124998 64 +  13104022 I

a score=5213447.000000
s hg38.chr12_GL383549v1_alt    116971 341 +    120804 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATATTTTTGGAGGTGGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTTTGTGGTGTGACT-AAG-CCACTAAATGCTCAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGCCAAAATGGTCAGGTTTGTTAGCAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTAAGACAAACATCTTGG
s panTro5.chr12              62813975 341 + 137163284 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATATTTTTGGAGGTGGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTGTGACT-AAG-CCACTAAATGCTCAA---TTTTTATACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAGCAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTAAGACAAACATCTTGG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60932190 340 + 135337776 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATATTTTTGGAGGTGGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTGTGACT-AAG-CCACTAAATGCTCAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAGCAACAGTATAGGCTTCTAATGTGAATCAG-AAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTAAGACAAACATCTTGG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147647 341 -  32808036 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACGTATTTTTGGAGGTGGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTGTGACT-AAG-CCGCTAAATGCTCAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAGCAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTAAGACAAACATCTTGG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7333819 338 +  34552619 ATC---ACCTATGTTTCCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATATTTTTGGAGGTGGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCGT--AGAGTCTAACTTGGTGCAATGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAGCAACAGTATGGGCTTCTAATATGAATCAGAAAGGAACAATTAGGGAGAGGCAAAGCCAACAGGTTTTAAGACAAACACGTTGG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645374 341 - 133663169 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTCGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109047588 341 - 137757926 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTACAATTATGTTGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1419043 341 -   7948249 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTCGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8323369 341 -  10730278 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGACGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTCGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100814302 341 - 128539186 ATCACAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTCGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210592 341 +    435186 ATCACAACCTATGTTGGCCTC-ACCTCTCCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATAGTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTCGTGTGACT-AAG-CCGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTGCAACTGTAGTAATTTGGCAAAATGGTCAGGTTTGTTAACAACAGTATAGGCTTCTAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTCAGACAAACATCTTGG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3610177 342 +   9309688 ATCCCAACCTATGTTTGCCTC-ACCTCTCCTCTG-AA-----AAAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCCTGACATATTTTTGGAGGTAGCATGTAAATCAAGAGCAGACTTGTTCAAGTTGACCTAGACTTAAGAACTCTTGCAATTATGTCGTGTGACTAAAG-CCGCTAAATGCTTAA---TTTTTACACAATACCGT--AGAGTCTAACTTGGAGCAGTGCAACTACAGTAGTTTGGCAAAATGGTCAGGTTTGTTAACAACAGTACAGGCTTCAAATGTGAATCAGAAAGGAACAATTAGGGATAGGCAAAGCCAACAGGTTTTAAGACAAACATCTTGG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11429029 333 -  29834108 ATCACAACCTATGTTTGCCTC-ACCTTACCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCTTGACATATTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTAGTGTGACT-AAGTCTGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTACAACTGTAGTAATTGGGCAAAATGGTCAGCTTTGTTAGCAATAGTGTACG---------TGAATCAGAAAGAAACAATTAGGGATAGGCAAACCCAACAGGTTTTAAGACAAACATTTTGG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       880917 333 -   1015025 ATCACAACCTATGTTTGCCTC-ACCTCACCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCTTGACATATTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTAGTGTGACT-AAGTCTGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAATCTAACTTGGAGCAGTACAACTGTAGTAATTGGGCAAAATGGTCAGGTTTGTTAGCAATAGTATAGG---------TGAATCAGAAAGAAACAATTAGGGATAGGCAAACCCAACAGGTTTTAAGACAAACATCTTGG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1902702 333 -   2295209 ATCACAACCTATGTTTGCCTC-ACCTCACCTCTG-AA-----AGAGAGATGCAAGCTATTCTGAAAGCAAATAAATACCTTGACATATTTTTGGAGGTAGCATGTAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTCTGCAATTATGTGGTGTGACT-AAGTCTGCTAAATGCTTAA---TTTTTACACAATACCAT--AGAGTCTAACTTGGAGCAGTACAACTGTAGTAATTGGGCAAAATGGTCAGGTTTGTTAGCAATAGTATAGG---------TGAATCAGAAAGAAACAATTAGGGACAGGCAAACCCAACAGGTTTTAAGACAAACATCTTGG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3036065 342 +  31815103 GTCACAACCTATGTTTGTTTC-ACCTCTCCCCTG-AA-----AGGGAGATGCAAACTATTCTGAAAGCAAATAAATACCTTGACATATTTCTGGAGGTAGCACATAAATCAAGAACAAACTTGTTCTAGTTGACCTGGACTTAAGAACTTTTGCAATTATGCGGTGTGACT-AAGCCTGCTAAATACTTAA---TTTTTACACGGTACCATAAAGAGACTAACTTGCAGCAGTGCAACTATAGTAATTTAGCAAAATGGCCAGGTTTGTTAGCAATAATACAGGCTTCT-GTGTGAATCAGAAAAGAAAAATTAGTGATAGGCAAACCAAATAGC-TTTAAGACAAACATCTTGG
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5125062 342 +  13104022 GTCACAACCTATGTTTGTTTC-GCCTCTCCTCTG-AA-----AGGGAGATGCAAACTATTCTGAAAGCAAATAAATACCTTGACATATTTTTGGAGGTAGCACATAAATCAAGAACAAACTTGTTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTACGTGGTGTGACT-AAGCCTGCTAAATGCTTAA---TTTTTACACAGTACCATAAAGAGTCTAACTTGCAGCAGTACAACTGTAGTAATTTAGCAAAATGGTCAGGTTTGTTAGCAATAGTATAGGCTTCT-GTGTGAATAAGAAAGGAAACGTTAGTGATAGGCAAACCAAATAGC-TTTAAGACAAACATCTTGG
i proCoq1.NW_012140524v1    I 64 C 0
s otoGar3.GL873576            4598973 337 -  12054995 GTCACAAGCTCTGTTTGCTTG-GCCTCT-------GA-----AAGGAGATGAGAACTATTCTGAAAACAAATAAATACCTTGACATATTTTTGGAGGTAGTACATAAATCAAGAACCAGCTTGTTCACGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTGTAACT-AAGCCTGCTAAATGCTTAA---TTTTTACACGGTACCATGAAGAGCCTAACTTGAAGCCGGGCAACTGCAGTAATTTAGCAAAACGAGCAGGTCTGTTAGCAACAGTATAGGGTTCT-GCGTGAATCAGAAAGGAAAAATTAGGGATAGGCAAACCAAATAGCTTTTAAGACAAACATTTTGG
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2443308 349 - 149736546 AACACAGTC--TGTCTGCCTCTGCCTCATGGCTG-TAGAGGGAGGGAAGCATACACCATTCTGAGAGCAAACAAACACCTTCTGGTAGTTTTGGAGGGAACGTGTCAGTCAAGAACAAACTTGTTTAACTTGACCGAGACTTAAGAACTTTTACAATTATGGGGAGTGACT-AAGTCTGGTAAATGCTTCATTTTTTTTTCATTGTACTATAAAGATTTTGACTGGGAACTGTGTGGACACAGCAATTTAGCAAAATGGTCGGGTCTGTGGACAACAGTGTTTGCTGCC-TTATAAGTCAGGAAGGGATGACTGGGTGTA-GCAAGCCCAGCAGCCTTCGGGATGGACAGTGGAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19753282 332 +  45876710 ----------ATATTTGCCTC-AGTACTCCTCTGTGA-----AGGGAAATGTAAGCTATTCTGAAAGCAAAT-AATACCTTGACATATTTTTGGAGGTAGCACATAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAAAACTTTTGCAATTATATGGTGTGACT-AAGCTTGCTAAATGCTTAA---TTTTTACACAGTACCATAAAGAATCTCACTTAGAGAAGTG-AACTATGGTAATTTAGCATAATGGTCAGGTTTGTTAGCAACAGGATAGGCCTAC-AAGGAAATCAGAAAAGGAGAATCAAGGATAGACAAACCCAACAGCTTTTAAAATAAGCATCTTAg
i canFam3.chr27             C 0 I 108
s dasNov3.JH562883             955454 326 -   1687904 ----AAGCCTATGTTCGCCCC-ACTACTTCTC-G-AA-----AGGGAGATGTAAGATATGCTGAAAACAAATAAACACCTTGACATATTTTTGGAGGTAATGCATAAATCAAGAACAAACTTGCTCAAGTTGACCTAGACTTAAGAACTTTTGCAATTATGTGGTATGACT-AGACCTGCTAAGTGCTTAA---TTTT-------TACCATAAAGAATCTAACTTTGAGCAGTGCAACTGCAGTAATTTAACAAAACCATCAGGTTAGTTAGCAAAAGTATAGGCCTCA-GTATGAATCAGAAAGGAGCAACTGGG-----GCAAATCCAACAGTTTTTAAGACACACTTCCTGT
i dasNov3.JH562883          C 0 C 0

a score=9733847.000000
s hg38.chr12_GL383549v1_alt    117312 702 +    120804  
s panTro5.chr12              62814316 707 + 137163284  
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60932530 706 + 135337776  
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3147988 698 -  32808036  
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7334157 702 +  34552619  
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104645715 708 - 133663169  
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109047929 708 - 137757926  
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1419384 708 -   7948249  
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8323710 701 -  10730278  
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100814643 708 - 128539186  
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       210933 708 +    435186  
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3610519 706 +   9309688  
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11429362 688 -  29834108  
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       881250 698 -   1015025  
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903035 703 -   2295209  
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3036407 719 +  31815103  
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5125404 719 +  13104022  
i proCoq1.NW_012140524v1    C 0 I 31
s otoGar3.GL873576            4599310 722 -  12054995  
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2443657 690 - 149736546  
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19753722 807 +  45876710  
i canFam3.chr27             I 108 C 0
s dasNov3.JH562883             955780 716 -   1687904  
i dasNov3.JH562883          C 0 C 0

a score=216176.000000
s hg38.chr12_GL383549v1_alt    118014 19 +    120804 CTTAATGAATGATGGATTG
s panTro5.chr12              62815023 19 + 137163284 CTTAATGAATGACGGATTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933236 19 + 135337776 CTTAATGAATGACGGATTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148686 19 -  32808036 CTTAATGAATGACAGATTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7334859 19 +  34552619 CTTAATGAATGATGGATTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646423 19 - 133663169 CTTAATGAATGACGGATTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048637 19 - 137757926 CTTAATGAATGACGGATTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420092 19 -   7948249 CTTAATGAATGACGGATTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324411 19 -  10730278 CTTAATGAATGACGGATTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815351 19 - 128539186 CTTAATGAATGACGGATTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211641 19 +    435186 CTTAATGAATGACGGATTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611225 19 +   9309688 CTTAATGAATGACGGATTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430050 19 -  29834108 ATTAATGAATTTCGGATTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       881948 19 -   1015025 ATTAATGAATTATGGATTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903738 19 -   2295209 ATTAATGAATTATGGATTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037126 16 +  31815103 ---AATTAATGATGGATTA
i micMur3.chr21             C 0 I 16
s otoGar3.GL873576            4600032 15 -  12054995 ----ATTAATGATGGATTA
i otoGar3.GL873576          C 0 I 4
s mm10.chr6                   2444347 16 - 149736546 ---AATTAAGGGCGGCTTG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19754529 16 +  45876710 ---AATTAATGATGGATTG
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             956496 13 -   1687904 ----ATTAGTGACCGAT--
i dasNov3.JH562883          C 0 C 0
e proCoq1.NW_012140524v1      5126123 31 +  13104022 I

a score=424274.000000
s hg38.chr12_GL383549v1_alt    118033 33 +    120804 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
s panTro5.chr12              62815042 33 + 137163284 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933255 33 + 135337776 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148705 33 -  32808036 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7334878 33 +  34552619 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646442 33 - 133663169 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048656 33 - 137757926 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420111 33 -   7948249 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324430 33 -  10730278 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815370 33 - 128539186 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211660 33 +    435186 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611244 33 +   9309688 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430069 33 -  29834108 CCCTTCTTTAATGTTGTGTATTCAAATAGGCAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       881967 33 -   1015025 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903757 33 -   2295209 CCCTTCTTTTATGTTGTGTATTCAAATAGGCAG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600051 11 -  12054995 ----------------------CAAATAGGTGG
i otoGar3.GL873576          I 4 I 1
s mm10.chr6                   2444363 30 - 149736546 ---CCCTTTTATGTTGTGTATTCAAATCAGCAG
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19754545 30 +  45876710 ---CCCTTTTATGTTGTATATTCAAATAGGCGG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             956509 32 -   1687904 -TACTCTTTTCTGTTGTATATTCAAATAGGTGG
i dasNov3.JH562883          C 0 I 1
e micMur3.chr21               3037142 16 +  31815103 I
e proCoq1.NW_012140524v1      5126123 31 +  13104022 I

a score=2365580.000000
s hg38.chr12_GL383549v1_alt    118066 169 +    120804 TGTGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAAAATGAGCTCAGAGCTTTTTCTTGGTACTTCTGATGGAGTTTCTCTTTCTTGTTGCCAAAA----CATCCACCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTCT-----AGAAGAAAATAGCTAAA
s panTro5.chr12              62815075 169 + 137163284 TGTGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAAAATGAGCTCAGAGCTTTTTCTTGGTACTTGTGATGGAGTTTCTCTTTCTTGTGGCCAAAA----CATCCACATTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTCT-----AGAAGAAAATATCTAAA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933288 169 + 135337776 TGTGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAAAATGAGCTCAGAGCTTTTTCTTGGTACTTGTGATGGAGTTTCTCTTTCTTGTGGCCAAAA----CATCCACCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTCT-----AGAAGAAAATATCTAAA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148738 169 -  32808036 TGTGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAAAATGAGCTCAGAGCTTTTTCTTGGTACTTGTGATGGAGTTTCTCTTTCTTGTGGCCAAAA----CATCCACCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTCT-----AGAAGAAAATATCTAAA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7334911 169 +  34552619 TGTGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAAAATGAGCTCAGAGCTTTTTCTTGGTACTTGTGATGGAGTTTCTCTCTCTTGAGACCAAAA----CATCCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTCT-----AGAAGAAAATATCTTAA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646475 169 - 133663169 CGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACTCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCTAAA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048689 168 - 137757926 TGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACTCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCT-AA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420144 168 -   7948249 CGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACTCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCT-AA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324463 168 -  10730278 CGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACTCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCT-AA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815403 169 - 128539186 CGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTGTTGTGGCCAAAA----CACCCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCTAAA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211693 168 +    435186 CGTGTGTTTGCTCTGATGTAGTTCCGACCTTAAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACTCATCTTTAAGAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCT-AA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611277 168 +   9309688 TGTGTGTTTGCTCTGATGTAGTTCCGACCTTCAGTACACAGAAAATGAGCTCAGAGCTATTTCTTGGTAATTGTGATGGAGTTTCTGTCTATTGTGGCCAAAA----CACCCATCTTTAAAAGTACTGACTGAGGTACTGAGAAAATGAG-TTTTTT-----AGAAGAAAATATCT-AA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430102 169 -  29834108 CGTGTGTTTGCTCTGATGTAGTTCTGACCTTGAGTACACAGAACAGGAGCTCAGAAATGTTTCTTGGTACTTGTGATGGAATTTCCCTCTTTTGTGGCCAAAA----CATCCATCTTTAAGAGTACTGACTGAGATACTGAGAAAATGAGTTTTTTT-----AAAAGAAAATAGCC-AA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882000 168 -   1015025 CATGTGTTTGCTCTGATGTAGTTCTGACCCTAAGTACACAGAACATGAGCTCAGAACTGTTTCTTGGTACTTGTGATGGAGTTTGCCTCTCTTGTGGCCAAAA----CATCCATCTTTAAGAGTACTGACTGAGATACTGAGAAAATGAG-TTTTCT-----AAAATAAAATAGCC-AA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903790 168 -   2295209 CATGTGTTTGCTCTGATGTAGTTCTGACCTTAAGTACACAGAACGTGAGCTCAGAACTGTTTCTTGGTACTTGGGATGGAGTTTCCCTCTCTTGTGGCCAAAA----TATCCATCTTTAAGAGTACTGACTGAGATACTGAGAAAATGAG-TTTTCT-----AAAAGAAAGTAGCT-AA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037158 168 +  31815103 TGTGTGTTTGCACTGGTGTAGTTCTGACTTTAAGTACACAAAACATGAACTCGGAGCTGTTTCTTAGTACTTGTGATGGAGTTTCCCTCTCTTTTGGCCAAAA----CATCTGTCTTTAGGAGTACTGACTAAGGTATAGAGGAATTAAG-TTTTCT-----AGAAAAAAATATCT-AA
i micMur3.chr21             I 16 I 110
s proCoq1.NW_012140524v1      5126154 167 +  13104022 TGTGTGTTTGCACTGGTGTAGTTCTGACTTTAAGTACACAAAACATGAACTCAGAGCTGTTTCTTAGTACTTGTGATCGAGTTTCCCTCTCTCTTGGCCAAAA----CATCTATCTTTAGGAGTACTGACTAAAGTATTGAGGAATTAAG-TTTTCT------GGAAAAAATATCT-AA
i proCoq1.NW_012140524v1    I 31 C 0
s otoGar3.GL873576            4600063 165 -  12054995 TGTGTGTTTGCGCTGGTGTCATTCTGACCTTAAGTACACAGAATGTGATTTCAGGGCTGTTTTCTAGTCCGTACGATGGGGTTTCCCTCTCTC--AGCCAAAA----TAGCTATGTTTAGGAGTCCTGACTAAGGTATCAAGGCATTAAG-TTTTCC------AGGAAAAATATCT-AA
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2444394 161 - 149736546 TGCATGTTTGTGCTGAGGTAATTCTGACCTTCCGTACACAGAATGTGAACTCAG--CTACTTCTTGATACTGA----GGAGTTCCGCTCTCTCCTT-CCAAGACAGCCATCCACCCTGAAGAG-GTTGACTGAGATATTCAGAAAAC-AG-TTTCTG-----GACAGAAACAATAC---
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19754576 173 +  45876710 TATGTGTTTGCATTGATGTCGTTCTGACCTTAAGTACACAAAACATGAACTCAGAGCCTTTTCTTGGTACTTGTGATGGAGATCCCCATTCTCTTGGCCAAAA----TGTGTAACTTTAAGAGTACTGACTAAAGTATTGAAGACATGAA-TTTTCTGGGGGGGAAAAAAGCATCT-AA
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             956542 172 -   1687904 TGTGTGTTTGCAGTGGTATAGTTCCAATCTTAAGTACAGAGAACATGGGCTCAGAGCTGTTTCTTGGTGGTTGTGAAGGA-TTACCCTCTCTCATGGCCAAAA----TATCTGTCTTTAAGAGTCCTGACTGAGGCATTGAGGAATTGAG-TTTTCTGGGGGATAAAAAAACATCT-CA
i dasNov3.JH562883          I 1 C 0

a score=372769.000000
s hg38.chr12_GL383549v1_alt    118235 28 +    120804 AAAATCTCAGTAAAGGACCATTGATACT
s panTro5.chr12              62815244 28 + 137163284 AAAATCTCAGTAAAGGACCATTGATACT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933457 28 + 135337776 AAAATCTCAGTAAAGGACCATTGATACT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148907 28 -  32808036 AAAATCTCAGTAAAGGACCATTGATACT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335080 28 +  34552619 AAAATCTCAATAAAGGACCATTGATACT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646644 28 - 133663169 AAAATCTCTGTAAAGGACTATTGATTCT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048857 28 - 137757926 AAAATCTCTGTAAAGGACTATTGATTCT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420312 28 -   7948249 AAAATCTCTGTAAAGGACTATTGATTCT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324631 28 -  10730278 AAAATCTCTGTAAAGGACTGTTGATTCT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815572 28 - 128539186 AAAATCTCTGTAAAGGACCATTGATTCT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211861 28 +    435186 AAAATTTCTGTAAAGGACTGTTGATTCT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611445 28 +   9309688 AAAATCTCTGTAAAGGACCATTGATTCT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430271 28 -  29834108 AGAATCTCAGTAAAGGACCATTGATACT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882168 28 -   1015025 AGAATCTCAGTAAAGGACCATTGATACT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903958 28 -   2295209 AGAATCTCAGTAAAGGTTCATTGATACT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5126321 28 +  13104022 AGACTTTCAGCAAAGGACCACTGATACT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4600228 28 -  12054995 AGACTTTCAGTAAAGGACGATTGATACT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444555 28 - 149736546 AGAACTCCAGTGGAGGACCACTGATGCC
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19754749 28 +  45876710 AGAATCTCTGTAAAGGACCATTGCTACT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             956714 28 -   1687904 AGAACCTCAGAAAAGGACCACTGATGCT
i dasNov3.JH562883          C 0 I 142
e micMur3.chr21               3037326 110 +  31815103 I

a score=15561.000000
s hg38.chr12_GL383549v1_alt    118263 1 +    120804 A
s panTro5.chr12              62815272 1 + 137163284 A
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933485 1 + 135337776 A
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148935 1 -  32808036 A
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335108 1 +  34552619 A
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646672 1 - 133663169 A
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048885 1 - 137757926 A
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420340 1 -   7948249 A
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324659 1 -  10730278 A
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815600 1 - 128539186 A
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211889 1 +    435186 A
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611473 1 +   9309688 A
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430299 1 -  29834108 A
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882196 1 -   1015025 A
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903986 1 -   2295209 A
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5126349 1 +  13104022 A
i proCoq1.NW_012140524v1    C 0 I 80
s otoGar3.GL873576            4600256 1 -  12054995 A
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444583 1 - 149736546 A
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19754777 1 +  45876710 A
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3037326 110 +  31815103 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=127095.000000
s hg38.chr12_GL383549v1_alt    118264 15 +    120804 GCGAG-ATAAATATAT
s panTro5.chr12              62815273 15 + 137163284 GCGAG-ATAAATATAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933486 15 + 135337776 GCGAG-ATAAATATAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148936 14 -  32808036 G-GAG-ATAAATATAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335109 15 +  34552619 GGGAG-ATAAATGTAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646673 15 - 133663169 GGGAG-ATAAATGTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048886 15 - 137757926 GTGAG-ATAAATGTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420341 15 -   7948249 GGGAG-ATAAATGTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324660 15 -  10730278 GGGAG-ATAAATGTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815601 15 - 128539186 GGGAG-ATAAATGTAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211890 15 +    435186 GGGAG-ATAAATGTAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611474 15 +   9309688 GGGAG-ATAAATGTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430300 16 -  29834108 GAGAGAATAAATGTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882197 16 -   1015025 GAAAGAATAAATGTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1903987 16 -   2295209 GAGAGAATAAATGTAT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600257 16 -  12054995 CAGAGAATAAATGTGT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444584 16 - 149736546 GAGAGAATAAAGACAG
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19754778 16 +  45876710 GAGAGAATAAACTCAT
i canFam3.chr27             C 0 C 0
e micMur3.chr21               3037326 110 +  31815103 I
e proCoq1.NW_012140524v1      5126350 80 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=132751.000000
s hg38.chr12_GL383549v1_alt    118279 15 +    120804 ---GGATACtgtattagt
s panTro5.chr12              62815288 15 + 137163284 ---GGATACtgtattagt
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933501 15 + 135337776 ---GGATACtgtattagt
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148950 15 -  32808036 ---GGATACtgtattagt
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335124 15 +  34552619 ---GGATACtatattagt
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646688 15 - 133663169 ---GGATACtgcattagt
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048901 15 - 137757926 ---GGATACtgcattagt
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420356 15 -   7948249 ---GGATACtgcattagt
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324675 15 -  10730278 ---GGATACtgcattagt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815616 15 - 128539186 ---GGATACtgcattagt
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211905 15 +    435186 ---GGATACtgcattagt
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611489 15 +   9309688 ---GGATACtgcattaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430316 15 -  29834108 ---GGATACtgcattcat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882213 15 -   1015025 ---GGATACtgcattcat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904003 15 -   2295209 ---GGATACtatattcat
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2444600 18 - 149736546 AGAGAGCACTGCCTTGGT
i mm10.chr6                 C 0 I 140
e otoGar3.GL873576            4600273  0 -  12054995 C
e micMur3.chr21               3037326 110 +  31815103 I
e canFam3.chr27              19754794  0 +  45876710 C
e proCoq1.NW_012140524v1      5126350 80 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=1911421.000000
s hg38.chr12_GL383549v1_alt    118294 216 +    120804 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacagttccacaaccttaacaggaagcctgactgggaggcctcaggaaacttacaatcgtggcagaa------ggggaagtcagcatatcttaccatggcagagcaggag-aaagagagtgagcgggaagtgccacccttttaaaccatcaga
s panTro5.chr12              62815303 216 + 137163284 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacagttccacaagcttaacaggaagcctgactgggaggcctcaggaaacttacaatcgtggcagaa------ggggaagtcagcatgtcttaccatggcagagcaggag-aaagagagtgagcgggaagtgccacacttttaaaccatcaga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933516 216 + 135337776 ccattttcacactgctataaaaaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacagttccacaagcttaacaggaagcctgactgggaggcctcaggaaacttacaatcgtggcagaa------ggggaagtcagcatatcttaccatggcagagcaggag-aaagagagtgagcgggaagtgccacacttttaaaccatcaga
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3148965 216 -  32808036 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacagttccagaagcttaacaggaagcctgactgggaggcctcaggaaacttacaatcgtggcagaa------ggggaagtcagcatatcttaccatggcagagcaggag-aaagagagtgagcgggaagtgccacacttttaaaccatcaga
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335139 217 +  34552619 ccattttcacactgctataaagaactaccaaagattaggtaatttcttaagaaaaagaggtttaattaactcacagttctacaaacttaacaggaagcctgactgggaggcctcaggaaacttacaattgtggcacaa------ggggaagtcagcatatcttaccatggcagagcaggag-aaagagagtgagcgggaagtgccacacttttaaaccatcaga
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646703 216 - 133663169 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacaattccacaagcttaacaggaagcatgactgggaggcctcaggaaacttacaacagtggcagaa------ggggatgtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109048916 216 - 137757926 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacaattccacaagcttaacaggaagcatgactgggaggccttaggaaacttacaacagtggcagaa------ggggaagtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420371 216 -   7948249 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacaattccacaagcttaacaggaagcatgactgggaggcctcaggaaacttacaacagtggcagaa------ggggaaataagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324690 216 -  10730278 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattcattcacaattccacaagcttaacaggaagcatgactgggaggcctcaggaaacttacaacagtggcagaa------ggggaagtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815631 216 - 128539186 ccattttcacactgctataaagaactaccaaagactgggaaatttcttaag-aaaagaggtttaattaattcacaattccacaagcttaacaggaagcatgactgggagacctcagaaaacttacaacagtggcagaa------ggggaagtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       211920 216 +    435186 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaattaattcacaattccacaagcttaacaggaagcatgactgggaggcctcaggaaacttacaacagtggcaaaa------ggggaagtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611504 215 +   9309688 ccattttcacactgctataaagaactaccaaagactgggtaatttcttaag-aaaagaggtttaatgaattcacaattccacaagcttaacaggaagcatgactgggaggcctcaggaaacttacaatagtggcag-a------ggggaagtaagcatatcttaccatggcagagcaggag-aaagagagtgagtgggaagtgccacacttttaaaccatcaga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430331 222 -  29834108 tcattttcacactgctataaagaactacctgagactgggtaatttctgtgg-aaaagaagtttaattgattcacagttccacaagcttaacaggaagcatgactgggaggtctcaggaaacttacaatcatggcagaa-gcaaaggagaagcaagcacatcttaccatggcagaacaagagaaaagagagggagcaggaagcaccatgcttttaaaccattaga
i saiBol1.JH378123          C 0 I 157
s cebCap1.NW_016107911v1       882228 222 -   1015025 ccattttcacactgctataaagaactacctgagactgggtaatttctgaag-aaaagaggtttaattgattcacagttccacaagcttaacaggaagcatgacttggaggtctcaggaaacttacaatcatggcagaaggcaaaggagaagcaagcacatcttaccatggcagaacaagag-aaagagagtgagcaggaagcaccatgcttttaaaccatcaga
i cebCap1.NW_016107911v1    C 0 I 157
s aotNan1.NW_018488218v1      1904018 222 -   2295209 ccattttcacactgctataaagaactatctgagactgggtaatttctgaag-aaaagaggtttaattgattcacagttccacaaacttaacaggaagcatgactgggaggtctcaggaaacttacaatcatggcagaaggcaaaggagaagcaaacacatcttaccatggcagaacaagag-aaagagagtgagcaggaagcaccatgcttttaaaccatcaga
i aotNan1.NW_018488218v1    C 0 I 157
e otoGar3.GL873576            4600273   0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037326 110 +  31815103 I
e canFam3.chr27              19754794   0 +  45876710 C
e proCoq1.NW_012140524v1      5126350  80 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=1214459.000000
s hg38.chr12_GL383549v1_alt    118510 137 +    120804 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgtcctcatgatacaatcacctcccacccctg----------acatgtggggattacaattcaacatgaaatttgggtgagaacac--agccaaaccatatc
s panTro5.chr12              62815519 147 + 137163284 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgtcctcatgatacaatcacctcccacccaggggtggggattacatgtggggattacaattcaacatgaaatttgggtgaggacac--agccaaaccatatc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933732 137 + 135337776 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgtcctcatgatacaatcacctcccacccctg----------acatgtggggattacaattcaacatgaaatttgggtgaggacac--agccaaaccatatc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149181 137 -  32808036 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgtcctcatgatacaatcacctcccacccctg----------acatgtggggattacaattcaacatgaaatttgggtgaggacac--agctaaaccatatc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335356 137 +  34552619 tctcatgagaactcactcactatcatgagaacaggatga-tggaaatctgtccccatgatacaatcacctcccacccctg----------atatgtggggattacaattcaacatgaaatttgggtgaggacac--agccaaaccatatc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104646919 137 - 133663169 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcacctcccacccctg----------acgtgtggggattacaattgaacatgaaatttggctgaggacac--agccaaaccatatc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049132 137 - 137757926 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcacctcccacccctg----------acatgtggggattacaattgaacatgaaatttggctgaggacac--agccaaaccatatc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420587 137 -   7948249 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcacctcccacccctg----------acatgtggggattacaattgaacatgaaatttggctgaggacac--agccaaaccatatc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8324906 137 -  10730278 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcatctcccatgcctg----------acatgtggggattacaattgaacatgaaatttgggtgaggacac--agccaaaccatatc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815847 137 - 128539186 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccacgatacaatcacctcccacccctg----------acatgtggggattacaattgaacatgaaatttggctgaggacac--agccaaaccatatc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212136 137 +    435186 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcacctcccacccctg----------acatgtggggattacaattgaacatgaaatctgggtgaggacac--agccaaaccatatc
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611719 135 +   9309688 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccatgatacaatcacctcccacccctg----------ac--gtgaggattagaattgaacatgaaatttgggtgaggacac--agccaaaccatatc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430710 140 -  29834108 tctcatgagaactcactcactatcatgagaacaagatgagaggaaatctgcccccatgacacaatcacctcccacccctg----------acacgtggggattacaattcaacatgaaataagggcagggacacagagccaaaccatatc
i saiBol1.JH378123          I 157 C 0
s cebCap1.NW_016107911v1       882607 140 -   1015025 tctcatgagaactcactcactatcatgagaacaggatgaagggaaatctgcccccatgacacaatcacctcccacccctg----------acatgtagggattacaattcaacatgaaattagggcggggacacagagccaaaccatatc
i cebCap1.NW_016107911v1    I 157 C 0
s aotNan1.NW_018488218v1      1904397 139 -   2295209 tctcatgagaactcactcactatcatgagaacaggatga-gggaaatctgcccccacgacacaatcacctcccacccctg----------acatgtggggattacaattcaacctggaattagggtggggtcacagagccaaaccgtatc
i aotNan1.NW_018488218v1    I 157 C 0
e otoGar3.GL873576            4600273   0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037326 110 +  31815103 I
e canFam3.chr27              19754794   0 +  45876710 C
e proCoq1.NW_012140524v1      5126350  80 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=477449.000000
s hg38.chr12_GL383549v1_alt    118647 46 +    120804 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
s panTro5.chr12              62815666 46 + 137163284 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCAAGTG----------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933869 46 + 135337776 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149318 46 -  32808036 aGATACCATTGTCTTCATCAC-TTGGACATATGCCTATGACCGAGTG----------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335493 46 +  34552619 aGACACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647056 46 - 133663169 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTGTGACCGAGTG----------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049269 46 - 137757926 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420724 46 -   7948249 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325043 46 -  10730278 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100815984 46 - 128539186 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACCGAGTG----------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212273 46 +    435186 aGGTACCATTGTCTTCATCAC-TTGGACGTTTGCCTATGACCGAGTG----------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611854 46 +   9309688 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACTGAGTG----------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430850 46 -  29834108 aGATACCATCGTCTTCATCAC-TTGGACATTTGCCTATGACTGAGTA----------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882747 46 -   1015025 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACTGAGTG----------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904536 46 -   2295209 aGATACCATTGTCTTCATCAC-TTGGACATTTGCCTATGACTGAGTG----------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600273 47 -  12054995 AGAAATCATTGCCTTCATTGCTTTGGACGCTCGCCTACACGTGAGGC----------------
i otoGar3.GL873576          C 0 I 16
s canFam3.chr27              19754794 63 +  45876710 AGATATCATTGCGCTCATCACTTTGGGAATTTATCTATGACAAAGACAAGACTCCCAGGGCTG
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037326 110 +  31815103 I
e proCoq1.NW_012140524v1      5126350 80 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=13923.000000
s hg38.chr12_GL383549v1_alt    118693 1 +    120804 T
s panTro5.chr12              62815712 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933915 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149364 1 -  32808036 T
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335539 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647102 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049315 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420770 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325089 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816030 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212319 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611900 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430896 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882793 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904582 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5126430 1 +  13104022 T
i proCoq1.NW_012140524v1    I 80 C 0
s otoGar3.GL873576            4600336 1 -  12054995 T
i otoGar3.GL873576          I 16 C 0
s canFam3.chr27              19754857 1 +  45876710 T
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037326 110 +  31815103 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=1205311.000000
s hg38.chr12_GL383549v1_alt    118694 90 +    120804 TTTGATTCAGAAGCAGAAGATAATTTGAGATAAATGGCTTATGCCCAAGACTCCTAGAAGACCAAAGCCACTCATGGT-CCCATGCTTCTT
s panTro5.chr12              62815713 90 + 137163284 TTTGGTTCAGAAGCAGAAGATAATTTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGACCAAAGCCACTCATGGT-CCCATGCTTCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60933916 90 + 135337776 TTTGGTTCAGAAGCAGAAGATAATTTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGACCAAAGCCACTCATGGT-CCCATGCTTCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149365 90 -  32808036 TTTGGTTCAGAAGCAGAAGATAATTTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGACCAAAGCCACTCATGGT-CCCATGCTTCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335540 90 +  34552619 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCCAGATGACCAAAGCCACTCACAGT-CCTATGCTTCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647103 90 - 133663169 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049316 90 - 137757926 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420771 90 -   7948249 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325090 90 -  10730278 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816031 90 - 128539186 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212320 90 +    435186 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CTCATGCTTCTT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611901 90 +   9309688 TTTGGTTCAGAAGCAGAAGATAATGTGAGATAAATGGCTTACGCCCAAGACTCCTACATGACCAAAGCCACTGATGGT-CCCATACTTCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430897 91 -  29834108 TTTGGTCCAGAAGCAGAAGAAAATGTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGCCCAAAGCCACTGATGGTCCCCATGCGTCTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882794 90 -   1015025 TTTGGTCCAGAAGCAGAAGATAGTGTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGCCCAAAGCCACTGATGGT-CCCATGCGTCTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904583 90 -   2295209 TTTGGTCCAGAAGCAGAAGATAATGTGAGATAAATGGCTTATGCCCAAGACTCCTAGATGCCCAAAGCCACTGATGGT-CCCATGCTTCTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037436 90 +  31815103 TTTGGTTCAGAAGCAGAAGACAATGTGAAATAGATGGCTTATGCCCAAGGCCCCCAGATGCCCAGAGCCACTGATGGT-CACATGCTTCTT
i micMur3.chr21             I 110 C 0
s proCoq1.NW_012140524v1      5126431 90 +  13104022 TTTGGTTCAGAAGCAGAAGACAATGTGAAATAGATGGCTTATGCCCAAGGCCCCCAGATGCCCAAAGCGACTAATGGT-CACATGCTTCTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4600337 90 -  12054995 TTCAGTTTAGAAGCAGTGGACAAGGTGAAATAGTTGGTCTATGCCCCAAACCCCCAGATGCCCAAAGCCACTAAGGGT-CACATGCTTCTT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19754858 89 +  45876710 TTTGGCCCCAAAGCAGAAGACAGTGTGAGGTAGATGGCTTATGTCCAAGAC-CCCAGATGCCCAAAGGTACAGATTGC-CACATACTTCTT
i canFam3.chr27             C 0 C 0
e mm10.chr6                   2444618 140 - 149736546 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=10198.000000
s hg38.chr12_GL383549v1_alt    118784 2 +    120804 TG
s panTro5.chr12              62815803 2 + 137163284 TG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934006 2 + 135337776 TG
i panPan2.chr12             C 0 I 1
s gorGor5.CYUI01000003v1      3149455 2 -  32808036 TG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335630 2 +  34552619 TG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647193 2 - 133663169 TG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049406 2 - 137757926 TG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420861 2 -   7948249 TG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325180 2 -  10730278 TG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816121 2 - 128539186 TG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212410 2 +    435186 TG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611991 2 +   9309688 TG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430988 1 -  29834108 T-
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882884 1 -   1015025 T-
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904673 2 -   2295209 TA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037526 2 +  31815103 TG
i micMur3.chr21             C 0 I 103
s proCoq1.NW_012140524v1      5126521 2 +  13104022 TG
i proCoq1.NW_012140524v1    C 0 I 87
s canFam3.chr27              19754947 2 +  45876710 TG
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4600427 0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=98995.000000
s hg38.chr12_GL383549v1_alt    118786 30 +    120804 AAAttttgtattc--------------------------tttttttttttttttct
s panTro5.chr12              62815805 39 + 137163284 AAATTTTTTAttcttttt-----------------cttttttttttttttttttct
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934009 27 + 135337776 AAAttttttattc-----------------------------tttttttttttctt
i panPan2.chr12             I 1 C 0
s gorGor5.CYUI01000003v1      3149457 29 -  32808036 AAAttttttattc---------------------------ttttttttttttttct
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335632 29 +  34552619 AAAttttttattc---------------------------ttttttttttccttct
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647195 56 - 133663169 AAAAtttttattcttgtttttgtttgtttgtttgtttgtttgtttgtttgttttct
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049408 56 - 137757926 AAAAtttttattcttgtttttgtttgtttgtttgtttgtttgtttgtttgttttct
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420863 48 -   7948249 AAAAtttttattcttgtt--------tttgtttgtttgtttgtttgtttgttttct
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325182 55 -  10730278 AAAATTTGTATTCTTGTt-ttgtttgtttgtttgtttgtttgtttgtttgtttTCt
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816123 45 - 128539186 AAAATTTTTATTCttgtt---------t--tttgtttgtttgtttgtttgttttct
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212412 47 +    435186 AAAATTTTTATTCTTGTT---------TTAtttgtttgtttgtttgtttgttttct
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3611993 48 +   9309688 AAAATTTTTATTCTTGTt--------ttttttttgttttgttttgctttgttttct
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11430989 24 -  29834108 -AAGttttcat-------------------------------ttttttttttttct
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882885 21 -   1015025 -AAtttttca----------------------------------tttttttttccc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904675 23 -   2295209 AAAtttttca---------------------------------tttttttttttct
i aotNan1.NW_018488218v1    C 0 C 0
s canFam3.chr27              19754949 30 +  45876710 CAAGTTTTTGTTC-------------------------TTTATCCTTTTGGTTAT-
i canFam3.chr27             C 0 C 0
e otoGar3.GL873576            4600427  0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037528 103 +  31815103 I
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=579492.000000
s hg38.chr12_GL383549v1_alt    118816 72 +    120804 tgagacagagtcttgctctgcgacccaggctggagtgccatggtgcaatctcggctcactgcaacctccacc
s panTro5.chr12              62815844 72 + 137163284 tgagacagagtcttgctctgccacccaggctggagtgccatggtgcaatctcggctcactgcaacctccacc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934036 72 + 135337776 tgagacagagtcttgctctgccacccaggctggagtgccatggtgcaatctcggctcactgcaacctccacc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149486 72 -  32808036 tgagacagaatcttgctctgccacccaggctggagtgccacggtgcaatctcggctcactgcaacctccacc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335661 72 +  34552619 tgagacagagtcttgctctgccacccaggctggagtgccatggtgcaatttcagctcactgcaacctccacc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647251 72 - 133663169 tgagacagagtctcgctgtgccacccaggctggagagctgttgcacagtcttggctcactgcaaactctacc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049464 72 - 137757926 tgagacagagtctcgctgtgccacccaggctggagagctgttgcacagtcttggctcactgcaaactctacc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420911 72 -   7948249 tgagacagagtctcactgtgccacccaggctggagagctgttgcacagtctcggctcactgcaacctctacc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325237 72 -  10730278 tgagacagagtctcgctgtgccacccaggctggagagctgttgtacagtctcggctcactgcaacctctgcc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816168 71 - 128539186 tgagacagagtctcgctgtgccacccaggc-ggagagctgttgcacagtctcggctcactgcaacctctacc
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       212459 72 +    435186 tgagacagagtctcgctgtgccacccaggctggagagctgttgcacagtctcggctcactgcaacctctacc
i manLeu1.NW_012101287v1    C 0 M 500
s colAng1.NW_012114364v1      3612041 72 +   9309688 tgagacagagtctcgctgtgccacccaggctggagagctgttgcacagtcttggttcaccgcaacctctacc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431013 72 -  29834108 tgagacaaggtctcactctgccacccaggctggagtactgtggtgcagtctcagctcactgcaacctccacc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882906 72 -   1015025 caaggcagagtcttgctctgtcacccaggctggagtgcagtggtgtaatcttggctcactgcaaccttcatc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904698 72 -   2295209 tgagacagagtctcactctgccacccaggctggagtattgtggtgcagtctcagctcactgcaacctccacc
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4600427  0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037528 103 +  31815103 I
e canFam3.chr27              19754979  0 +  45876710 C
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I

a score=1486234.000000
s hg38.chr12_GL383549v1_alt    118888 215 +    120804 tcccaggttcaagcgattctcc-tcctcagcctcccgagtagctgggactacaggtgcctgccaccttacccagctaattt-----ttttttttt------------gtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattctagaaatgagccaccatgcctgg
s panTro5.chr12              62815916 218 + 137163284 tcccaggttcaagcgattctcc-tcctcagcctcccgagtagctgggactacaggtgcctgccaccgtacccagctaattt--gtgtgtgtgtgt------------gtgtttttagtagagacggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattctaggcatgagccaccatgcctgg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934108 220 + 135337776 tcccaggttcaagcgattctcc-tcctcagcctcccgagtagctgggactacaggtgcctgccaccttacccagctaatttttttgttttgtttt------------gtgtttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcagcctcccaaagtgctaggattctaggcatgagccaccatgcctgg
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149558 220 -  32808036 tcccaggttcaagcaattctcc-tcctcagcctcccgagtagctgggactacaggtgtctgccaccgtacccagctaattttttttttttttttt------------gtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattctaggcatgagccaccatgcctgg
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335733 216 +  34552619 tcccaggttcaagcaattctcc-tcctcagcctcccgagtagctgggactacaggtgcctgccaccatgcccaactaattt----tttttttttt------------gtatttttagtagagagggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcctaaagtgctaggattctaggcatgagccaccatgcctgg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647323 232 - 133663169 tcccaggttcaagtgattctcc-ccctaagcctcctgagtagctgggactacaggcacttgccaccatgcccggctaattttttttttttttttttttttttttttagtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattccaggcatgaaccactacgcctgg
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049536 232 - 137757926 tcccaggttcaagtgattctcc-ccctaagcctcctgagtagctgggactacaggcacttgccaccatgcccggctaattttttttttttttttttttttttttttagtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattccaggcatgaaccactacgcctgg
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1420983 232 -   7948249 tcccaggttcaagtgattctcc-ccctaagcctcctgagtagctgggactacaggcacttgccaccatgcccggctaattttttttttttttttttttttttttttagtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattccaggcatgaaccactacgcctgg
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325309 211 -  10730278 tcctaggtttaagcaattctcctccctcagcctcctgagtagctgggattacaggcacgcaccaccacacctggctaattttgtt----------------------gtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattccaggcatgagccactacgcctgg
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816239 209 - 128539186 tcccaggttcaagcaattctcttgcctcagcctcccaagcagctgggattacaggcatgcaccactatacccagctaattttt------------------------gtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacctcggcctcccaaagtgctaggattccaggcatgagccattacgcctgg
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612113 216 +   9309688 tcccaggttcaagtgattctcc-ccctcaggctcccgagtagctgggactacaggcacctgccaccatgcccagctaattttttttttttt----------------gtatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcctgacctcaaatgatccaccaacttcggcctcccaaagtgctaggatttcaggcatgagccaccatgcctgg
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431085 224 -  29834108 tcccaggttcaagcaattctcc-tcctgagcttcctgagtggctgggactacagg-------caccatgcctggctatttttttttttttttttttttttttttgg-gtatttttagtagaactggtttttcaccatgttggccaggctgatcttgcactcctgacctcaaatgatccacccacttcagccttccaaagtgctgggattccaagcgtgggccaccatgactgg
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       882978 209 -   1015025 tcctgggttctagcaattatctggccttagcctcctgagtagtagggactataggcatgcaccaccatgcccagataattttt------------------------gtatttttagtagaactgggttttcatcgtgttggccaggctggtcttgcactcctgacctcaaatgatccacccacttcggcctcccaaagtgctgggattccaagtgtgcgccaccacacctgg
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904770 223 -   2295209 tcccaggttcaagcaattctcc-tcctgagcctcctgagtagctgggactacaggcacctgccaccatgcctggctattttttttttttttttttttt---------gtatttttagtagaactgggttttcaccatgttggccaggctggtcttgcactcctgacctccaatgatccacccacttcggcctcccaaagtgctgggattccaagcgtgggctaccacgcctgg
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4600427   0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037528 103 +  31815103 I
e canFam3.chr27              19754979   0 +  45876710 C
e proCoq1.NW_012140524v1      5126523  87 +  13104022 I
e dasNov3.JH562883             956742 142 -   1687904 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=10945.000000
s hg38.chr12_GL383549v1_alt    119103 2 +    120804 tc
s panTro5.chr12              62816134 2 + 137163284 tc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934328 2 + 135337776 tc
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149778 2 -  32808036 tc
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335949 2 +  34552619 cT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647555 2 - 133663169 cc
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049768 2 - 137757926 cc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421215 2 -   7948249 cc
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325520 2 -  10730278 cc
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816448 2 - 128539186 cc
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612329 2 +   9309688 cc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431309 2 -  29834108 cc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883187 2 -   1015025 cc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904993 2 -   2295209 cc
i aotNan1.NW_018488218v1    C 0 C 0
s dasNov3.JH562883             956884 2 -   1687904 TT
i dasNov3.JH562883          I 142 C 0
e otoGar3.GL873576            4600427 0 -  12054995 C
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037528 103 +  31815103 I
e canFam3.chr27              19754979 0 +  45876710 C
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=112770.000000
s hg38.chr12_GL383549v1_alt    119105 12 +    120804 TGAAAGTTTTTA
s panTro5.chr12              62816136 12 + 137163284 TGAAAGTTTTTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934330 12 + 135337776 TGAAAGTTTTTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149780 12 -  32808036 TGAAAGTTttta
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335951 12 +  34552619 TGAAAGTTttta
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647557 12 - 133663169 TGAAAGTTTTCA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049770 12 - 137757926 TGAAAGTTTTCA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421217 12 -   7948249 TGAAAGTTTTCA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325522 12 -  10730278 TGAAAGTTTTCA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816450 12 - 128539186 TGAAAGTTTTCA
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612331 12 +   9309688 TGAAAGTTTTTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431311 12 -  29834108 TGAAAGTTTTTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883189 12 -   1015025 TGAAAGTTTTTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1904995 12 -   2295209 TGAAAGATttta
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600427 12 -  12054995 TGCAAGTTTTTA
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             956886 12 -   1687904 TGTAAGATTTTG
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2444618 140 - 149736546 I
e micMur3.chr21               3037528 103 +  31815103 I
e canFam3.chr27              19754979  0 +  45876710 C
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=189193.000000
s hg38.chr12_GL383549v1_alt    119117 20 +    120804 TTCTTTATCCTCTTTGTTAT
s panTro5.chr12              62816148 20 + 137163284 TTCTTTATCCTCTTTGTTAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934342 20 + 135337776 TTCTTTATCCTCTTTGTTAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149792 20 -  32808036 ttctttatcctctttgttat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335963 20 +  34552619 ttctttatcctctttgttat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647569 20 - 133663169 TTCTTTATCCTCTTTGTTAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049782 20 - 137757926 TTTTTTATCCTCTTTGTTAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421229 20 -   7948249 TTCTTTATCCTCTTTGTTAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325534 20 -  10730278 TTCTTTATCCTCTTTGTTAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816462 20 - 128539186 TTCTCTATCCTCTTTGTTAT
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612343 20 +   9309688 TTCTTTATCCTCTTTGTTAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431323 20 -  29834108 TTCTTTATCCACTTTTTTAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883201 20 -   1015025 TTCTTTATCCACTTTTTTAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905007 20 -   2295209 ttctttatccattttttaat
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600439 20 -  12054995 TTCCTTATCTTCTTGGTTAT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444758 20 - 149736546 TTTTTTATCCTGGCGGTTAT
i mm10.chr6                 I 140 C 0
s dasNov3.JH562883             956898 19 -   1687904 TCCTTTATCCTCTTGGTTT-
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3037528 103 +  31815103 I
e canFam3.chr27              19754979  0 +  45876710 C
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=510174.000000
s hg38.chr12_GL383549v1_alt    119137 46 +    120804 TTTCTTTGTTCTCTGATGGTTCAAAA-----------T-----AGTAGACACTCATATCCTT
s panTro5.chr12              62816168 46 + 137163284 TTTCTTTGTTCTCTGATGGTTCAAAA-----------T-----AGTAGACACTCATATCCTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934362 46 + 135337776 TTTCTTTGTTCTCTGATGGTTCAAAA-----------T-----AGTAGACACTCATATCCTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149812 46 -  32808036 tttctttgttctCTGATGGTTCAAAA-----------T-----AGTAGACACTCATATCCTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7335983 46 +  34552619 tttctttgttctCTGATGGTTCAAAA-----------T-----AGTAGACACTCATATCCTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647589 57 - 133663169 TTTCTTTGTTCTCTGATGGTTCAAAATTCTGAATTATT-----AGTAGACACTCATATCCTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049802 57 - 137757926 TTTCTTTGTTCTCTGATGGTTCAAAATTCTGAATTATT-----AGTAGACACTCATATCCTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421249 57 -   7948249 TTTCTTTGTTCTCTGATGGTTCAAAATTCTGAATTATT-----AGTAGACACTCATATCCTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325554 57 -  10730278 TTTCTTTGTTCTCTGATGGTTCAAAATTCTGAATTATT-----AGTAGACACTCATATCCTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816482 57 - 128539186 TTTCTTTGTTCTCTGATGGTTCAAAACGCTGAATTATT-----AGTAGACACTCATATCCTT
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612363 57 +   9309688 TTGCTTTGTTATCTGATGGTTCAAAATTCTGAATTATT-----AGTAGACACTCATATCCTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431343 57 -  29834108 TTTCTTTATTCTCTGATGGTTCAAAATTCTAAATTATT-----AGTAGACACTCATATCTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883221 57 -   1015025 TTTCTTTATTCTCTGATGGTTCAAAATTCTAAATTATT-----AGTAGACACTCATATCTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905027 57 -   2295209 tttctttattctCTGATGGTTTAAAATTCTAAATTATT-----AGTAGACGCTCATATCTTT
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600459 57 -  12054995 TTGGTTTCTTCTCTGATGATTCAAAATTCTGAGTTATT-----AGTAGACATTCTTATCTCA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444778 58 - 149736546 ---CTCTATCCTCTGTTCCTTCAGAATTCTTAATTAATAATGGAGCAGACACCCTTACCTT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19754979 57 +  45876710 TTTCTGCCTTATCCACTGGTTCAGGAATTTAAATTATT-----AGTAGACACTCTTATCCTT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             956917 56 -   1687904 TCTCTTGGTTCTCTGCTAGTTCAAGG-TCTAAGGTATC-----AGTGGACACTGCTGTCCTT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3037528 103 +  31815103 I
e proCoq1.NW_012140524v1      5126523 87 +  13104022 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=157132.000000
s hg38.chr12_GL383549v1_alt    119183 16 +    120804 TAATCATGGTATACTT
s panTro5.chr12              62816214 16 + 137163284 TAATCATGGTATACTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934408 16 + 135337776 TAATCATGGTATACTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149858 16 -  32808036 TAATCATGGTATATTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336029 16 +  34552619 TAATCATGCTATACTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647646 16 - 133663169 TAATCATGGTATACTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049859 16 - 137757926 TAATCATGGTATACTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421306 16 -   7948249 TAATCATGGTATACTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325611 16 -  10730278 TAATCATGGTATACTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816539 16 - 128539186 TAATCATGGTATGCTT
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612420 16 +   9309688 TAATCATGGTATACTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431400 16 -  29834108 TAGCCATGGTATACTC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883278 16 -   1015025 TAGTCATGGTATACTC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905084 16 -   2295209 TAGTCATGGTATACTC
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5126610 16 +  13104022 TAATCATAGTACACCC
i proCoq1.NW_012140524v1    I 87 C 0
s otoGar3.GL873576            4600516 16 -  12054995 TTATCATAGTACACCC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444836 15 - 149736546 TAATCGCGCACTCCT-
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19755036 15 +  45876710 -AATCATGGCACATAC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             956973 16 -   1687904 GAATCATGGTGCTTGC
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3037528 103 +  31815103 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=1749319.000000
s hg38.chr12_GL383549v1_alt    119199 147 +    120804 AATA----TCCTTA-CCCCTAACAATTATCAGAAATGGAATTCATTCTCCAGACACAGA-CCAAGTTGAACTACATATATT-------AAATCAAAAGAAGAGGCCATTTGACTATCTAAGGAA-GGTTTAAG--------TAGCTTAAGGGACATATGGGTTATGTTT
s panTro5.chr12              62816230 147 + 137163284 AATA----TCCTTA-CCCCTAACAATGATCAGAAATGGAATTCATTCTCCAGACACAGA-CCAAGTTGAACTACATATATT-------AAATCAAAGGAAAAGGCCATTTGACTATCTAAGGAA-GGTTTAAG--------TAGCTTAAGGGACACATGGGTTATGTTT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934424 147 + 135337776 AATA----TCCTTA-CCCCTAACAATTATCAGAAATGGAATTCATTCTCCAGACACAGA-CCAAGTTGAACTACATGTATT-------AAATCAAAGGAAGAGGCCATTTGACTATCTAAGGAA-GGTTTAAG--------TAGCTTAAGGGACATATGGGTTATGTTT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3149874 151 -  32808036 AATATCCTTCCTTA-CACCTAACAATTATCAGAAATGGAATTCATTCTCCACACACAGA-CCAAGTTGAACTACATATATT-------AAATCAAAGGAAAAGGCCATTTGACTATCTAAGGAA-GGTTTAAG--------TAGCTTAAGGGACATATGGGTTATGTTT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336045 147 +  34552619 AATA----TCCTTA-CCTGTAACAATTATCAGAAATGGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACGTATATT-------AAATCAAAGGAAAAGGCCATTTGACTATCTAAGGAA-GGTTTAAG--------TAGCTTGAGGGACATATGGGTCATGTTT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647662 147 - 133663169 AATA----TCCTTA-ACCCCAACAATTACCAGAAACAGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATACATT-------AAATCAAAGGAAAAGGCCATTTGACTATGTAAGGAA-GGTTTAAA--------CAGCTTAAGGGACATATGGGTCATGTTT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109049875 147 - 137757926 AATA----TCCTTA-ACCCCAACAATTACCAGAAACAGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATACATT-------AAATCAAAGGAAAAGGCCATTTGACTATGTAAGGAA-GGTTTAAA--------CAGCTTAAGGGACATATGGGTCATGTTT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421322 147 -   7948249 AATA----TCCTTA-ACCCCAACAATTACCAGAAACAGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATACATT-------AAATCAAAGGAAAAGGCCATTTGACTATGTAAGGAA-GGTTTAAA--------CAGCTTAAGGGACATATGGGTCATGTTT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325627 147 -  10730278 AATA----TCCTTA-ACCCCAACAATTACCAGAAACAGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATACATT-------AAATCAAAGGAAAAGGCCATTTGACCATGTAAGGAA-GGTTTAAA--------CAGCTTAAGGGACATATGGGTCATGTTT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816555 147 - 128539186 AATA----TCCTTA-ACCCCAACAATTACCAGAAACAGAATTCATTCTCCAGACACGGG-CCAAGTTGAACTACATACATT-------AAATCAAAGGAAAAGGCCATTTGACTATGTAAGGAA-GGTTTAAA--------CAGCTTAAGGGACATATGGGTCATGTTT
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612436 142 +   9309688 AATA----TCCTTA-ACCCCAACAATTATCAGAAATAGAATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATATATT-------AAATCAAAGGAAAAGGCCATTTGACTATCTAAGGAA-GGTTTAAA-------------TAAGGGACATATGAGTCATGTTT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431416 147 -  29834108 AATA----TCCTTA-CCCCCGACAATGACCAGAAATAGGATACATTCTCCAGACACTGG-CCAAGTTGAACTACATATATT-------AAATTAAAGGAAAAGGCCATTTGATCATCGAAGGAA-GGTTTAAG--------TAGCTTAAGGGACATATGGGTCATGTTT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883294 147 -   1015025 AATA----TCCTTA-CCCTCAACAATGACCAGAAACAGGATTCATTCTCCAGACACTGG-CCAAGTTGAACTACATGTATT-------AAATCAAAGGAAAAGGCCATTTGATCATCTAAGGAA-GGTTTAAG--------TAGCTTAAGGGACATGTGGGTCATGTTT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905100 147 -   2295209 AATA----TCCTTA-CCCTCAACAATGACCAGAAATAGGATTCATTCTCCAGACACCGG-CCAAGTTGAACTACGTATATT-------AAATCAAAGGAAAGGGCCATTTGATCATCTAAGGAA-TGTTTAAG--------TAGCTTAAGGGACATATGGGTCATGTTT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037631 154 +  31815103 AATA----TCCTTA-CCCCCAACAATGAGCAGAAATAGTATTCATCCTCTAGACACTCG-CCAAGTTGAACCACCTATATCaaaaaaaaaaaaaaaggaaaaaGCCATTTGTTTATTTAAGGAA-GATTTAAG--------TAGCTTAAGGGACATATGAATCATCTTT
i micMur3.chr21             I 103 C 0
s proCoq1.NW_012140524v1      5126626 147 +  13104022 AATA----GCCTTA-CCCCCAACAATTAGCAGAAATAGTATTCATCCTCTAGACACTAG-CCAAGTTGAACTACCTATATC-------AAATCAAAGGAAAAAGCCATTTGTTAATCTAAAGAA-GATTTAAG--------TAGCTTAAGGGACATATGAATCATCTTT
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4600532 148 -  12054995 AAGA----TCCTTATCCCCCAACAGTTATCAAAAATAATATTCATCCCCTAGACACTGG-CCAAGTTGAACTACCTATATC-------AAATTAAAGGAAAAAGTCTTTTGGTCATGTAAGGGA-GATTTAAG--------TAGCTTAAGGGACAGGTGGATCACCTTT
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444851 142 - 149736546 GGCA----TCCTTT-CAGCCAATAATAGTTGAAAATTGGTTTTTCTCTCCAGATACTGG-CCTATTGGAACTACTT--AGC-------AAACCAATGGACCACGT-ATTTGCTTATCTAAGTAG-GACAGGAG--------TAGCTTAAAGGACATA--AGCCATGTTT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19755051 132 +  45876710 AATA----T-CTTA-----------------GAAATAGACTTCAACCTCCAGACAATGGACAAAGTTGAACTACCCTTCTC-------GGATCAAAGGAAAAGGCCACGTGGCTATTTAAGAAACGATATAAG--------TAGCTTAAGGAATAGATAAATCATATTT
i canFam3.chr27             C 0 I 1860
s dasNov3.JH562883             956989 150 -   1687904 GATA----GCCTTA-CTCCCAGCAACGGTTAGTTAGAGGATTCATTCTCCAGACCCTGG-TGACATGAAGCCACCTTC--C-------AAATCAAAAGA-TAGGCCATGTGGTTATCTAAGGA--GATTTAAGAACTGAAGGAGCGTAAGGAAC-TGTGGATCATGTCT
i dasNov3.JH562883          C 0 C 0
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=47403.000000
s hg38.chr12_GL383549v1_alt    119346 3 +    120804 CAC
s panTro5.chr12              62816377 3 + 137163284 CAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934571 3 + 135337776 CAC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150025 3 -  32808036 CAC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336192 3 +  34552619 CAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647809 3 - 133663169 CAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050022 3 - 137757926 CAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421469 3 -   7948249 CAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325774 3 -  10730278 CAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816702 3 - 128539186 CAC
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612578 3 +   9309688 CAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431563 3 -  29834108 CAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883441 3 -   1015025 CAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905247 3 -   2295209 CAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037785 3 +  31815103 CAC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5126773 3 +  13104022 CAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4600680 3 -  12054995 CAC
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2444993 3 - 149736546 TAC
i mm10.chr6                 C 0 I 1443
s dasNov3.JH562883             957139 3 -   1687904 CAC
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19755183 1860 +  45876710 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=34799.000000
s hg38.chr12_GL383549v1_alt    119349 3 +    120804 TTA
s panTro5.chr12              62816380 3 + 137163284 TTA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934574 3 + 135337776 TTA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150028 3 -  32808036 TTA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336195 3 +  34552619 TTA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647812 3 - 133663169 TTA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050025 3 - 137757926 TTA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421472 3 -   7948249 TTA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325777 3 -  10730278 TTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816705 3 - 128539186 TTA
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612581 3 +   9309688 TTA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431566 3 -  29834108 TTA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883444 3 -   1015025 TTA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905250 3 -   2295209 TTA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3037788 3 +  31815103 TTA
i micMur3.chr21             C 0 I 1065
s proCoq1.NW_012140524v1      5126776 3 +  13104022 TTA
i proCoq1.NW_012140524v1    C 0 I 5712
s otoGar3.GL873576            4600683 3 -  12054995 TTA
i otoGar3.GL873576          C 0 C 0
s dasNov3.JH562883             957142 3 -   1687904 GGA
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2444996 1443 - 149736546 I
e canFam3.chr27              19755183 1860 +  45876710 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=54255.000000
s hg38.chr12_GL383549v1_alt    119352 7 +    120804 GATTATa
s panTro5.chr12              62816383 7 + 137163284 GATTATa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934577 7 + 135337776 GATTATa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150031 7 -  32808036 GATTATa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336198 7 +  34552619 GATTATa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647815 6 - 133663169 GATTAT-
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050028 7 - 137757926 GATTATa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421475 7 -   7948249 GATTATa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325780 6 -  10730278 GATTAT-
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816708 7 - 128539186 GATTATa
i chlSab2.chr11             C 0 C 0
s colAng1.NW_012114364v1      3612584 7 +   9309688 GATTATa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431569 7 -  29834108 GATTATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883447 7 -   1015025 GATTATa
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905253 7 -   2295209 GATTATa
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4600686 7 -  12054995 AATCATA
i otoGar3.GL873576          C 0 I 1461
s dasNov3.JH562883             957145 7 -   1687904 AATAATA
i dasNov3.JH562883          C 0 I 1712
e mm10.chr6                   2444996 1443 - 149736546 I
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I
e proCoq1.NW_012140524v1      5126779 5712 +  13104022 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=88537.000000
s hg38.chr12_GL383549v1_alt    119359 35 +    120804 -----------------cacacacacacacacacacacaca----cacac------acaTAT
s panTro5.chr12              62816390 31 + 137163284 -----------------cacacacacacacacacacacaca----cacac----------at
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934584 29 + 135337776 -----------------cacacacacacacacacacacaca----caT------------AT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150038 37 -  32808036 -----------------cacacacacacacacacacacaca----cacacac----acaTAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336205 31 +  34552619 -----------------cacatacacacacacacacacaca----cacac----------ac
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647821 20 - 133663169 --------------------acacacacacacacacacat----------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050035 23 - 137757926 -----------------cacacacacacacacacacacat----------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421482 23 -   7948249 -----------------cacacacacacacacacacacat----------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325786 22 -  10730278 ------------------acacacacacacacacacacat----------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816715 35 - 128539186 -----------------cacacacacacacacacacacaca----cacacacaTAT------
i chlSab2.chr11             C 0 I 2
s colAng1.NW_012114364v1      3612591 33 +   9309688 -----------------cacacacacacacacacacacaca----cacacacat--------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431576 27 -  29834108 -----------------GAAacacacacacacacacacaca----GCC--------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883454 27 -   1015025 -----------------caaacacacacacagacacacaga----gcc--------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905260 31 -   2295209 -----------------caaacacacatgcatacacacacacacTGTC--------------
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4602154 44 -  12054995 TATACATCTTTCGGCTACACACACACACTCTCACACACACA----TAC--------------
i otoGar3.GL873576          I 1461 C 0
e mm10.chr6                   2444996 1443 - 149736546 I
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I
e proCoq1.NW_012140524v1      5126779 5712 +  13104022 I
e dasNov3.JH562883             957152 1712 -   1687904 I
e manLeu1.NW_012101287v1       212531 500 +    435186 M

a score=10500.000000
s hg38.chr12_GL383549v1_alt    119394 1 +    120804 C
s panTro5.chr12              62816421 1 + 137163284 c
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934613 1 + 135337776 C
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150075 1 -  32808036 C
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336236 1 +  34552619 c
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647841 1 - 133663169 c
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050058 1 - 137757926 c
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421505 1 -   7948249 c
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325808 1 -  10730278 c
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816752 1 - 128539186 C
i chlSab2.chr11             I 2 C 0
s manLeu1.NW_012101287v1       213031 1 +    435186 C
i manLeu1.NW_012101287v1    M 500 C 0
s colAng1.NW_012114364v1      3612624 1 +   9309688 c
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431603 1 -  29834108 C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883481 1 -   1015025 c
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905291 1 -   2295209 C
i aotNan1.NW_018488218v1    C 0 C 0
e otoGar3.GL873576            4602198 0 -  12054995 C
e mm10.chr6                   2444996 1443 - 149736546 I
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I
e proCoq1.NW_012140524v1      5126779 5712 +  13104022 I
e dasNov3.JH562883             957152 1712 -   1687904 I

a score=60810.000000
s hg38.chr12_GL383549v1_alt    119395 6 +    120804 ACACAT
s panTro5.chr12              62816422 6 + 137163284 acacaT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934614 6 + 135337776 ACACAT
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150076 6 -  32808036 ACACAT
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336237 6 +  34552619 acacaT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647842 6 - 133663169 acacaT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050059 6 - 137757926 acacaT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421506 6 -   7948249 acacaT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325809 6 -  10730278 acacaT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816753 6 - 128539186 ACACAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213032 6 +    435186 ACACAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612625 6 +   9309688 acacaT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431604 6 -  29834108 ACACAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883482 6 -   1015025 acacaT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905292 6 -   2295209 ACACAT
i aotNan1.NW_018488218v1    C 0 C 0
s mm10.chr6                   2446439 6 - 149736546 ACATGG
i mm10.chr6                 I 1443 C 0
e otoGar3.GL873576            4602198 0 -  12054995 C
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I
e proCoq1.NW_012140524v1      5126779 5712 +  13104022 I
e dasNov3.JH562883             957152 1712 -   1687904 I

a score=187214.000000
s hg38.chr12_GL383549v1_alt    119401 17 +    120804 CTTATAGA-TAATGTCTG
s panTro5.chr12              62816428 17 + 137163284 CTTATAGA-TAATGTCTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934620 17 + 135337776 CTTATAGA-TAATGTCTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150082 17 -  32808036 CTTATAGA-TAATGTCTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336243 17 +  34552619 CTTATAGA-TAATGTCTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647848 17 - 133663169 CTTATAGA-TAATGTCTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050065 17 - 137757926 CTTATAGA-TAATGTCTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421512 17 -   7948249 CTTATAGA-TAATGTCTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325815 17 -  10730278 CTTATAGA-TAATGTCTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816759 17 - 128539186 CTTATAGA-TAAAATCTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213038 17 +    435186 TTTATAGA-TAATGTCTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612631 17 +   9309688 CTTATAGA-TAATGTCTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431610 17 -  29834108 CTTATAGA-TAATGTCTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883488 17 -   1015025 CTTATAGA-TAATGTCTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905298 17 -   2295209 CTTATAGA-TAATGTCTG
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4602198 16 -  12054995 --TATATACTAATGCCTA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2446445 16 - 149736546 TTTATAAA-GGGTG-CTG
i mm10.chr6                 C 0 I 1
s dasNov3.JH562883             958864 17 -   1687904 cctataaa-gaatgcctg
i dasNov3.JH562883          I 1712 C 0
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I
e proCoq1.NW_012140524v1      5126779 5712 +  13104022 I

a score=240515.000000
s hg38.chr12_GL383549v1_alt    119418 21 +    120804 GCATATAGTAAATTGTTGTTG---------------------
s panTro5.chr12              62816445 21 + 137163284 GCATATAGTAAATTGTTGTTG---------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934637 21 + 135337776 GCATATAGTAAATTGTTGTTG---------------------
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150099 21 -  32808036 GCATATAGTAAATTGTTGTTG---------------------
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336260 21 +  34552619 GCATATAGTAAATTGTTGTTG---------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647865 21 - 133663169 ACATATAGTAAATTGTTGTTG---------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050082 21 - 137757926 ACATATAGTAAATTGTTGTTG---------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421529 21 -   7948249 ACATATAGTAAATTGTTGTTG---------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325832 21 -  10730278 ACATATAGTAAATTGTTGTTG---------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816776 21 - 128539186 ACATATAGTAAATTGTTGTTG---------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213055 21 +    435186 ACATATAGTAAATTGTTGTTG---------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612648 21 +   9309688 ACATATAGTAAATTGTTGTTG---------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431627 21 -  29834108 GCACATAGTAAATTGTTGTTA---------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883505 21 -   1015025 GCACATAGTAAATTGTTGTTA---------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905315 21 -   2295209 GCACATAGTAAATTGTTGTTA---------------------
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5132491 21 +  13104022 GCATATAGTAAATGGTTGCTA---------------------
i proCoq1.NW_012140524v1    I 5712 C 0
s otoGar3.GL873576            4602214 21 -  12054995 GCATATAGTAAGTTGTTGCTA---------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2446462 21 - 149736546 GGGTTTAATAACCTGCTATTG---------------------
i mm10.chr6                 I 1 C 0
s dasNov3.JH562883             958881 42 -   1687904 gtacacaggaagttgtcatcgttgttgttgttattattATTA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3037791 1065 +  31815103 I
e canFam3.chr27              19755183 1860 +  45876710 I

a score=215467.000000
s hg38.chr12_GL383549v1_alt    119439 17 +    120804 CCATCAAAAGTACATGA
s panTro5.chr12              62816466 17 + 137163284 CCATCAAAAGTACATGA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934658 17 + 135337776 CCATCAAAAGTACATGA
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150120 17 -  32808036 CCATCAAAAGTACATGA
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336281 17 +  34552619 CCATCAAAAGTACATGA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647886 17 - 133663169 CCACCAAAAGTACCTGA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050103 17 - 137757926 CCACCAAAAGTACCTGA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421550 17 -   7948249 CCACCAAAAGTACCTGA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325853 17 -  10730278 CCACCAAAAATACCTGA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816797 17 - 128539186 CCACCAAAAGTACCTGA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213076 17 +    435186 CCACCAAAAGTACCTGA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612669 17 +   9309688 CCACCAAAAGTACATGA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431648 17 -  29834108 CCACCAAAAGTAAATGA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883526 17 -   1015025 CCAACAAAAGTAAATGA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905336 17 -   2295209 CCACCAAAAGTAAATGA
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3038856 17 +  31815103 CCACCAAAGGTAAATGA
i micMur3.chr21             I 1065 C 0
s proCoq1.NW_012140524v1      5132512 17 +  13104022 CCACCAAATGTAAATGA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4602235 17 -  12054995 CCACCAAAGGTAAATGA
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2446483 17 - 149736546 TCAGCAAAGACATATGA
i mm10.chr6                 C 0 C 0
s dasNov3.JH562883             958923 17 -   1687904 CCTCCAGAGGAAAATCA
i dasNov3.JH562883          C 0 C 0
e canFam3.chr27              19755183 1860 +  45876710 I

a score=643261.000000
s hg38.chr12_GL383549v1_alt    119456 47 +    120804 AGAGTTTGGGAGTAAGAATCAGTCACTT-CGGGAAAATTCTCTTGGTG
s panTro5.chr12              62816483 47 + 137163284 AGAGTTTGGGAGTAAGAATCAGTCACTT-CGGGAAAATTCTCTAGGTG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934675 47 + 135337776 AGAGTTTGGGAGTAAGAATCAGTCACTT-CGGGAAAATTCTCTAGGTG
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150137 47 -  32808036 AGAGTTTGGGAGTAAGAATCAGTCACTT-CGGGAAAATTCTCTAGGTG
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336298 47 +  34552619 AGAGTTTGGCAGTAAGAATCAGTCACTT-GGGGAAAATTCTCTAGGTG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647903 47 - 133663169 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAGAAATTCTCTAGGTG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050120 47 - 137757926 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAAAAATTCTCTAGGTG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421567 47 -   7948249 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAAAAATTCTCTAGGTG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325870 47 -  10730278 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAAAAATTCTCTAGGTG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816814 47 - 128539186 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAAAAATTCTCTAGGTG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213093 47 +    435186 AGAGTTTGGAAGTAAGAATCAGTCACTT-GGGAAAAATTCTCTAGGTG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612686 47 +   9309688 AGTGTTTGAAAGTAAGAATCGGTCACTT-GGGAAAAATTCTCTAGGTG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431665 47 -  29834108 AGAATTTGGAAGTAAGAATCAGTCACTT-GGGGAAAATTCTCCAGGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       883543 47 -   1015025 AGAATTTGGAAGTAAGAATCAGTCACTT-GGGGAAAATTCTCTAGGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1905353 47 -   2295209 AGAATTTGGAAGTAAGAATCAGTCACTT-GGGGAAAATTCTCTAGGTG
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3038873 48 +  31815103 AGAGTTTGGAGGTAAGAATCAATCACTTGGGGGAAAATTCTCTATGCA
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5132529 47 +  13104022 AGAGTTTGGAGGTAAGAATCAATCACTT-GGGAAAAATTCTCTATGCA
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4602252 47 -  12054995 AGAATTTGGAGGTAAGAATCAATCACTT-GGGGGAAATTCTCTATTGA
i otoGar3.GL873576          C 0 I 278
s mm10.chr6                   2446500 19 - 149736546 ACACTTTGGAAGCAAGAGA-----------------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757043 48 +  45876710 AAAGCGTGGACATAAGAATCAGTCATTTTGGGGGAAATCCTCTAGACA
i canFam3.chr27             I 1860 C 0
s dasNov3.JH562883             958940 46 -   1687904 AGAGTTTGGAAGTGAGAATCAGTCACGT-GGGAGAAATGCCGTTGGC-
i dasNov3.JH562883          C 0 C 0

a score=494777.000000
s hg38.chr12_GL383549v1_alt    119503 41 +    120804 AAGAAAAAAATAATCCT-AAAAAAGCAAAGACTGAATGGAGC
s panTro5.chr12              62816530 41 + 137163284 AAGAAAAAAATAATCCT-AAAAAAGCAAAGACTGAATGGAGC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934722 41 + 135337776 AAGAAAAAAATAATCCT-AAAAAAGCAAAGACTGAATGGAGC
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150184 41 -  32808036 AAGGAAAAAATAATCCT-AAGAAAGCAAAGACTGAATGGAGC
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336345 41 +  34552619 AAGAGAAAAATAATCCT-AAAAAAGCAAAGATGGAATGGAGC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647950 41 - 133663169 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGGAGC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050167 41 - 137757926 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGGAGC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421614 41 -   7948249 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGGAGC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325917 41 -  10730278 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGGAGC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816861 41 - 128539186 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGAAGC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213140 41 +    435186 AAGAAAAACATAATCCT-AAAAAAGTAAAGACTGAATGGAGC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612733 41 +   9309688 AAGAAAAAAATAATCCT-AAAAAAGTGAAGACTGAATGGAGC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431712 41 -  29834108 AAGAAAAAAAAAGTCCT-AAAAAAGCAAAGGCTGAATGGAAC
i saiBol1.JH378123          C 0 I 148
s cebCap1.NW_016107911v1       883590 41 -   1015025 AAGAAAAAAAAAATCCT-AAAACAGCAAAGACTGAATGGAAC
i cebCap1.NW_016107911v1    C 0 I 161
s aotNan1.NW_018488218v1      1905400 40 -   2295209 AAGAAAAAAAAA-TCCT-AAAAAAGCAAAGACTGAATGGAAC
i aotNan1.NW_018488218v1    C 0 I 154
s micMur3.chr21               3038921 42 +  31815103 AAGAGAAAAATAATCCTAAAAAAAGCAAAAGTTGAACGGAGC
i micMur3.chr21             C 0 C 0
s proCoq1.NW_012140524v1      5132576 41 +  13104022 AAGAGAAAAATAATCCT-AAAAAAGCAAAAGCTGAACAGAGC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4602577 37 -  12054995 aaaagaaaaaGAA-CCT-AAAAAAGTGAAGATTAACT---GC
i otoGar3.GL873576          I 278 C 0
s mm10.chr6                   2446519  7 - 149736546 ---------------------------------GAATGGA--
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757091 40 +  45876710 AAAAGAAAAATAATCCT-AGAAAA-CATTGATTGAACAGATC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             958986 41 -   1687904 AAGAGAAAAATAATCCT-AGGAAAGCAGGGACTGAACCAGGC
i dasNov3.JH562883          C 0 C 0

a score=6254965.000000
s hg38.chr12_GL383549v1_alt    119544 471 +    120804 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTACGCAATGTTCCCACCACAGGTACATGTGGTAAATGCTCTTCCTTGG-CCCCTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTGGAGTCTGGAGAAGGAGAGCTGTCTACTCATGTCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGTGctggccaaggaaaaacaaaaagtattct--gagtgagctcctgagagagacttttctttctagataaagagaa-gagcccttgactcttcatcttgccttgcatgtgaatgtgatgcctgaagctgtgtcagtgttacgcaaacatggagttataagcatgaggaag-aaagcaag----cgtgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccgatgccagcaaacacctaa
s panTro5.chr12              62816571 470 + 137163284 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTACGCAATGTTCCCACCACAGGTACGTGTGGTAGATGCTCTTCCTTGG-CCCCTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTGGAGTCTGGAGAAGGAGAGCTATCTACTCATGTCCCCAGAC-TTCTTGCCTGCAGTGTAAAATGCCAAGTGctggccaaggaaaaacaaaaagcattct--gagtgagctcctgagagagacttttctttctagataaagagaa-gagcccttgactcttcatcttgccttgcatgtgaatgtgatgcctgaagctgtgtcagtgttacgcaaacatggagttataagcatgaggaag-aaagcaag----cgtgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60934763 470 + 135337776 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTACGCAATGTTCCCACCACAGGTACGTGTGGTAGATGCTCTTCCTTGG-CCCCTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTGGAGTCTGGAGAAGGAGAGCTATCTACTCATGTCCCCAGAC-TTCTTGCCTGCAGTGTAAAATGCCAAGTGctggccaaggaaaaacaaaaagcattct--gagtgagctcctgagagagacttttctttctagataaagagaa-gagcccttgactcttcatcttgccttgcatgtgaatgtgatgcctgaagctgtgtcagtgttaggcaaacatggagttataagcatgaggaag-aaagcaag----cgtgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150225 470 -  32808036 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTACGCAATGTTCCCACCACAGGTACGTGTGGTAGATGCTCTTCCTTGG-CCCCTTAAAAATCATTTCCAATC----------------CACTTCTCACTGGACACCTCCCACTATGGAGTCTGGAGAAGGAGAGCTATCTACTCATGTCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGTGctggccaaggaaaaacaaaaagtattct--gagtgagctcctgagagagacttttctttctagatagagagaa-gagcccttgactcttcatcttgccttgcgtgtgaatgtgatgcctgaagctgtgtcagtgttacgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaa-caatgccagcaaacacctaa
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336386 471 +  34552619 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTATGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTTTTCCTTGG-CCCCTTAAAAATCATTTCCAATC----------------CCCTTCTCACAGGACACCTCCCACTGTGGAGTCTGGAGAAGGAGAGCTATCTACTCGTGTCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGTGctggccaaggaaaaacaaaaagtattct--gagtgagctcctgagagagaattttctttctagataaagagaa-gagcccttgactcttcatcttgccttgcatgtgaatgtgatgcctgaagctgtgtcaatgttacgcaaacatggagttacaagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104647991 465 - 133663169 AAAAGAGGGTAGATGTCTCCTTCTTGGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTCCTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagagagatttttctttctagataaagagag-gagcccttgactcttcatcttgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttacgcaaacatggagttataagcatgaggaag-aaagcgag----cgtgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050208 465 - 137757926 AAAAGAGGGTAGATGTCTCCTTCTTGGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTCCTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagagagatttttctttctagataaagagag-gagcccttgactcttcatcttgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttacgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1421655 465 -   7948249 AAAAGAGGGTAGATGTCTCCTTCTTAGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTCCTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAATGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagagagatttttctttctagataaagagag-gagcccttgactcttcatcttgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttacgcaaacatggagttataagcatgaggaag-aaagcgag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8325958 465 -  10730278 AAAAGAGGGTAGATGTCTCCTTCTTGGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAAATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTACTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAACACCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagggagatttttctttctagataaagagag-gagcccttgactcttcatcttgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttatgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100816902 481 - 128539186 AAAAGAGGGTAGATGTCTCCCTCTTGGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATCATTGGAAAAAATCATTCCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTACTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAACGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagagagatttttctttctagataaagagag-gagctcttgactcttcatcttgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttacgcaaacgtggagtcataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213181 465 +    435186 AAAAGAGGGTAGATGTCTCTTTCTTGGACATTA-TCCAGGCTGCGCAATGTTCCCACCACAGGTATGTGTGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTACTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAACGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagggagatttttctttctagataaagagag-gagcccttgactcttcatctcgccttgcatgagaatgtgatgcctgaagctgtgtcaatgttacgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctggatccttgagggctctgcagagctactgaaccaatgccagcaaacacctaa
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3612774 461 +   9309688 AAAAGAGGATAGATGTCTC---CTTGGACATTA-TCCAGGCTGCACAATGTTCCCACTACAGGTATGTATGGTAGATGCTCTTCCTTGG-CCACTTAAAAATCATTTCCAATC----------------CCCTTCTCACTGGACACCTCCCACTGTG------GGAGAGGGAGAGCTATCTACTCATGGCCCCAGACTTTCTTGCCTGTAGTGTAAAACGCCAAGttctggccaaggaaaaacaaaaagtattct--gagggagctcctgagagagatttttctttctagataaagagag-gagcccttgactcttcatattgccttgaatgtgaatgtgatgcctgaagctgtgtcaatgttatgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaataacctgaatcc-tgagggctctgcagagctactgaaccaatgccagtaaacacctaa
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11431901 465 -  29834108 aaaaGAGGGTAAATGTTTCCCTCTTGGACATTA-TCTGGGCTACCCAATGTTCCCACCACAGATACATGTGGTAGATGCTCTT-CTTGG-CCACTGAAAAATCATTTCCAATC----------------CCCTTCTCACTGGATACCTCCCACTATGGAGTCTGGAGAGGGAGAGCTATCTACTGTTGTCCCCAGACTTTCTTGCCTCTAGTGTAAAATGCcaag-tctggccaaggaaaaacaaaaagtattct--gagggagctcct----gagatttttctttctagataaaaagag-gagcccttgacacttaatcttgccttgcatgtgaatatgatgcctgaagctgtgttgactttatgcaaacatggagttataaccataaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagaaatcacctggatccttcatggctctgcagagctactgaaccaatgccagcaaacacctaa
i saiBol1.JH378123          I 148 C 0
s cebCap1.NW_016107911v1       883792 466 -   1015025 AAAAGAGGGTAAATGTCTCCCTCTTGGACATTA-TCTGGGCTACGCAACGTTCCCACCACAGATACATGTGGTAGATACTCTTCCTTGG-CCACTGAAAAATCATTTCCAATC----------------CTCTTCTCACTGTACACCTCCCATTATGGAGTCTGCAGAGGGAGAGCTACCTACTCTTGTCCCCAGACTTTCTTGCCTCTAGTGTAAAATGCcaag-tctggccaaggaaaaacaaaaagtattct--gagggagctcct----gagatttttctttctagataaagagag-gaacccttgacacttcatcttgccttgcatgtgaatgtgatgcctgaagccgtgttgactttatgcaaacatggagttataagcatgaggaag-aaagcaag----catgtgaggatggtgaaagataaagggagagatcacctggatccttcatggctctgcagagctactgaaccaatgccagcaaacacctaa
i cebCap1.NW_016107911v1    I 161 C 0
s aotNan1.NW_018488218v1      1905594 467 -   2295209 aaaaGAGGGTAGATGTCTCCCTCTTGGACATTA-TCTGGGCTATGTAATGTTCCCACCACAGATACATGTGGTAGATGCTCTTCCTTGG-CCACTGAAAAATCATTTCCAATC----------------CCCTTCTCACTGGATACCTCCCACTATGGAGTCTGGAGAGGGAGAGCTATCTACCCTTGTCCCCAGACTTTCTTGCCTCTAGTGTAAAATGCCAAGttctggccaaggaaaaacaaaaggtattct--gagggacctcct----gagatatttctttctagataaagagag-gagcccttgacacttcatcttgccttgcatgtgaatgtgatgcctgaagctgtgtcgactttatgcaaacatggagttataaacatgaggaag-aaagcaag----catgtgaggacggtgaaagataaagggagaaatcccctggatccttcatggctctgcagagctactgaaccaacgccagcaaacacctaa
i aotNan1.NW_018488218v1    I 154 C 0
s micMur3.chr21               3038963 463 +  31815103 AGGAAAAGGTGGAAGTCTCCCTCTTGGACATTA-TCTGGGCTGGACAGTG-TCCCATGACAGGCACGTATGGCTGATGCTTTTCCTTGAGGGACTTAAAAATCACTCCTAAGC----------------CCCTTCTCACTGGCCACCTCCCACTATGGAGCCT------GGAGAGCTATCTACTCATGTTCCTAGACTTCCTTGCCACTAGGGTAAAATGCCAAGTTCTGGCTGAATAAAAACAAAAAGTCTACA--GAGGGAGCTCCTGGGAGAGATTTTTCTTTCTAGATAAAAAGAC--AGTCCTTCACTCTTCATCTCCCCttctatgtgaatgtaacgcctgaagcggtgccagctctatgcaaacagagggttacaagccgcaggaag--aagcaag----cacatgaggatggtgaaagataaggggagaaacaactgggatccttgatgactctgcagagctactgaaCCAATGCCAGCAAATGCCTAA
i micMur3.chr21             C 0 I 29
s proCoq1.NW_012140524v1      5132617 462 +  13104022 AGGAGAAGGTGGAAGTCTCCCTCTTGGACATTA-TCTGGGCTGGACAGTG-TCCCAAGACAGGCATGTGTGGCAGAGGCTTTTCCTTGA-CAACTTAAAAATCACTCCCATTC----------------CCCTTCTCACTGGCCACCTCCCACTAAGGAGTCT------GGAGAGATATCTACTCACATTCCCAGACTTCCTTACCACTAGGGT-AAATGCCAAGTTCTGTCTGAATAAAAACAAAAAGTATACT--GAGGAAGCTCCCAGGAGAGATTTTTCTTTCTAGATAAAAAGAC--AGTCCTTCACTCTTCATCTCTCCTGGCATGTCAatgtgatgcctgaagctgcgtgagctttatgcaaacatagagttacaagcaggaggaag-aaagcaag----cacaggaggatggtggaagataaggggagaaacaaccaagatccttgatgactctgcagagctacggaaccaatgccagcaaacacctga
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4602614 451 -  12054995 AGCAGAGGGCAGCAATCTCCCTTTTGGACATTA-TCTGGGCTGGACAGTG-CCCCGCAACAGGCGTGCGTGATAGATGCTTTTCCTCGA-TAAC--AAAAATCACTCTGAGTC----------------CCC-TCTCCCTGGACACCTCCCAGTATGGAGCCT------GAAGAGCTGTCTCCTCATGTTCCCAGACTTCCTCACCACGAGGATAAAATGCCAACTTCTGGTTGAGGAAAAACAAAaagtcttct--gagggagctcctgggagagatttttctttctagataaaaa-----------tccttccccatgttgcctcgagtgtgcatgtaatgcctgaagctgtgtcagctttatgcaaacatggggttgcaagcatgaggcag-aaagcagg----cctcggaggatggtgagagataaagggagaaataaccaagatccctgatggctctgcagagcgactgaaccaatgccagcaaacacctaa
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2446526 429 - 149736546 --AGGGGGAGGGGTGTTACCCTCTGTGATGTCA-TCGAGGCCTGGCAGGCTTC-----AGTGGACCATGTGGAAGATGTCTTTCCTCAC-CTATTCAGAGACCACCC----TT----------------ACCCTCTTAC-AGACATCTCCTACTAAG-----------AGGA----------TTCATGT-CTCATACTTCCTCACAGGTGG-GTAGGATGGTGAGCTCTAGCCAAGAAAAAAAAAAAAAAAGTCTCCCAGAAAGCTTATGGGAG-----TCTCTGCTCAGATAAA-AGAT-GAGTCCTTCACTCTTCGTGTAGCCTTGAATGTGAGGATGATGCCCGAGGCCATGTTGGCTTTATGCAAACATGAAGTTATAGGTAAGAGGAAG-AAAGCACATGCCTATGTGAGGCTGGTG-AAGATAAAGCAAAGACAAGCATAGTTCC-TGATGGCTCTGCAG-----TTGAACCAATGCCAGCAAAAAGCTAA
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757131 457 +  45876710 AAAAGAGGGTGGAATGCTTCCTCTTGGACATCATTTTGGGCTGAGCCATGTTCCTACAACAGCCATATGTAGTAGATGCTGTTTCTTGG-CTGTTTAAAAACCACTCTAGGTC----------------CCCTTCTCACTAGCCACTTCCCGCGAAC--GTCT------GGAGAGCTATCTATTCACAttcccaggcttccttgcagctggggtagaatgccaagttctggccaaggaaaaacaatatgtcttc---gagggagctcctgggagagatttttctttccagataaaaaaaatgaacccttcattcttcatctttccttaaatgtgaatgtgatgcctgaagctgtgttggctttattcaaa------gttataagtatgaggaaa-aaaacaag----catatgaggatggtggaagataaagataggaacaatctgaatccttggtggc-atgcagagctactgaaccgttgccagcgaacacctaa
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             959027 371 -   1687904 AACAGTAGGTGGA-GTCTCCCACTGGCACATCC---------------------CACAACAGGCTTATGTGGGAGAGG-GGTTCCTTGG-CCATCCCAGAGCCGTGCCCACCC----------------CACTTCTCACCGGCC-CCTTCCACAGGA-------------------------CTCACTCCCCCAGGCATCCTTGCAGCTGCTGC-AGATGCCAAATTCTGACCAAGGA-----CACAAGTCTACC---AATGGGCTCTTGGAAGAAACTTTTCTTTCTAGTTAAAAAGAC-AGGCCCTACACCTTCCCTCTTGCCTCC-----------------------------------------ACCAAAAGTTACAAGTTTGAGGAAGAAAAGCAAA----C-TGTTAGG-TGGTGGAAGATAAAGCTAGAAGTAACCCGGGTCC-TGACGGC--GACAGGACTGCTAGGCCTACGCCAGCAAGCACGTAT
i dasNov3.JH562883          C 0 C 0

a score=350344.000000
s hg38.chr12_GL383549v1_alt    120015 30 +    120804 -ctcaaga-ttcttgtaatgagaggcaaaaat
s panTro5.chr12              62817041 30 + 137163284 -ctcaaga-ttcttgtaatgagaggcaaaaat
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935233 30 + 135337776 -ctcaaga-ttcttgtaatgagaggcaaaaat
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150695 30 -  32808036 -ctcaaga-ttcttgtaatgagaggcaaaaat
i gorGor5.CYUI01000003v1    C 0 C 0
s nomLeu3.chr23               7336857 30 +  34552619 -ctcaaga-ttcttgtaatgaggggcaaaaat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648456 30 - 133663169 -ctcaaga-ttcttgtaatgagaggcaaaaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050673 30 - 137757926 -ctcaaga-ttcttgtaatgagaggcaaaaat
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422120 30 -   7948249 -ctcaaga-ttcttgtaatgagaggcaaaaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326423 30 -  10730278 -ctcaaga-ttcttgtaatgagaggcaaaaat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817383 30 - 128539186 -ctcaaga-ttcttgtaatgagaggcaaaaat
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213646 30 +    435186 -ctcaaga-ttcttgtaatgagaggcaaaaat
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613235 30 +   9309688 -ctcaaga-ttcttgtaatgaaaggcaaaaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432366 31 -  29834108 -ctcaagatttcttgtaacgagaggcaaaaat
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884258 31 -   1015025 -ctcaagatttcctgtaatgagaggcaaaaat
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906061 31 -   2295209 -ctcaagatttcttgtaatgagaggcaaaaat
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133080 28 +  13104022 -tccaaat-ttctagtcaggagaggcaaaa--
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4603066 29 -  12054995 -tccacgt-ttgctgtcatgagaggcaaaaa-
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2446955 30 - 149736546 -GACGGGC-TTCTTCTTATGCAAGGCAAAAAA
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19757589 30 +  45876710 -ttcagat-ttcttgttaggagagaggaaaaa
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             959398 31 -   1687904 CTTCAAGG-GGCTTGTTGTAAGAGGGGAAAGT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3039426 29 +  31815103 I

a score=3961039.000000
s hg38.chr12_GL383549v1_alt    120045 280 +    120804 -agcacctattgtttaatctactgttaatcagattttgttgt---ttgTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGTATGTTATTCACAGGCTTT--TATTTATATGCATATGGAGAAGTCACATCAATGCTTGCTTTGTGTCCCATCAGTTTTGATCATGAGTCCCTCACACTCTGGAGCTGCACAAAATTGGATACTTACCAGCGGcacctggagatcttgt---------------------aaggaatagtgattcctggaactaatacccag-aaatattgcttcagtagatca
s panTro5.chr12              62817071 283 + 137163284 -agcacctattgtttaatctactattaatcagattttgttgtttgTTGTTGTTGTTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTTGCTTTGTGTCCCATCAGTTTTAATCATGAGTCCCTCACACTCTGGAGCTGCAcaaaattggatacttaccagcggcacctggagatcttgt---------------------aaggaatagtgattcctggaactaatacccag-aaatactgcttcagtagatca
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935263 283 + 135337776 -agcacctattgtttaatctactattaatcagattttgttgtttgTTGTTGTTGTTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTTGCTTTGTGTCCCATCAGTTTTAATCATGAGTCCCTCACACTCTGGAGCTGCACAAAATTGGATACTTACCAGCGGcacctggagatcttgt---------------------aaggaatagtgattcctggaactaatacccag-aaatactgcttcagtagatca
i panPan2.chr12             C 0 C 0
s gorGor5.CYUI01000003v1      3150725 283 -  32808036 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACG--TCTATCAGATATGGTATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTTGCTTTGTGTCCCATCAATTTTAATCATGAGTCCCTCACACTCTGGAGCTGCAcaaaattggatacttaccagcggcacctggagatcttgt---------------------aaggaatagtgattcctggaactaatacccag-aattattgcttcagtagatca
i gorGor5.CYUI01000003v1    C 0 N 0
s nomLeu3.chr23               7336887 283 +  34552619 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTTGCTTCCTGTCCCATCAATTTTAGTCATGAGTCCCTCACACTCTGGAGCTGCAcaaaattggatacttaccagcagcacctggagatcttgc---------------------aagaaatagtgattactggaacgaatacccag-aaacattgcttcagtagatca
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648486 283 - 133663169 -ggcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAGCTACAcaaaattggatacttaccagcagcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccag-aaacattgcttcggcagatca
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050703 283 - 137757926 -ggcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAGCTACAcaaaattggatacttaccagcagcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaacattgcttcggcagatca
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422150 283 -   7948249 -ggcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAGCTACAcaaaattggatacttaccagcagcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaacattgcttcggcagatca
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326453 283 -  10730278 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCACGTTATTCACAGGCTTT--TATTTATATGCATGTGGAAAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAGCTACAcaaaattggatacttaccagcaacacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaatattgcttcggcagatca
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817413 283 - 128539186 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAACTACAcaaaattggatacttatcagcagcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaatattgcttcggcagatca
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213676 283 +    435186 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAAAAGTCACATCAATGCTCGCTTCATGTCCCTTCAATTTTAATCATGAGTCCCTCATACTCTGGAGCTACACAAAATTGGATACTTACCAGCCAcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaatattgcttcggcagatca
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613265 283 +   9309688 -agcacctattgtttaatctactgttaatcagattttgttgtttgTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATACGGCATGTTATTCACAGGCTTT--TATTTATATGCATGTGGAGAAGTCACATCAATGCTCGCTTCATGTCCCTTCAGTTTTAATCATGAGTCCCTCATACTCTGGAGCTACAAAAAAttggatacttaccagcagcacctggagatcttgt---------------------aagaaatagtgattactggaactaatgcccgg-aaatattgcttcagcagatca
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432397 282 -  29834108 -agtacccattgtttaatctactgttaatcagattttGTT-TTTGTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAAGCTTT--TATCTATCCGCATGTGGGGAAGTCACATCAATGATTGCTTTGTGTCCCATCAGTTTTAATCATGAGTCCTTCATACTCTGGAGCTGCACAAAATTGGATACTTACcagcaacacctggagatcttgt---------------------aagaaatagagattactagaactattacccag-aaatattgcttcagtaggtca
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884289 282 -   1015025 -agcacctattgtttaatctactgttaatcagattttGTT-TTCGTTGTTGTTGCTTGCCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAAGCTTT--TATCTATCTGCATGTGGGGAAGTCACATCAATGATTGCTTTGTGTCCCATCAGTTTTAATCATGAGTCCTTCATACTCTGGAGCTGCACAAAATTGGATACTcaccagcaatacctggagatcttgt---------------------aagaaatagagattactggaactaatacccag-aaagattgcttcagtaggtca
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906092 279 -   2295209 -agcacctattgtttgatctactgttaatcagattttGTT-T---TTGTTGTTGCTTGGCCCAAAAATACA--TCTATCAGATATGGCATGTTATTCACAAGCTTT--TATCTGTCTGCATGTGGGGAAGTCACATCAATGATTGCTTTGTGTCCCATCAGTTTTAATCATAAGTCCTTCATACTCTGGAGCTGCACAAAATTGGATACTTACcagcaacacctggagatcttgt---------------------aagaaatagagattactggaactaatacccag-aaatattgtttcagtagatca
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3039455 274 +  31815103 -AGCACCTATTGTTCAATCTACTGTTAATCAGAC---------TGTTGTTGTTGCTTGCCCC-AAAGCACT--TCTATCAGATACGGCACGTTATGCACAGGCTTTTGTATGCATATGCACGTGAAGAATTCATACCAATGCTTGCTTCCTGTCTCATCAATTCTAATAGTGAGTTCCTCACACTCCAGCGCTGGAcaatactggatacttatcagaatcactgggagatctttt----------------------aagaaaagagattactggaactaatactaag-aaatattgtttcagtagatca
i micMur3.chr21             I 29 I 23
s proCoq1.NW_012140524v1      5133108 305 +  13104022 -agcacctattgtttaatctactgttaatcgggctttgttgt-tgttgatgttgcttgccccgaaagcact--tctatcagatataGCATGTTATGCACAGACTTTTGTATGCATATGCATGTGAAGAATTCATACCAATGCTTGCTTCGTGTCTCATCAATTCTAATAGTAAGTCCCTCACACTCtggtgctgaacaatactggatatttatcagaatcacctggagatcttttaaaaaaagagattactggaaaaaaaaaaagagattactggaactaatactcag-aaatattgttttagtagatca
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4603095 274 -  12054995 -agcacctattgtttaaTCTACCATTCATCAGATTTCGTTGT-TGCTGTTCTTGCTTGCCCTCCATGTCCTTCTCTATCAGATAGGGCATGTTACGCACAGGCTTC--TCTGCACATGCATGCGGAGAATTCATATCAATGC-TGCTTTGTGTCCCATCAATTCTAACAATGAGTCCCCTACCCTCCAGTGCTGAATAAAATTGGATACTTATCAGATT----------TCTTTT--------------------TAAGAAATAGATACTACTAGAACTAATACTCAGAAAATGTTGTTTCAGGAGATC-
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2446986 277 - 149736546 -AGCCCCTATTGTTCAATCTACCATCAATCAAACTTTCGT---TATTGTTGCTGCTTG-CTCAAAAGCACC--TCCATCAGATACAGCGTATTCTTCATGGGCCTT--GCATTG-ATGATTGTGAAGAACACACATC-CCATTCGCTGCATTTCCCAGCCGTCCTGATACTGAGTCCCGCACACCCTCCAGGTGCACAAAATTGGATACTTATCAGGATCACTTGGAGGTCCTTT---------------------AAAACATGGAGATAGTTGAGACAAATGTACAG-AAATGTTGTTTCAGACAAGGA
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19757619 270 +  45876710 -agcacctattgtttaatctactattaatcagatttt--------ttgttgttgcttgccctgagagcatt--tctatcagatacGGCATGTTATTCAGAGTCTTT--T-TGTATATGCTTGTGGAGAATTAACATCAGT----GCTTCACATCCCATCAGTTCTAATAAGAAGTTCTTCATACTCTagtgctgcacaaaattgaatactaatcagaatcacctggacatctttt---------------------aagaaataaagattattggaactgatacccag-gaatattgtctcagcagatca
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959429 265 -   1687904 AAGC------------ATCTGGTGCTAATCAGAGAGTTTT-----TTGTTGCTACTTG-CCCAAAAGCATC--TCTACCAGATGCAGCATATTATTTATAGACTTT--TATGTCTGTGTATG-GGGAAATTAATATCAGTGTTAGCTTGGTGTCCCATTGGTTCTAACAATCCATCCTTCTTACTCcagtgctgcacaaagttggacaattaccaggaccacctggcaatctttt---------------------aagaaatacagattactggaacctatacccag-aagtactgcttcagtacatca
i dasNov3.JH562883          C 0 C 0

a score=213996.000000
s hg38.chr12_GL383549v1_alt    120325 21 +    120804 gaagtgcaatctgATGTGGTG
s panTro5.chr12              62817354 21 + 137163284 gaagtgcaatctgatgtggtg
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935546 21 + 135337776 gaagtgcaatctgATGTGGTG
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337170 21 +  34552619 gaagtgcaatctgatgtggtg
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648769 21 - 133663169 gaagtgcgatctgatgtggta
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109050986 21 - 137757926 gaagtgcgatctgatgtggta
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422433 21 -   7948249 gaagtgcgatctgatgtggta
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326736 21 -  10730278 gaagtgcgatctgaTGTGGTA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817696 21 - 128539186 gaggtgcgatctgatgtggta
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213959 21 +    435186 gaagtgcgatctgatgtggta
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613548 21 +   9309688 gaagtgcgatctgatgtggta
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432679 21 -  29834108 gaagtgtgagctgagGTCGTG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884571 21 -   1015025 gaagtgtgatctgagGTGGTG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906371 21 -   2295209 gcagtgtgatctgagGTGGTG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133413 21 +  13104022 ggggttcagtctgATGTGGTA
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4603369 21 -  12054995 GGGGTACAGTCTGACGTGGTG
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2447263 11 - 149736546 GAAATACAAGC----------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757889 21 +  45876710 gaggtgcagtctgaCATGGTG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             959694 21 -   1687904 gaggtgtggtctgaTGCAGGT
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3039729 23 +  31815103 I

a score=418848.000000
s hg38.chr12_GL383549v1_alt    120346 30 +    120804 TCATGGTTTGAGAGCTACCTCAAGATCCAC
s panTro5.chr12              62817375 30 + 137163284 tcatggtttgagagctacctcaagATCCAC
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935567 30 + 135337776 TTATGGTTTGAGAGCTACCTCAAGATCCAC
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337191 30 +  34552619 tcatggtttgagagctacctcaagATCCAC
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648790 30 - 133663169 tcatggtttgagagctacctcaagGTCCAC
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051007 30 - 137757926 tcatggtttgagagctacctcaagGTCCAC
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422454 30 -   7948249 tcatggtttgagagctacctcaagGTCCAC
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326757 30 -  10730278 TGATGGTTTGAGAGTTACCTCAAGATCCAC
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817717 30 - 128539186 tcatggtttgagagctacctcaagATCCAC
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       213980 30 +    435186 ttatggtttgagagctacctcaagATCCAC
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613569 30 +   9309688 tcatggtttgagagctacctcaagATCCAC
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432700 30 -  29834108 TCATGGTTTGAGAGATACCTCAAGATGAAC
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884592 30 -   1015025 TCATGGTTTGAGAGATACCTCAAGATGCAC
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906392 30 -   2295209 TCATGGTTTGAGAGATACCTCAAGATGCAC
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3039752 30 +  31815103 TCATGGTTTGGGAGCTACCTCGAGATCCAC
i micMur3.chr21             I 23 I 34
s proCoq1.NW_012140524v1      5133435 30 +  13104022 TCATGGTTTGGGAGCTACCTTGAGATCCAC
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4603391 30 -  12054995 TCATGGTTTGGGAGCTACATTGAGATCCAC
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2447274 30 - 149736546 TCATGATTGGAGAGCAAAGCCAACCTCCAC
i mm10.chr6                 C 0 I 1
s canFam3.chr27              19757911 30 +  45876710 TCATGGTTTGGGAAGCACATCCAGATCCAC
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             959715 30 -   1687904 TCATGATTTAGGAACTACATCAAGATGCAC
i dasNov3.JH562883          C 0 C 0

a score=18488.000000
s hg38.chr12_GL383549v1_alt    120376 2 +    120804 TT
s panTro5.chr12              62817405 2 + 137163284 TT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935597 2 + 135337776 TT
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337221 2 +  34552619 TT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648820 2 - 133663169 TT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051037 2 - 137757926 TT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422484 2 -   7948249 TT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326787 2 -  10730278 TT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817747 2 - 128539186 TT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214010 2 +    435186 TT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613599 2 +   9309688 TT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432730 2 -  29834108 TT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884622 2 -   1015025 TT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906422 2 -   2295209 TT
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133465 2 +  13104022 CT
i proCoq1.NW_012140524v1    C 0 I 14
s otoGar3.GL873576            4603421 2 -  12054995 TT
i otoGar3.GL873576          C 0 C 0
s canFam3.chr27              19757941 2 +  45876710 CC
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959745 2 -   1687904 CC
i dasNov3.JH562883          C 0 C 0
e mm10.chr6                   2447304 1 - 149736546 I
e micMur3.chr21               3039782 34 +  31815103 I

a score=231083.000000
s hg38.chr12_GL383549v1_alt    120378 25 +    120804 TCACTCATAAGCCAAGTGAAATATA
s panTro5.chr12              62817407 25 + 137163284 TCACTCATAAGCCAAGTGAAATATA
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935599 25 + 135337776 TCACTCATAAGCCAAGTGAAATATA
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337223 25 +  34552619 TCACTCATAAGCCAAGGGAAATATA
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648822 25 - 133663169 TCACTCATAAGCCAAGGGAAATATA
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051039 25 - 137757926 TCACTCATAAGCCAAGGGAAATATA
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422486 25 -   7948249 TCACTCATAAGCCAAGGGAAATATA
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326789 25 -  10730278 TCACTCATAAGCCAAGGGAAATATA
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817749 25 - 128539186 TCACTCATAAGCCAAGGGAAATATA
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214012 25 +    435186 TCACTCATAAGCCAAGGGAAATATA
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613601 25 +   9309688 TCACTCATAAGCCAAGGGAAATATA
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432732 25 -  29834108 TCACTCAAAAGCCAAGGGAAATATA
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884624 25 -   1015025 TCACTCAAAAGCCAAAGGAAATATA
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906424 25 -   2295209 TCACTCAAAAGCCAAGGGAAATATA
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4603423 14 -  12054995 ---------ATCCATCCAAAATA--
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2447305 25 - 149736546 TAGCCTATAAAGAACCTAAAACATG
i mm10.chr6                 I 1 C 0
s canFam3.chr27              19757943 24 +  45876710 TAGCTCATAAGCCAAGTGAAAAAA-
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959747 25 -   1687904 TAGCTCATAAGCCAAGAGAGATATA
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3039782 34 +  31815103 I
e proCoq1.NW_012140524v1      5133467 14 +  13104022 I

a score=155172.000000
s hg38.chr12_GL383549v1_alt    120403 19 +    120804 ----------------TTCTATTTCTGTGAAAGAT--------------------
s panTro5.chr12              62817432 19 + 137163284 ----------------TTCTATTTCTGTGAAAGAT--------------------
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935624 19 + 135337776 ----------------TTCTATTTCTGTGAAAGAT--------------------
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337248 19 +  34552619 ----------------TTCTATTTCTGTGAAAGAT--------------------
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648847 19 - 133663169 ----------------TTCTATTTTTGTGAAAGAT--------------------
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051064 19 - 137757926 ----------------TTCTATTTTTGTGAAAGAT--------------------
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422511 19 -   7948249 ----------------TTCTATTTTTGTGAAAGAT--------------------
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326814 19 -  10730278 ----------------TTCTATTTTTGTGAAAGAT--------------------
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817774 19 - 128539186 ----------------TTCTATCTTTGTGAAAGAT--------------------
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214037 19 +    435186 ----------------TTCTATTTTTGTGAAAGAT--------------------
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613626 19 +   9309688 ----------------TTCTATTTTTGTGAAAGAT--------------------
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432757 19 -  29834108 ----------------TTCTATTTTTGTGGAAGAG--------------------
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884649 19 -   1015025 ----------------TTCTATTTTTGTGAAAGAG--------------------
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906449 19 -   2295209 ----------------TTCTATTTTTGTGAAAGAG--------------------
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133481 19 +  13104022 ----------------TTCTGTTTTTGTGAAATTG--------------------
i proCoq1.NW_012140524v1    I 14 C 0
s otoGar3.GL873576            4603437 19 -  12054995 ----------------CTCTATTTGTGTGAAATTG--------------------
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2447330 18 - 149736546 ----------------TATTGTGGCTGCAAAATG---------------------
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757967 19 +  45876710 ----------------ATCAGTTTTTGTGAGATAG--------------------
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959772 55 -   1687904 TATTAATAATATACACTTACAATTATGTATGATATACATAGTGTATATGAAGCAG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3039782 34 +  31815103 I

a score=14972.000000
s hg38.chr12_GL383549v1_alt    120422 1 +    120804 T
s panTro5.chr12              62817451 1 + 137163284 T
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935643 1 + 135337776 T
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337267 1 +  34552619 T
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648866 1 - 133663169 T
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051083 1 - 137757926 T
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422530 1 -   7948249 T
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326833 1 -  10730278 T
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817793 1 - 128539186 T
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214056 1 +    435186 T
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613645 1 +   9309688 T
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432776 1 -  29834108 T
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884668 1 -   1015025 T
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906468 1 -   2295209 T
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3039816 1 +  31815103 T
i micMur3.chr21             I 34 C 0
s proCoq1.NW_012140524v1      5133500 1 +  13104022 T
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4603456 1 -  12054995 T
i otoGar3.GL873576          C 0 I 938
s mm10.chr6                   2447348 1 - 149736546 C
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757986 1 +  45876710 T
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959827 1 -   1687904 T
i dasNov3.JH562883          C 0 C 0

a score=367637.000000
s hg38.chr12_GL383549v1_alt    120423 28 +    120804 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
s panTro5.chr12              62817452 28 + 137163284 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935644 28 + 135337776 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337268 27 +  34552619 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCA-
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648867 28 - 133663169 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051084 28 - 137757926 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422531 28 -   7948249 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326834 28 -  10730278 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817794 28 - 128539186 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214057 28 +    435186 GTCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613646 28 +   9309688 GTCTTTCTAAAAGA-------AGTCTT------------CAATCCAT
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432777 28 -  29834108 ATCTTTCTAAAAGA-------AGTCCT------------CAACCCAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884669 28 -   1015025 ATCTTTCTAAAAGA-------AGTTCT------------CAACCCAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906469 28 -   2295209 ATCTTTCTAAAAGA-------AGTCTT------------CAACCCAT
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3039817 28 +  31815103 GTCTTTCTAAAAGA-------AGTCCT------------CAATCCAT
i micMur3.chr21             C 0 I 2
s proCoq1.NW_012140524v1      5133501 28 +  13104022 GTCTTTCTAAAAGA-------AGTCCT------------CAATCCAC
i proCoq1.NW_012140524v1    C 0 C 0
s otoGar3.GL873576            4604395 28 -  12054995 ATCTTTCTAAAAGA-------AGTCCT------------CAATCCAC
i otoGar3.GL873576          I 938 C 0
s mm10.chr6                   2447349 28 - 149736546 ACCTTTCTAGATAA-------TGTCCC------------CTATCTAT
i mm10.chr6                 C 0 C 0
s canFam3.chr27              19757987 47 +  45876710 CCCTTTCTAAAAGAATTAAGGAATTCTAATAGCTAAGGATAATCCAT
i canFam3.chr27             C 0 C 0
s dasNov3.JH562883             959828 23 -   1687904 CTCTTTCTAAA-GA-------AGTCCT------------CAAT----
i dasNov3.JH562883          C 0 C 0

a score=162202.000000
s hg38.chr12_GL383549v1_alt    120451 14 +    120804 AGCTATTA----------TCCAAG
s panTro5.chr12              62817480 14 + 137163284 AGCTATTA----------TCCAAG
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935672 14 + 135337776 AGCTATTA----------TCCAAG
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337295 14 +  34552619 AGGACTTA----------TCCAAG
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648895 14 - 133663169 AGCTATTA----------TCCAAG
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051112 14 - 137757926 AGCTATTA----------TCCAAG
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422559 14 -   7948249 AGCTATTA----------TCCAAG
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326862 14 -  10730278 AGCTATTA----------TCCAAG
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817822 14 - 128539186 AGCTATTA----------TCCAAG
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214085 14 +    435186 AGCTATTA----------TCCAAG
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613674 14 +   9309688 AGCTATTA----------TCCAAG
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432805 14 -  29834108 AGCTGTTA----------TCCAAG
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884697 14 -   1015025 AGCTGTTA----------TCCAAG
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906497 14 -   2295209 AGCTGTTA----------TCCAAG
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133529 14 +  13104022 AGCTATTA----------TCCAAG
i proCoq1.NW_012140524v1    C 0 I 1
s otoGar3.GL873576            4604423 14 -  12054995 AATCATTA----------TCCAAG
i otoGar3.GL873576          C 0 I 1
s mm10.chr6                   2447377 24 - 149736546 GGATATTAGATTACACATTCCAGT
i mm10.chr6                 C 0 I 85
s canFam3.chr27              19758034 14 +  45876710 AGTTATTA----------CCCAAG
i canFam3.chr27             C 0 I 1
s dasNov3.JH562883             959851 14 -   1687904 AACTATGA----------GCCAGG
i dasNov3.JH562883          C 0 C 0
e micMur3.chr21               3039845  2 +  31815103 I

a score=647160.000000
s hg38.chr12_GL383549v1_alt    120465 48 +    120804 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTTTCAAT
s panTro5.chr12              62817494 48 + 137163284 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTTTCAAT
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935686 48 + 135337776 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTTTCAAT
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337309 48 +  34552619 -A-AATTC--AAT----CAAGAAAGGAACACACATTTCAGGACTTTGTTTCTCAAT
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648909 48 - 133663169 -A-AATTC--AAT----CAAGAAaggaacacacattttaggactttgtttctcaat
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051126 48 - 137757926 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTCTCAAT
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422573 48 -   7948249 -A-AATTC--AAT----CAAGAAaggaacacacattttaggactttgtttctcaat
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326876 48 -  10730278 -A-AATTC--AAT----CAAGAAaggaacacacattttaggactttgtttctcaat
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817836 48 - 128539186 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTCTCAAT
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214099 48 +    435186 -A-AATTC--AAT----CAAGAAAGGAACACACATGTTAGGACTTTGTTTCTCAAT
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613688 48 +   9309688 -A-AATTC--AAT----CAAGAAaggaacacacattttaggactctgtttctcaat
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432819 49 -  29834108 -AAAATTC--AAT----CAAGAAAGGAATACACATTTTAGGACTTTGTTTCTCAAT
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884711 49 -   1015025 -ATAATTC--AAT----CAAGAAAGGAATACACATTTTAGGACTTTGTTTCTCAAT
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906511 49 -   2295209 -AAAATTC--AAT----CAAGAAAGGAACACACATTTTAGGACTTTGTTTctcaat
i aotNan1.NW_018488218v1    C 0 C 0
s micMur3.chr21               3039847 48 +  31815103 -A-AATTC--AAT----CAAGAAAGGAACACAAACTTGAGGACTTTATTTCTCAAT
i micMur3.chr21             I 2 N 0
s proCoq1.NW_012140524v1      5133544 48 +  13104022 -A-AATTC--AAT----CAAGAAAGGAACACACATTTTAGGATTTTGTTTCTCAAT
i proCoq1.NW_012140524v1    I 1 C 0
s otoGar3.GL873576            4604438 47 -  12054995 -A-AGGTC--AGT----CAAG-AAGGAACACAAGCTTTAGGGCTTTGTTTCTCAAT
i otoGar3.GL873576          I 1 C 0
s mm10.chr6                   2447486 50 - 149736546 -a-aatacgtaat----aaaaaaaaAAACACATATTTCAGAACTCTATTTCTTAAC
i mm10.chr6                 I 85 C 0
s canFam3.chr27              19758049 48 +  45876710 -A-AATAC--AGTGAAACAAGAATGGAATACACACTTTAGGAC----TTTCTCAGT
i canFam3.chr27             I 1 C 0
s dasNov3.JH562883             959865 53 -   1687904 AA-AACTC--AGTCTTTCAAAACAGGAACGCACACGCTAGGGCTTCGTTTCCCAGT
i dasNov3.JH562883          C 0 N 0

a score=15300.000000
s hg38.chr12_GL383549v1_alt    120513 1 +    120804 C
s panTro5.chr12              62817542 1 + 137163284 C
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935734 1 + 135337776 C
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337357 1 +  34552619 C
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648957 1 - 133663169 c
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051174 1 - 137757926 C
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422621 1 -   7948249 c
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326924 1 -  10730278 c
i cerAty1.NW_011999477v1    C 0 C 0
s chlSab2.chr11             100817884 1 - 128539186 C
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214147 1 +    435186 C
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613736 1 +   9309688 c
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432868 1 -  29834108 C
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884760 1 -   1015025 C
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906560 1 -   2295209 c
i aotNan1.NW_018488218v1    C 0 C 0
s proCoq1.NW_012140524v1      5133592 1 +  13104022 C
i proCoq1.NW_012140524v1    C 0 N 0
s otoGar3.GL873576            4604485 1 -  12054995 C
i otoGar3.GL873576          C 0 I 25
s mm10.chr6                   2447536 1 - 149736546 C
i mm10.chr6                 C 0 I 9
s canFam3.chr27              19758097 1 +  45876710 C
i canFam3.chr27             C 0 C 0

a score=1816708.000000
s hg38.chr12_GL383549v1_alt    120514 208 +    120804 ---------------------TAAAACT------------------ACCAAAACAGATTCTGAGGTTGGAATACAGGAATTCGCATTTTAAATAACCACCCCCAACAGACTCTGAGCCCTTTCCTCCAGATGATTGTACAGACTGCCattcactctttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
s panTro5.chr12              62817543 208 + 137163284 ---------------------TAAAACT------------------ACCAAAACACATTCTGAGGTTGGTATACGGGAATTCGCATTTTGAATAACCACCCCCAACAGACTCTGAGCCCTTTCCTCCAGATGATCGTACAGACTGCCattcactctttcaagagtactagtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935735 208 + 135337776 ---------------------TAAAACT------------------ACCAAAACACATTCTGAGGTTGGTATACGGGAATTCGCATTTTAAATAACCACCCCCAACAGACTCTGAGCCCTTTCCTCCAGATGATCGTACAGACTGCCattcactctttcaaaagtactagtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337358 208 +  34552619 ---------------------TAAAACT------------------ACCAAAACAGATTCTGAGGTTGGAATACAGGAATTCGCATTTTAAATAACCACCCCCAACAGACTCGGAGCGCTTTCCTCCAGATGATTGTACAGACTGTCattcattctttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttat
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104648958 208 - 133663169 ---------------------taaaact------------------accagaacagactctgaggttggaatacaggaattcgcattttaaataaccacccccaacagactctgCGTCCTTTCCTCCAGATGATTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i rheMac8.chr11             C 0 C 0
s macFas5.chr11             109051175 208 - 137757926 ---------------------TAAAACT------------------ACCAGAACAGACTCTGAGGTTGGAATACAGGAATTCGCATTTTAAATAACCACCCCCAACAGACTCTGCGTCCTTTCCTCCAGATGATTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccagacctttac
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422622 208 -   7948249 ---------------------taaaact------------------accagaacagactctgaggttggaatacaggaattcgcattttaaataaccacccccaacagactctgCGTCCTTTCCTCCAGATGATTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i macNem1.NW_012011422v1    C 0 C 0
s cerAty1.NW_011999477v1      8326925 208 -  10730278 ---------------------taaaact------------------accagaacagactctgaggttggaatacaggaattcgcattttaaataaccacccccaacagactctgTGTCCATTCCTCCAGATGATTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggaactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i cerAty1.NW_011999477v1    C 0 N 0
s chlSab2.chr11             100817885 208 - 128539186 ---------------------TAAAACT------------------ACCAGAACAGACTCTGAGGTTGGAATACAGGAATTCGCATTTTAAATAACCACCCCCAACAGACTCTGCATCCTTTCCTCCAGATGATTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i chlSab2.chr11             C 0 C 0
s manLeu1.NW_012101287v1       214148 208 +    435186 ---------------------TAAAACT------------------ACCAGAACAGACTCTGAGGTTGGAATACAGGAATTCGCATTTGAAATAACCACCCCCAACAGACTCTGCGTCCTTTCCTCCAGATGACTGTACAGACTGTCattcattccttcaagagtactggtggatcaaccaacatataccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i manLeu1.NW_012101287v1    C 0 C 0
s colAng1.NW_012114364v1      3613737 208 +   9309688 ---------------------taaaact------------------accaaaacagactctgagattggaatacaggaattcgcattttaaataaccacccccaacagactctgaGTCCTTTCCTCCAGATGATTGTACAGACTGTCattcattctttcaagagtactggtggatcaaccaacacagaccaggcactgttcaaggtactgggcttccagctgtgaacaagctagaccaggcctttac
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11432869 204 -  29834108 ---------------------TAAAACT------------------ACCAACACAGATTTTGAGGTTGGAACACAGGGATTCACATTTTAAATAACCA-CCCCAACAGACTCTGAGTCCTTGCCTCCAGATGATTTTACAGACTGCCattcaatccttcaataacaccggcagatcaaccaacatatatcaggtgctgttctaggtactaggcttccagctatg---aagatagcccagacctttac
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884761 203 -   1015025 ---------------------TAAAACT------------------ATCAACACAGATTTTGAGGTTGGAACACAGGAATTCACATTTTAAATAACCA-CCCCAACAGACTCTAAGTCCTTGCCACCAGATGA-TTTACAGACTGCCattcaatccttcaagaacactggcggatcaaccaacatatatcaggtgctgttctaggtactgggcttccagctaca---aagatagcccagacctttac
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906561 207 -   2295209 ---------------------taaaact------------------accaacacagattctgaggttggaacacaggaattcacgttttaaataacca-ccccaacagactctgaGTCCTTTCCTCCAGATGATTTTACAGACTGCCattcattccttcaagaacactggcggatcaaccaacatataccaggcgctgttctaggtactgggcttccacttgtgaacaagatagcccaggcctttac
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4604511 193 -  12054995 ---------------------AAAAACT------------------ACTGAAACAGATTTGGAGATTGGGACACAAGAATTCAGGTTTTAAATAAACAGCAT--ACAGATTCTGAGTCCTCTCCTCTAGATGATCTTAGTGACTGACACTCATTCCTTCCCTAGTACTTAGTGATCGGCCAAGTTACA-------------GAggcactgggcttccagctataaacaggcagacccggcccttcac
i otoGar3.GL873576          I 25 C 0
s mm10.chr6                   2447546 211 - 149736546 ---------------------CAGAGTCCTTCCCATTTGCTCCCTGACTGGAACAAATTTTGAGGGCGGGACGCAAGAATGAGCATTTTAAGTAAACA-AAACAGCAGCTTCTGGGGCCCCCTCTCTGGATTTTTTTACTGACTGCAATTCCTTTCTTCACCCTAGTCAGTGGTT--GTCTACATCCCCCAGGGA--GTTTTAGACACTGGGC-------TGTGAACA---CAAGTCAGGCCCATAT
i mm10.chr6                 I 9 I 4
s canFam3.chr27              19758098 221 +  45876710 TAGAGTCTTAggagcccatccctaaagt------------------actgaaat--attctgcgattgggatccagaaattggcattttaaaccaata--ctggagagattctgatCCCTTTCCTCTAGGTGATTTTACAGACTACCactcactccctc---agcaattattaatcaatcaccacaaaccaggtgttgttctaggcactggaa-tccagctacgaacatgataaactaagcctatat
i canFam3.chr27             C 0 C 0

a score=597118.000000
s hg38.chr12_GL383549v1_alt    120722 77 +    120804 cctcgtgtggcctatatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaATA--AATCAATAGGAATTCC
s panTro5.chr12              62817751 77 + 137163284 cctcgtttggcctatatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatcaataggaattcc
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60935943 77 + 135337776 cctcgtttggcctatatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatcaataggaattcc
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337566 72 +  34552619 cctcgtgtggcctatgtg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaat-------aataggaattcc
i nomLeu3.chr23             C 0 C 0
s rheMac8.chr11             104649166 77 - 133663169 cctcatgtggcctacatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatcaataggaattcc
i rheMac8.chr11             C 0 N 0
s macFas5.chr11             109051383 77 - 137757926 cctcatgtggcctacatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatcaataggaattcc
i macFas5.chr11             C 0 C 0
s macNem1.NW_012011422v1      1422830 77 -   7948249 cctcatgtggcctacatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatcaataggaattcc
i macNem1.NW_012011422v1    C 0 N 0
s chlSab2.chr11             100818093 77 - 128539186 cctcatgtggcctacatg------ggaggtgagaggcaagatacacaaattaaaaagcaaagtaata--aatcaataggaattcc
i chlSab2.chr11             C 0 N 0
s manLeu1.NW_012101287v1       214356 77 +    435186 cctcatgtggcctacatg------cgaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aatccataggaattcc
i manLeu1.NW_012101287v1    C 0 N 0
s colAng1.NW_012114364v1      3613945 77 +   9309688 cctcatgtggcctacatg------ggaggtgagaggcaagatacacaaattaaaaagtaaagtaata--aaccaataggaattcc
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11433073 77 -  29834108 cctcatgtggcctacatg------ggaggtgagaggcaagacatacaaattaaaaagtaaagaaata--aatcagtaggaattcc
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       884964 77 -   1015025 actcatgtggcctacatg------ggaggtgagaggcaagacatacaaattaaaaagcaaagaaata--aatcagtaggaattcc
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906768 77 -   2295209 cctggtgtggcctacatg------ggaggtgaggggcaagacatacaaattaaaaagtaaagtaata--aatcagtaggaattcc
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4604704 57 -  12054995 tctcctgtggtctccata------ggagtagagg--------------------aagtgaggtaata--actcaacaaggatttc
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2447761 66 - 149736546 TCTCATGTGGCCTTCTTA------GAA-------------ATGCACAGGTTAGGAAGTTGAATGTTAATAACAAACAGGGATTTC
i mm10.chr6                 I 4 C 0
s canFam3.chr27              19758319 83 +  45876710 cctggtatggcctacatgatcataggggtggagtagggagatagacaaattaaaaaggaaagaaata--aatcaacaggaatttc
i canFam3.chr27             C 0 C 0

a score=11672.000000
s hg38.chr12_GL383549v1_alt    120799 3 +    120804 GGA
s panTro5.chr12              62817828 3 + 137163284 gga
i panTro5.chr12             C 0 C 0
s panPan2.chr12              60936020 3 + 135337776 gga
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23               7337638 3 +  34552619 aga
i nomLeu3.chr23             C 0 C 0
s macFas5.chr11             109051460 3 - 137757926 aga
i macFas5.chr11             C 0 N 0
s colAng1.NW_012114364v1      3614022 3 +   9309688 aga
i colAng1.NW_012114364v1    C 0 C 0
s saiBol1.JH378123           11433150 3 -  29834108 aga
i saiBol1.JH378123          C 0 C 0
s cebCap1.NW_016107911v1       885041 3 -   1015025 aga
i cebCap1.NW_016107911v1    C 0 C 0
s aotNan1.NW_018488218v1      1906845 3 -   2295209 aga
i aotNan1.NW_018488218v1    C 0 C 0
s otoGar3.GL873576            4604761 3 -  12054995 ata
i otoGar3.GL873576          C 0 C 0
s mm10.chr6                   2447827 3 - 149736546 AAA
i mm10.chr6                 C 0 N 0
s canFam3.chr27              19758402 3 +  45876710 aga
i canFam3.chr27             C 0 C 0

a score=4095.000000
s hg38.chr12_GL383549v1_alt   120802 1 +    120804 T
s panTro5.chr12             62817831 1 + 137163284 t
i panTro5.chr12             C 0 C 0
s panPan2.chr12             60936023 1 + 135337776 t
i panPan2.chr12             C 0 C 0
s nomLeu3.chr23              7337641 1 +  34552619 t
i nomLeu3.chr23             C 0 C 0
s colAng1.NW_012114364v1     3614025 1 +   9309688 t
i colAng1.NW_012114364v1    C 0 N 0
s saiBol1.JH378123          11433153 1 -  29834108 t
i saiBol1.JH378123          C 0 N 0
s cebCap1.NW_016107911v1      885044 1 -   1015025 t
i cebCap1.NW_016107911v1    C 0 N 0
s aotNan1.NW_018488218v1     1906848 1 -   2295209 t
i aotNan1.NW_018488218v1    C 0 N 0
s otoGar3.GL873576           4604764 1 -  12054995 t
i otoGar3.GL873576          C 0 N 0
s canFam3.chr27             19758405 1 +  45876710 t
i canFam3.chr27             C 0 C 0

a score=1000.000000
s hg38.chr12_GL383549v1_alt   120803 1 +    120804 C
s panTro5.chr12             62817832 1 + 137163284 c
i panTro5.chr12             C 0 N 0
s panPan2.chr12             60936024 1 + 135337776 c
i panPan2.chr12             C 0 N 0
s nomLeu3.chr23              7337642 1 +  34552619 c
i nomLeu3.chr23             C 0 N 0
s canFam3.chr27             19758406 1 +  45876710 c
i canFam3.chr27             C 0 N 0

