##maf version=1 scoring=autoMZ.v1 a score=360695.000000 s mm8.chrM 0 81 + 16299 GTTAATGTAGCTTAA--TAACAAAGCAAAGCACTGAAAATGCTTAGATG-GATAATTG--TA-TCCCATAAAC-ACAAAGGTTTGGTC s galGal2.chrM 1234 75 + 16775 -------TAGCTTAAC-CCACAAAGCATGGCACTGAAGATGCCAAGATGGTACCTACT--AT-ACCTGTGGGC-A-AAAGACTTAGTC i galGal2.chrM N 0 C 0 s oryCun1.scaffold_140182 113 82 + 20791 GTTAATGTAGCTTAA--CAACAAAGCAAAGCACTGAAAATGCTTAGATGAGCCTTCCC--GG-CTCCATAAAC-ATAAAGGTTTGGTC i oryCun1.scaffold_140182 N 0 C 0 s rn4.chrM 2 78 + 16300 --TAATGTAGCTTA---TAATAAAGCAAAGCACTGAAAATGCTTAGATG-GATTCAAA--AA-TCCCATAAAC-ACAAAGGTTTGGTC i rn4.chrM N 0 C 0 s hg18.chrM 578 84 + 16571 GTTTATGTAGCTTACCTCCTCAAAGCAATACACTGAAAATGTTTAGACGGGCTCACAT--CA-CCCCATAAAC-AAATAGGTTTGGTC i hg18.chrM N 0 C 0 s panTro2.chrM 4 80 + 16554 ----ATGTAGCTTACCCCCTCAAAGCAATACACTGAAAATGTTTCGACGGGTTTACAT--CA-CCCCATAAAC-AAACAGGTTTGGTC i panTro2.chrM N 0 C 0 s rheMac2.chr14 30986862 84 - 133002572 GTTAATGTAGCTTAATTATTTACAGCAAGACATTGAAAATGTCTAGATGGGATTACAC--AA-CCCTATAAAC-AGATAAATTTGGTC i rheMac2.chr14 N 0 N 0 s bosTau2.chrM 363 80 + 16338 GTTGATGTAGCTTAAC-C--CAAAGCAAGGCACTGAAAATGCCTAGATG-AGTCTCCC--AA-CTCCATAAAC-ACATAGGTTTGGTC i bosTau2.chrM N 0 C 0 s canFam2.chrM 2 80 + 16727 --TAATGTAGCTTAAT-TAATAAAGCAAGGCACTGAAAATGCCAAGATG-AGTCGCAC--GA-CTCCATAAAC-ATAAAGGTTTGGTC i canFam2.chrM N 0 C 0 s dasNov1.scaffold_23239 3802 82 - 16977 GTCAACGTAGCTTAA--GTCTAAAGCGAGGCACTGAAAATGCCTAAACGAATCCTAAT--GA-TTCCGCAGAC-ACACAGGTCTGGTC i dasNov1.scaffold_23239 N 0 C 0 s loxAfr1.scaffold_36650 3007 83 + 16266 GTTAATGTAGCTTAA--AACAAAAGCAAGGTACTGAAAATACCTAGACGAGTATATCC--AA-CTCCATAAACAACAAAGGTTTGGTC i loxAfr1.scaffold_36650 N 0 C 0 s echTel1.scaffold_49882 260 78 - 7170 GTTAATGTAGCTTAA--TA-AAAAGTGAGGCACTGAAAATGCCTAGATGAGTAT---T--AA-CTCCATAAAC-ATAAAGGTTTGGTT i echTel1.scaffold_49882 N 0 C 0 s monDom4.chrUn 117151420 82 + 174229318 GTTGATGTAGCTTAA--CTTAAAAGCAAAGCACTGAAAATGCTTAGATG-GTTTATACTAAA-ACCCATAAAC-A-AAAGGTTTGGTC i monDom4.chrUn N 0 C 0 s tetNig1.chrUn_random 103509752 81 + 171761319 GCTAGTGTAGCTTAA--TA--AAAGCATAACACTGAAGATGTTAAGATGGGCCCTAGA--AAGCCCCACAGGC-ACAAAGGCTTGGTC i tetNig1.chrUn_random N 0 C 0 s fr1.chrUn 320907090 81 + 349519338 GCTAGCGTAGCTTAA--CC--AAAGCAGAGTACTGAAGATGCTAAGATGGGCCCTGAA--AAGTCCCGCAGGC-ACAAAAGCTTGGTC i fr1.chrUn N 0 C 0 s danRer4.chrM 950 82 + 16596 GCTAGCGTAGCTTAA--AA-TAAAGCACGGCACTGAAGCTGCCAAGATGGGCCCTAAT--AAGCTCCGCATGC-ACAAAGGCATGGTC i danRer4.chrM N 0 C 0 a score=1709796.000000 s mm8.chrM 81 379 + 16299 CTGGCCTTATAATTAATTAGAGGTAAAATTACACATGCAAACCTCCATAGACCGGTGTAA-AATCCCTTAAACATTT-ACTTA--------AAATTTAAGGAGAGGGTATCAAGCACAT--------TAA--AATAGCTTAAGACACCTTGCCT-AGCCACACCCCCACGGG-ACTCAGCAGTGATAAATATTAAGCAATAAACG---AAAGTTTGACTAAGTTA-TACCT---C-TTAGGGTT-GGTAAATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAACTAAT-TATCTT-CGGCGTAAAACGTGTCAACT----ATAAATAAATA-----AATAGAATTAAAATCCAACTTA-TATGT-GAAAATTCATTGTTAGGACCT-AAACTCAATAACGAAAGTAATTCT----AGTCA---------TT s oryCun1.scaffold_140182 195 382 + 20791 CTGGCCTTTTTATTGTTTTGTAGCAACCTTACACATGCAAGACTCCTCACGCCAGTG-AG-AATGCCCTTAACATCA-AACTA--------GATCAAGAGGAGCGGACATTAAGCACAC--------TAATCAGTAGCTCAAGATGCCTTGCTT-AACCACACCCCCAAGGG-ATACAGCAGTGATAAATATTTAGCAATGAACG---TAAGTTTGACTAAGTTA-TGCTA---CTTTAGGGTT-GGTAAATCTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAATTAATAAATATC-CGGCGTAAAGCGTGATTAGA----ATAAACAACAA-----AATAAAATCAAATAACAACTAA-GCTGT-AAAAAGTAATAGTTGCAAACA-AAAATAAACAACGAAAGTGATTTT----ATACT---------CT i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 80 379 + 16300 CTGGCCTTATAATTAATTGGAGGTAAGATTACACATGCAAACATCCATAAACCGGTGTAA-AATCCCTTAAAGATTT-GCCTA--------AAACTTAAGGAGAGGGCATCAAGCACAT---------AA--TATAGCTCAAGACGCCTTGCCT-AGCCACACCCCCACGGG-ACTCAGCAGTGATAAATATTAAGCAATGAACG---AAAGTTTGACTAAGCTAGTACCT---C-TCAGGGTT-GGTAAATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAACTAAT-TATTTT-CGGCGTAAAACGTGCCAACT----ATAAATCTCAT-----AATAGAATTAAAATCCAACTTA-TATGT-GAAAATTCATTGTTAGGACCT-AAGCCCAATAACGAAAGTAATTCT----AATCA---------TT i rn4.chrM C 0 C 0 s hg18.chrM 662 382 + 16571 CTAGCCTTTCTATTAGCTCTTAGTAAGATTACACATGCAAGCATCCCCGTTCCAGTG-AG-TTCACCCTCTAAATC--ACCAC--------GATCAAAAGGGACAAGCATCAAGCACGCAG------CAA--TGCAGCTCAAAACGCTTAGCCT-AGCCACACCCCCACGGG-AAACAGCAGTGATTAACCTTTAGCAATAAACG---AAAGTTTAACTAAGCTA-TACTAAC-C-CCAGGGTT-GGTCAATTTCGTGCCAGCCACCGCGGTCACACGATTAACCCAAGTCAAT-AGAAGC-CGGCGTAAAGAGTGTTTTAG----ATCACCCCCTC--CCCAATAAAGCTAAAACTCACCTGA-GTTGT-AAAAAACTCCAGTT--GACAC-AAAATAGACTACGAAAGTGGCTTT----AACAT---------AT i hg18.chrM C 0 C 0 s panTro2.chrM 84 376 + 16554 CTAGCCTTTCTATTAGCTCTTAGTAAGATTACACATGCAAGCATCCCCGCCCC-GTG-AG--TCACCCTCTAAATC--GCCAT--------GATCAAAAGGAACAAGTATCAAGCACGCAG------CAA--TGCAGCTCAAAACGCTTAGCCT-AGCCACACCCCCACGGG-AGACAGCAGTGATAAACCTTTAGCAATAAACG---AAAGTTTAACTAAGCCA-TACTAAC-C-TCAGGGTT-GGTCAATTTCGTGCTAGCCACCGCGGTCATACGATTAACCCAAGTCAAT-AGAAAC-CGGCGTAAAGAGTGTTTTAG----ATCACCCCCCC------ATAAAGCTAAAATTCACCTGA-GTTGT-AAAAAACTCCAGCT--GATAC-AAAATAAACTACGAAAGTGGCTTT----AACAC---------AT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34435460 378 - 182086969 ctgGCCTTTTCCTTAGCTCTTAGTAGGATTACACATGCAAGCATCCCCACCCCAGTG-AAAAATGCCCTCTAGATC--ACCG---------GATCAAAAGGAGCAGGTATCAAGCATGCAT------GAA--TGCACCTCAAAACACTTTGCTC-AACCACACCCCCACGGG-AAACAGCAGTGATAAATCCTTAGTAATAAATG---GAAGTTTGACCAAGCCA-TACTAATAT-TTAGGGTT-GGTTAATTTCGTGCCAGTCA-CGTGGCCATAAGATTAACCCAAGCTAAT-AGAACT-TGGCGTAAAGAATGTTTAAG----GTCTACCCTCA------ATAAAGCTAAACTCCATTTAA-GCTGTAAAAAAACTCCAGCT--GAAAT-AAAATATACTACAAAAGTGGCTTT----AATAT----------C i rheMac2.chr5 N 0 C 0 s bosTau2.chrM 443 376 + 16338 CCAGCCTTCCTGTTAACTCTTAATAAACTTACACATGCAAGCATCTACACCCCAGTG-AG-AATGCCCTCTAGGTT--ATTAA--------AACTAAGAGGAGCTGGCATCAAGCACACAC------CC---TGTAGCTCACGACGCCTTGCTT-AACCACA-CCCCACGGG-AAACAGCAGTGACAAAAATTAAGCCATAAACG---AAAGTTTGACTAAGTTA-TATTA---A-TTAGGGTT-GGTAAATCTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAGCTAAC-AGGAGTACGGCGTAAAACGTGTTAAAG----CACCATACCAA------ATAGGGTTAAATTCTAACTAA-GCTGT-AAAAAGCCATGATT--AAAATAAAAATAAATGACGAAAGTGACCCT----ACAAT---------AG i bosTau2.chrM C 0 C 0 s canFam2.chrM 82 378 + 16727 CTAGCCTTCCTATTAGTTTTTAGTAGACTTACACATGCAAGCCTCCACGCCCCAGTG-AG-AATGCCCTTAAAATC--ACCAG-------TGATCTAAAGGAGCAGGTATCAAGCACACTC------TTA--AGTAGCTCATAACACCTTGCTA-AGCCACACCCCCACGGG-ATACAGCAGTGATAAAAATTAAGCCATAAACG---AAAGTTTGACTAAGCCA-TACTA---A-ATAGGGTT-GGTAAATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAACTAAT-AGGCCTACGGCGTAAAGCGTGTTCAAG----ATACTTTTACA------CTAAAGTTAAAACTTAACTAA-GCCGT-AAAAAGCTACAGTT--ATCAT-AAAATAAACCACGAAAGTGACTTT----ATAAT---------AA i canFam2.chrM C 0 I 1 s dasNov1.scaffold_23239 3884 386 - 16977 CTAGCCTTACTATTAATTCATAACAAAATTACACATGCAAGTATCAGCACACCAGTG-AG-AATGCCCTCTAACTC--TTATA--------GATCAAAAGGAGCAAGCATCAAGTACACACAGCCCTTAC--AGTAGCTCATAACGCTTTGCTC-AACCACACCCCCACGGG-ATACAGCAGTGATAAAAATTAAGCAATAAGCG---AAAGCTTGACTAAGTTA-TGTTATT-A-TAAGGGTT-GGTAAATTTCGTGCCAGCAACCGCGGTCATACGATTAACCCAAATTAAT-AGTTAT-CGGCGTAAAGCGTGTTTAAG----ACACCTAGACA------ATAGAGTTAAACCCTTACTAC-GCTGT-AAAAAGCCTTAGTAGGACCAT-AAACCCTTCAACGAAAGTGACTCT----AATTT---------AT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 3090 383 + 16266 CCGGCCTTCTTATTGGTTACTAGGAAACTTATACATGCAAGTATCCGCCCGCCAGTG-AA-TACGCCTTCTAAATC--ATCAC-------CGATCAAAGAGAGCTGGCATCAAGCACACAC---TCTAAG--TGTAGCTCATGACGTCTCGCCT-AGCCACACCCCCACGGG-AAACAGCAGTAGTAAATATTTAGCAATTAACA---AAAGTTAGACTAAGTTA-TCCTAA--T-AAAGGACT-GGTCAATTTCGTGCCAGCAACCGCGGCCATACGATTAGTCCAAATTAAT-AAGCATACGGCGTAAAGCGTATCAGAA----GAATTAAGAAA------ATAAAGTTAAATCTTATACTA-GCTGT-TTAAAGCTCAAGATAAGACAT-A-AATAACCTACGAAAGTGACTTT----AATAA---------TC i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_49882 338 378 - 7170 CTAGCCTTTTTATTAGTTCTTAATAAAATTATACATGCAAGTATCCACCCCCCAGTG-AA-AATGCCCTTAAACTT--ACTTA-------TAATTAAGAGGAGCAGGTATCAAGCACA-------CTTAA--TGTAGCTCACAACACCTTGCTA-AGCCACACCCTCACGGG-ACACAGCAGTAATAAAAATTAAGCAATTAACG---GAAGTTTGACTTAGTTA-TATTAT--T-TAATTAGTCGGTCAACTTCGTGCCAGCCACCGCGGTCATACGAAGGACTTGAACTAAT-AAATAC-CGGCGTAAAGCGTGATTAAG----ATCTTTAAACA------ATAAAACAAAAAC-TATTCTATGCCGT-AAAAAGCC--AGAGAATACTT-ATAATAAATAACGAAGGTAATTTT----ATAAT---------TT i echTel1.scaffold_49882 C 0 C 0 s monDom4.chrUn 117151502 391 + 174229318 CTAGCCTTCTTGTTAATTTTAATTAGACCTACACATGCAAGTTTCCGCTGCCCTGTG-AG-AATGCCCTCAAAACT--ACTCAATTCTCCAAGATAAGAGGAGCTGGTATCAGGCACACAC------TACT-AGTAGCCAACTACACCTTGCTC-AACCACACCCCCACGGG-AAACAGCAGTGATTAAAATTAAGCTATAAACG---AAAGTTTGACTAAATCA-TAGTTAT-C-TAAGGGTT-GGTAAATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAATTAAC-AAGCCTCCGGCGTAAAGCGTGTCCAAA----CAAAAGACTAA----TAATAAAGTTAATACTTAACTAA-GTTGT-AACACACTCCAGTTA-ATACT-AAGATAAACTATTAAAATAACTTT----AATAA---------AG i monDom4.chrUn C 0 C 0 s galGal2.chrM 1309 395 + 16775 CTAACCTTTCTATTGGTTTTTGCTAGACATATACATGCAAGTATCCGCATCCCAGTG-AA-AATGCCCCCAAACCT--TTCTT-----CCCAAGCAAAAGGAGCAGGTATCAGGCACACTC------AGC--AGTAGCCCAAGACGCCTTGCTTAAGCCACACCCCCACGGGTACTCAGCAGTAATTAACCTTAAGCAATAAGTG---TAAACTTGACTTAGCCA-TAGCAA--C-CCAGGGTT-GGTAAATCTTGTGCCAGCCACCGCGGTCATACAAGAAACCCAAATCAAT-AGCTACCCGGCGTAAAGAGTGGCCACATGTTATCTGCACCAG------CTAAGATTAAAATGCAACCAA-GCTGT-CATAAGCCTAAGATC-CACCT-AAACCCAAC--CCAAATCCATCTT----AGCCTCAACGATTAAT i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18005 958 384 + 3405 CCAGCCTTGTCATCAACTTTATCTGAACTTACACATGCAAGCATCCGCATTCCCGTG-AA-AATGCCCTTAAGCCC--CTAAA-----ACAGAGGATAAGGAGCCGGTATCAGGCACGACC-----------ATCAGCCCACGACACCTTGCTA-TGCCACACCCACAAGGGAACTCAGCAGTGATAAACATTGAAC-ATGAGCGATTAAAGCTCGACTCAGTTA-CAGAT---A-ACAGAGTT-GGTCAATCTCGTGCCAGCCGCCGCGGTTATACGAGAAACTCAAGTTGAT-AATTCA-CGGCGTAAAGCGTGATTAAG----GTTCACCCTCA------CTAGAGTCAAACCCTAGCTAA-GCTGT-CGCACGCTTTCGCTA-GACTG-AAGAACACTAACGAAAGTAACTCTACCCAACAT---------AC i xenTro2.scaffold_18005 N 0 C 0 s tetNig1.chrUn_random 103509833 382 + 171761319 CTGACTTTACTAACAGCTCTAGCCAAACTTACACATGCAAGTATCCGCACCCCCGTG-AG-AATGCCCTACACACCC-TGCCC--------GGGAATTAGGAGCCGGTATCAGGCACAC-C------CCT--CGTAGCCCATGACGCCTTGCTT-AGCCACACCCCCAAGGGAACTCAGCAGTGATAAACATTAAGCCATAAGTG---AAAACTTGACTTAGCTA-CGGCT---T-AGAGGGCC-GGTAAAACTCGTGCCAGCCACCGCGGTTATACGAGAGACCCAAGTTGTT-AGCCCC-CGGCGTAAAGAGTGGTTAAA----ACACCAAACAC--CAAACTGAGGCCGAACGCCCTCAAG-GCAGT-TATACGCTCCCGAGG-ACATG-AAGGACAATTACGAAGGTAGCCTC----ACCCC---------CT i tetNig1.chrUn_random C 0 C 0 s fr1.chrUn 320907171 383 + 349519338 CTGACTTTACTAACAACTCTGATCAAACTTACACATGCAAGTATCCGCATCCCAGTG-AA-AATGCCCCCCGCCCCC-CGTCC--------GGAAATAGGGAGTTGGTATCAGGCACACAA------ATT--TGTAGCCCATGACACCTAGCTT-TGCCACGCCCCCAAGGGAATTCAGCAGTGATAAACATTAAGCCATAAGTG---AAAACTTGACTTAGTCA-TGATC---T-AAAGAGTC-GGTAAAACTCGTGCCAGCCACCGCGGTTATACGAGAGACCCAAGTTGTT-AGCCAA-CGGCGTAAAGGGTGGTTAGA----ACTAAAAACAA--CAAACTGAGACCGAACACCTTCAAG-GCTGT-TATACGCTTCCGAAG-CAACG-AAGAACAATAACGAAAGTAGCCTC----ACTAA---------CT i fr1.chrUn C 0 N 0 s danRer4.chrM 1032 378 + 16596 CCGACCTTTTGATCAGCTTTTACCTAATTTACACATGCAAGTCTCCGCACCCCTGTG-AA-TACGCCCTCAATCCCCAAACCT--------GGGGACGAGGAGCAGGTATCAGGCACAA-A------ATT--TTTAGCCCAAGACGCCTAGCCA-AGCCACACCCCCAAGGGGATCCAGCAGTGACAAACATTAAGCTATAAGTG---AAAACTTGACTCAGTTA-AGGTA---A-AGAGAGCC-GGTAAAACTCGTGCCAGCAACCGCGGTTAAACGAGAGGCTCTAGTTGAT-ATACTA-CGGCGTAAAGGGTGGTTAAG---------GAACAATGTAAAATAAAGCCAAACGGCCCTTTA-ACTGT-TATACGCTTTTAGAT-GCTAG-AGGCCCAAACACGAAAGTAGCTTT----A--AA---------TT i danRer4.chrM C 0 I 6 a score=1731261.000000 s mm8.chrM 460 260 + 16299 TATA--ATACACGACAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCATAAACCTAAATAATTAAATTTAACA-AAAC-TATTTGCCAGAGAACTACTAG--CCATAGCTTAAAACTCAAAGGACT---TGGCGGTACTTTATATCCATCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGCTCTACCTCACCATCTCTTGCTAATTCAGCCTATATACCGCCATCTTCAGCAAACCCTAA--AAAGGTATTAAAGT s oryCun1.scaffold_140182 577 256 + 20791 TCGA--ACTCACGATAGCTAAGGCCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACTTTGATAATTTCA--TAACA-AAAT-TATTCGCCAGAGAACTACAAG--CCAAAGCTTAAAACTCAAAGGACT---TGGCGGTGCTTTATACCCACCTAGAGGAGCCTGTTCCGTAATCGATAAACCCCGATAAACCTTACCACTCTTTGCCAACTCAGCCTATATACCGCCATCTTCAGCGA--CCTAA--AAAGGAGAAAAAGT i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 459 261 + 16300 TATATAATGCACGATAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACCTTAATAATTAAACCTA-CA-AAAT-TATTTGCCAGAGAACTACTAG--CTACAGCTTAAAACTCAAAGGACT---TGGCGGTACTTTATATCCATCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGTTCTACCTTACCCCTTCTCGCTAATTCAGCCTATATACCGCCATCTTCAGCAAACCCTAA--AAAGGCACTAAAGT i rn4.chrM C 0 C 0 s hg18.chrM 1044 256 + 16571 CTGA--ACACACAATAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACCTCAACAGTTAAA-TCAACA-AAAC-TGCTCGCCAGAACACTACGAG--CCACAGCTTAAAACTCAAAGGACC---TGGCGGTGCTTCATATCCCTCTAGAGGAGCCTGTTCTGTAATCGATAAACCCCGATCAACCTCACCACCTCTTGC----TCAGCCTATATACCGCCATCTTCAGCAAACCCTGA-TGAAGGCTACAAAGT i hg18.chrM C 0 C 0 s panTro2.chrM 460 256 + 16554 CTGA--ATACACAATAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACTTCAACAGTTAAA-TTAACA-AAAC-TGCTCGCCAGAACACTACGAG--CCACAGCTTAAAACTCAAAGGACC---TGGCGGTGCTTCATATCCCTCTAGAGGAGCCTGTTCTGTAATCGATAAACCCCGATCAACCTCACCGCCTCTTGC----TCAGCCTATATACCGCCATCTTCAGCAAACCCTGA-TGAAGGTTACAAAGT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34435838 239 - 182086969 CTGA--AGACACAATAGCTAAGATCGAAACTTGGATTAGATACCCCACTATGCTCAGCTCTAAACTCTAATAGTTAGA-TTAACA-AAAC-CACTCGCCAGAGTACTACAAG--AAACAGCTGAAAACTCAAAGGACT---TGGTGGTGCTTTATATCCCCCTAGAGGAGCCTGTTCTAT-ATTGATAAACCCTGATGCACCTCAGTACCTCTTGCCA--CCAGCCTATATACCGCCATCTTCAGCAAACCC------------------- i rheMac2.chr5 C 0 I 233 s bosTau2.chrM 819 258 + 16338 CCGA--C-GCACTATAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACACAGATAATTACA-TAAACA-AAAT-TATTCGCCAGAGTACTACTAG--CAACAGCTTAAAACTCAAAGGACT---TGGCGGTGCTTTATATCCTTCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGATAAACCTCACCAATTCTTGCTAATACAGTCTATATACCGCCATCTTCAGCAAACCCTAA--AAAGGAAAAAAAGT i bosTau2.chrM C 0 C 0 s canFam2.chrM 461 258 + 16727 CTGA--CTACACGATAGCTAAGACCCAAACTGGGATTAGATACCCCACTATGCTTAGCCCTAAACATAGATAATTTTA-C-AACA-AAAT-AATTCGCCAGAGGACTACTAG--CAATAGCTTAAAACTCAAAGGACT---TGGCGGTGCTTTATATCCCTCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGATAAACCTCACCACCTTTCGCTAATTCAGTCTATATACCGCCATCTTCAGCAAACCCTCA--AAAGGTAGAACAGT i canFam2.chrM I 1 C 0 s dasNov1.scaffold_23239 4270 258 - 16977 CTGA--CTACACGATAGCTAGGACCCAAACTGGGATTAGATACCCCACTATGCCTAGCCCTAAACTAAAACAGTT-CA-CAAACA-AAAC-TGTTCGCCAGAGTACTACTAG--CAACAGCTTAAAACTCAAAGGACT---TGGCGGTGCTTTACATCCTTCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGATATACCTCACCACCCCTTGCTAATACAGCCTATATACCGCCATCTTCAGCAGACCCTAG--TAAGGCACCACAGT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 3473 259 + 16266 CTAA--ACATACGATAGCTAGGGTACAAACTGAGATTAGATACCTCACTATGCCTAGCCCTAAACTTTGATAGCTACC-TTTACA-AAGC-TATCCGCCAGAGAACTACTAG--CCAGAGCTTAAAACTTAAAGGACT---TGGCGGTGCTTTATATCCACCTAGGGGAGCCTGTCTCGTAACCGATGAACCCCGATATACCTTACCGTCACTTGCTAATTCAGTCCATATACCACCATCTTCAGCAAACCCCTA--TAGGGCACAAAAGT i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_49882 716 260 - 7170 CTGA--ACCCACGATAGCTAAGAAACAAACTGGGATTAGATACCCCACTATGCTTAGCCTTAAACCTAGATAGT--CT-ATAACA-AGACATATCCGCCAGAGAACTACTAG---CAAAGCTAAAAACTTAAAGAACTCTGTGGCGGTGCTTCACACCCACCTAGAGGAGCCTGTTATGTAATTGATACACCCCACTAAACCCTACCACCACTTGCTAAGTCAGTCTATATACCGCCATCCTCAGCAAAACCCCA--AAAGGCATATCAGT i echTel1.scaffold_49882 C 0 C 0 s monDom4.chrUn 117151893 257 + 174229318 CTGA---TACACGAAAACTAAGGTACAAACTGGGATTAGATACCCCACTATGCTTAGTCATAAACCAAAGTAGTTAGA--TAACA-AAAC-TACTCGCCAGAGAACTACTAG--CTACTGCTTAAAACTCAAAGGACT---TGGCGGTGCCCTAAACCCACCTAGAGGAGCCTGTTCTATAATCGATAAACCCCGATATACCCAACCCCATCTTGCCAATACAGCCTATATACCGCCATCGTCAGCCCACCTTAA--AAAAGATACAAAGT i monDom4.chrUn C 0 C 0 s galGal2.chrM 1704 263 + 16775 TTTA--ACCCACGAAAGCTAGGACCCAAACTGGGATTAGATACCCCACTATGCCTAGCCCTAAATCTAGATACCTCCC-ATCACA-CATG-TATCCGCCTGAGAACTACGAGCACAAACGCTTAAAACTCTAAGGACT---TGGCGGTGCCCCAAACCCACCTAGAGGAGCCTGTTCTATAATCGATAATCCACGATTCACCCAACCACCCCTTGCCAGCACAGCCTACATACCGCCGTCGCCAGCCCACCTCTAATGAAAGAACAACAGT i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18005 1342 254 + 3405 CTGA--ACTCACGACCGCTAGGAAACAAACTGGGATTAGATACCCCACTATGCCTAGCCTTAAACCTTGAC-----CA-ATTACA-CTTC-AATCCGCCAGGGAACTACGAG--CCCAAGCTTAAAACCCAAAGGACT---TGGCGGTGCCCCAAACCCACCTAGAGGAGCCTGTTCTATAATCGATACCCCCCGCTTAACCTCACCACTTCTTGCCAAACCCGCCTATATACCACCGTCGCCAGCCCACCCCGT--GAGGGGACACAAGT i xenTro2.scaffold_18005 C 0 C 0 s tetNig1.chrUn_random 103510215 258 + 171761319 TTGA--ACCCACGAAAGCTAGGGTACAAACTGGGATTAGATACCCCACTATGCCTAGCCCTAAACAATGATATTCTAA---TACATTCCT-TATCCGCCCGGGTACTACGAG--CATTAGCTTAAAACCCAAAGGACT---TGGCGGTGCTTTAAACCCATCTAGAGGAGCCTGTTCTAGAACCGATAATCCCCGTTAAACCTCACCCCTTCTTGTCTAATCCGCCTATATACCACCGTCGTCAGCCTACCCTGT--GAAGGACTAACAGT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 1416 257 + 16596 CTGA--ACCCACGAAAGCTAAGAAACAAACTGGGATTAGATACCCCACTATGCTTAGCCATAAACAAAGACATTTAAT---CACA-ACAA-TGTTCGCCCGGACACTACAAG--CATAAGCTTAAAACCCAAAGGACC---TGACGGTGCCTTAGATCCCCCTAGAGGAGCCTGTTCTAGAACCGATTATCCCCGTTAAACCTCACCATTTCTAGCAAAATCAGCCTATATACCACCGTCGCCAGCTTACCCTGT--GAAGGAATAACAGT i danRer4.chrM I 6 C 0 a score=-15759.000000 s mm8.chrM 720 22 + 16299 AAGCAAAAGAAT---------------------------------CAAACAT-------------------------------------------------------------AAA s oryCun1.scaffold_140182 833 20 + 20791 AAGCTCAATTA----------------------------------CTACCGT--------------------------------------------------------------AA i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 720 21 + 16300 AAGCACAAGAA----------------------------------CAAACAT-------------------------------------------------------------AAA i rn4.chrM C 0 C 0 s hg18.chrM 1300 21 + 16571 AAGCGCAAGTA----------------------------------CCCACGT-------------------------------------------------------------AAA i hg18.chrM C 0 C 0 s panTro2.chrM 716 21 + 16554 AAGCACAAGTA----------------------------------CCCACGT-------------------------------------------------------------AAA i panTro2.chrM C 0 C 0 s rheMac2.chr5 34436310 116 - 182086969 aagcaggagaatggcgtgaacccgggaggtggagcttgcagtgagcccagatcaggccactgtagtccagcctgggcaacagagtgagactctgtctcaaaaaacaaaaaacaaaa i rheMac2.chr5 I 233 C 0 s bosTau2.chrM 1077 22 + 16338 AAGCGTAATTAT---------------------------------GATACAT-------------------------------------------------------------AAA i bosTau2.chrM C 0 C 0 s canFam2.chrM 719 22 + 16727 AAGCACAATCAT---------------------------------TTTACAT-------------------------------------------------------------AAA i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 4528 21 - 16977 GAGCACAATAA----------------------------------CATACAT-------------------------------------------------------------AAA i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 3732 22 + 16266 GAGCTTAATCAT---------------------------------AACCCAT-------------------------------------------------------------GAA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_49882 976 22 - 7170 AAGCATAATGAT---------------------------------AAGACAT-------------------------------------------------------------AAA i echTel1.scaffold_49882 C 0 I 1561 s monDom4.chrUn 117152150 23 + 174229318 AAGCAAAATTATT--------------------------------TTTTCAT-------------------------------------------------------------AAA i monDom4.chrUn C 0 C 0 s galGal2.chrM 1967 22 + 16775 GAGCTCAATAGC---------------------------------CCCTCGC-------------------------------------------------------------TAA i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18005 1596 22 + 3405 AGGCTCAATGAT---------------------------------CAAACAT-------------------------------------------------------------CAA i xenTro2.scaffold_18005 C 0 C 0 s tetNig1.chrUn_random 103510473 22 + 171761319 AGGCAAAGTTGG---------------------------------CACAGCC-------------------------------------------------------------CAA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 1673 22 + 16596 AAGCAAGATGGG---------------------------------CATAGCC-------------------------------------------------------------CAG i danRer4.chrM C 0 C 0 a score=558754.000000 s mm8.chrM 742 124 + 16299 AACGTTAGGTCAAGGTGTAGCCAATGAAATGGGAAGAAATGGGCTACATTTTCT---TA-TA--AAAGAACATT-----ACTATACCCTTT--ATGAAA----CTAAAG--GACTAAGGAGGATTTAGTAGTAAATTAAGAAT- s oryCun1.scaffold_140182 853 123 + 20791 AACGTTAGGTCAAGGTGTAGCTCATAGAGTGAGA--GCATGGGCTACATTTTCT---AC-TT---CAGAATATA-----CGAATTGCCCTT--ATGAAAC--TCTAAGG--GCCAAAGGAGGATTTAGTAGTAAATTAAGAAT- i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 741 125 + 16300 AACGTTAGGTCAAGGTGTAGCCAATGAAGCGGAAAGAAATGGGCTACATTTTCT---TT-TCCCAGAGAACATT-----ACGA-AACCTTT--ATGAAA----CTAAAG--GACAAAGGAGGATTTAGTAGTAAATTAAGAAT- i rn4.chrM C 0 C 0 s hg18.chrM 1321 124 + 16571 GACGTTAGGTCAAGGTGTAGCCCATGAGGTGGCAAGAAATGGGCTACATTTTCT---AC-CC---CAGAAAACT-----ACGATAGCCCTT--ATGAAAC---TTAAGG--GTCGAAGGTGGATTTAGCAGTAAACTGAGAGT- i hg18.chrM C 0 C 0 s panTro2.chrM 737 124 + 16554 GACGTTAGGTCAAGGTGTAGCCTATGAGGTGGCAAGAAATGGGCTACATTTTCT---AC-CC---CAGAAAATT-----ACGATAACCCTT--ATGAAAC---CTAAGG--GTCAAAGGTGGATTTAGCAGTAAACTAAGAGT- i panTro2.chrM C 0 C 0 s rheMac2.chr5 34436426 127 - 182086969 aaTGTTAGGTCAAGGTGTAGCCCATGAAGTGGCATGAAATGGGCTACATTTTCT---ATGTC---CAGAAAATT--T-CACAACAACCTTT--ATGAAAT---CTAAGA--GCTCAAGGAGGATTTAGCAGTAAACCAAGAGC- i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 1099 128 + 16338 AACGTTAGGTCAAGGTGTAACCTATGAAATGGGAAGAAATGGGCTACATTCTCT---ACACC---AAGAGAATCAAG-CACGAAAGTTATT--ATGAAA----CCAATA--ACCAAAGGAGGATTTAGCAGTAAACTAAGAAT- i bosTau2.chrM C 0 C 0 s canFam2.chrM 741 125 + 16727 AAAGTTAGGTCAAGGTGTAACTTATGAGGTGGGAAGAAATGGGCTACATTTTCT---AC-CC---AAGAACATT--T-CACGAATGTTTTT--ATGAAA----TTAAAA--ACTGAAGGAGGATTTAGTAGTAAATTAAGAAT- i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 4549 126 - 16977 GACGTTAGGTCAAGGTGTAGCTTATGGGGTGGGAAGAAATGGGCTACATTTTCT---AA-TA---AAGAGCAAA----TACAAAAAACTTA--ATGAAACAATTTAAGA----CTAAGGTGGATTTAGTAGTAAGCTAAAAAT- i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 3754 126 + 16266 AAAGTTAGGCCGAGGTGTCGCCTACGTGACGGTCAAAGATGGGCTACATTTTCT---AT-TA---TAGAACAGA--CAAACGGATATCACT--CTGAAA----TGGGTG--GTTGAAGGCGGATTTAGTAGTAAACTAAGAAT- i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 2 129 + 18297 AACGTTAGGTCAAGGTGTAACCCATGTGGTGGAACCTAATGGGCTACATTTTCTAGCAT-TA---GAAAACCTT--C-AACGAAAGTACTA--ATGAAA----TTTCAGT-ACTAAAGGAGGATTTAGTAGTAAACTGAGAAT- i echTel1.scaffold_181343 n 1561 C 0 s monDom4.chrUn 117152173 125 + 174229318 AACGTTAGGTCAAGGTGTAGCATATGATAGGGAAAGAAATGGGCTACATTATCT---AG-CT---TAGATTACA------CGAATCACATT--ATGAAAT---CTAATGTGCCTGAAGGAGGATTTAGTAGTAAATTAAGAAT- i monDom4.chrUn C 0 C 0 s galGal2.chrM 1989 122 + 16775 TAAGACAGGTCAAGGTATAGCCTATGGGGTGGGA-GAAATGGGCTACATTTTCT---AA-CA---TAGAACAAA------CGAAAAAGGAT--GTGAAAC---CCGCCC--TTAGAAGGAGGATTTAGCAGTAAAGTGAGATC- i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18005 1618 123 + 3405 TACGTCAGGTCAAGGTGTAGCANATGAAGTGGGAAGAAATGGGCTACATTTTCT---AA-TA--CTAGAAAAAA-----CGAAAGATCTTT--ATGAAAC---C--AGA--TCAGAAGGCGGATTTAGCAGTAAAGAGAGACA- i xenTro2.scaffold_18005 C 0 N 0 s tetNig1.chrUn_random 103510495 123 + 171761319 AACGTCAGGTCGAGGTGTAGCGTATGGAGGGGGAAGAAATGGGCTACATTCTCT---GC-CC---AGAGAACCA------CGAATGACATA--ATGAAA----CACATG--TCTGAAGGAGGATTTAGCAGTAAGTAAAGAAAC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 1695 122 + 16596 AAAGTCAGGTCGAGGTGTAGCACATGAAATGGGAAGAAATGGGCTACACTTTCT---AC-CC---CAGAATATA------CGAA-AATGTAACATGAAA----CA-ATA--CTTGAAGGAGGATTTAGCAGTAAA-AGAGAAGC i danRer4.chrM C 0 C 0 a score=2286094.000000 s mm8.chrM 866 631 + 16299 AGA------GAGCTTAATTGAATTGAGCAATGAAGTACGCACACACCGCCCGTCACCCTCCT--CAAAT----------TA-AATTAAACTTAACA-TA---AT-TAATTTCTAGACATCCGTTT-ATG-AGAGGAGATAAGTCGTAACAAGGTAAGCATACTGGAAAGTGTGCTTGGAAT--A-ATCATAGTGTAGCT-TA-A-TATTAAAGCATCTGGCCTACACCCAGAAGAT---TTCATGACCAA--TGAACACTCTGA-AC--TAATC-----CTAGCCCTA--G-CCC-TA---------CACAAATAT--AA---------TTA-TACT--ATTAT------------ATAAATCAAAACATT-TATCC--TA-----CTAAAAGTATTGGAGAAAGAA-----AT-----TCGTACATCTAGGAGCTATAGAA----CTAGTACCGCAAGGGAAA-GATGAAA-G--ACTAATTAA------------AAGTAAGAACAAG-CAAAGATTAAACCTTGTACCTTTTGCATAATGAACTAACTAG-AAAACTTCTAACTAAAAGAATTACAGCTAGAAACCCCGAAA-CCAAACGAGCTACCTAAAAACAATTT-----T--AT---GAATCAACTCGTCTATGTGGCAAAATAGTGAGAAGATTTTTAGGTAGAGGTGAAAAGCCTAACGAGCTTGGTGATAGCTGGTTACCCA-AAAA-ATGAATTTAAGTTCAATTTTAAA------C-------TTGCTA------------------AAAA------AA-CAA s oryCun1.scaffold_140182 976 628 + 20791 AGA------GTGCTTAATTGAACAAGGCCATGAAGCACGCACACACCGCCCGTCACCCTCCT--CAAGT-------------GACAAATATTTACT-TATACCT-AATTACATAAATAGACAAGC-ATA-AGAGGAGATAAGTCGTAACAAGGTAAGCATACTGGAAAGTGTGCTTGGACA--C-TTCAGAGCGTAGCT-TA-A--CTTAAAGCACTTGGCTTACACCCAAGAGAT---TTCAT--TTAC--TGACCACTCTGA-GC--CAACA-----CTAGCCCTA--T-GA---A----------ACTAACACTGAA---------CCA-GAGTA-ATTAG------------CTAAACTAAACCATT-CACCC--CAT---ATTAAAAGTATAGGAGATAGAA-----AT-----TTA--TATCCAGGCGCTATAGAG----AAAGTACCGTAAGGGAAA-GATGAAA-G--ATTAGTTAA------------TAGCACAAAAAAG-CAGAGATTACTTCTCTTACCTTTTGCATAATGAATTAGCTAG-AAAATCCTTAGCAAAAAGAATTTTAGTTAAGAACCCCGAAA-CCAGACGAGCTATTTATGAGCAGTTG-----A--AA---GAACGAACCCGTCCATGTGGCAAAATGGTGGGAAGACTTGTAAATAGAGGTGAAAAGCCAACCGAGCCTGGTGATAGCTGGTTGTCCA-GAAT-A-GAATTTTAGTTCAACTTTAAA------T-------TTTCCT------------------AAAG------GA-CAT i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 866 628 + 16300 AGA------GAGCTTAATTGAATAGAGCAATGAAGTACGCACACACCGCCCGTCACCCTCCT--CAAAT----------TA-GATTGACATTCACA-TATACAT-AATTTCACTAACA--AATTT-ATG-AGAGGAGATAAGTCGTAACAAGGTAAGCATACTGGAAAGTGTGCTTGGAAT--A-ATCACAGTGTAGCT-TA-A-TCACAAAGCATCTGGCCTACACCCAGAAGAA---TTCATAAAAAA--TGAACACTTTGA-AC--TAACC-----CTAGCCCTA--C-AAC-CA----------ACCAACAT--AA---------CTA-AACC--CCCAC------------ATAAACTAAAACATT-TAACT--CA-------AAAAGTATTGGAGAAAGAA-----AT-----TTACTTACC-AAGAGCTATAGAG----AAAGTACCGCAAGGGAAATGATGAAA-G--ACTAATTTA------------AAGTAAAAACAAGACAAAGATTAAACCT-GTACCTTTTGCATAATGAATTAACTAG-AAAATCCTTAACAAAAAGAATTTAAGCTAAGAACCCCGAAA-CCAAACGAGCTACCTAAAAACAATTT-----C--AT---GAATCAACCCGTCTATGTAGCAAAATAGTGGGAAGATTTTTAGGTAGAGGTGAAAAGCCTATCGAGCTTGGTGATAGCTGGTTGCCCA-AAAA-A-GAATTTCAGTTCAAACTTTAA------G-------CTTCCA------------------TCAG------AA-CAA i rn4.chrM C 0 C 0 s hg18.chrM 1445 625 + 16571 AGA------GTGCTTAGTTGAACAGGGCCCTGAAGCGCGTACACACCGCCCGTCACCCTCCT--CAAGTA---------TA-CTTCAAAGGACATT-TA---AC-TAAAACCCCTACG--CATTT-ATATAGAGGAGACAAGTCGTAACATGGTAAGTGTACTGGAAAGTGCACTTGGACG--A-ACCAGAGTGTAGCT-TA-A--CACAAAGCACCCAACTTACACTTAGGAGAT---TTCAACTTAAC-TTGACCGCTCTGA-GC--TAAAC-----CTAGCCCCA--A-ACC-CA----------CTCCACCT--TA---------CTA-CCAG--ACAAC------------CTTAGCCAAACCATT-TACCC--AA------ATAAAGTATAGGCGATAGAA-----AT-----TGA--AACC-TGGCGCAATAGAT----ATAGTACCGCAAGGGAAA-GATGAAA-A--ATTATAACC------------AAGCATAATATAG-CAAGGACTAACCCCTATACCTTCTGCATAATGAATTAACTAG-AAATAACTTTGCAAGGAGAGCCAAAGCTAAGACCCCCGAAA-CCAGACGAGCTACCTAAGAACAGCTA-----A--AA---GAGCACACCCGTCTATGTAGCAAAATAGTGGGAAGATTTATAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGGTTGTCCA-AGAT-A-GAATCTTAGTTCAACTTTAAA------T-------TTGCCC------------------ACAG------AA-CCC i hg18.chrM C 0 I 2 s panTro2.chrM 861 626 + 16554 AGA------GTGCTTAGTTGAACAGGGCCCTGAAGCGCGTACACACCGCCCGTCACCCTCCT--CAAGTA---------TA-CTTCAAAGGATACT-TA---ACTTAAACCCCCTACG--TATTT-ATATAGAGGAGATAAGTCGTAACATGGTAAGTGTACTGGAAAGTGCACTTGGACG--A-ACCAGAGTGTAGCT-TA-A--CATAAAGCACCCAACTTACACTTAGGAGAT---TTCAACTCAAC-TTGACCACTCTGA-GC--CAAAC-----CTAGCCCCA--A-ACC-CC----------CTCCACCC--TA---------CTA-CCAA--ACAAC------------CTTAACCAAACCATT-TACCC--AA------ATAAAGTATAGGCGATAGAA-----AT-----TGT--AAAC-CGGCGCAATAGAC----ATAGTACCGCAAGGGAAA-GATGAAA-A--ATTATACCC------------AAGCATAATACAG-CAAGGACTAACCCCTGTACCTTTTGCATAATGAATTAACTAG-AAATAACTTTGCAAAGAGAACCAAAGCTAAGACCCCCGAAA-CCAGACGAGCTACCTAAGAACAGCTA-----A--AA---GAGCACACCCGTCTATGTAGCAAAATAGTGGGAAGATTTATAGGTAGAGGCGACAAACCTACCGAGCCTGGTGATAGCTGGTTGTCCA-AGAT-A-GAATCTTAGTTCAACTTTAAA------T-------TTACCT------------------ACAG------AA-CCC i panTro2.chrM C 0 I 2 s rheMac2.chr5 34436553 630 - 182086969 AGA------GTGCTTGGTTGAATAAGACCATGAAGCATGCACACACCACCCGTCACCCTCCT--CAAATA--------TTA-CTGTAGAAATCACTATT---AC-TAATAGTTTTATA--TGCAC-ATATAGAAGAGATAAGTTGTAACATGTTAGGCATACTGGCAAGTGTGCTTGGACA--A-ACCAAAGTGTAGCT-TA-A--ACCAAAGCATCTGGCTTACACCTGGAAAAT---TTCACTGTGAA-CTGATCACTTTGA-GC--TAACT-----CTAGTACCA--A-ACCTCG----------CTAAAAAA--TA---------TTA-TTAA--ACTAT------------CTTAATCAGGTGATT-TACTTTAGA------AAAAAGTATAGGTGATAGAA-----AT-----TTT--TACCATGGCGCAATAGAC----ATAGTACCATAAGGGAAA-GATGAAAGA--ACTATA-TC------------AAGCACTAAAAAG-CAAAGACAAGCCCTCATACTTTCTGCATAATGTATTAACTAG-AAAT-ACTTTACACAGAGAACTATAGCCAAGTCCCCCAAAA-ACAGACGAGCTACCCAAGAATAACTG-----A--AA---GAGCACACTCATCTATGTGGCAAAGTAGTGGGAAGATTCAGCAGCAGCGGTGACAAGCCTACCAAGCCTGGTGATAGCTGGTTATCCA-AGAT-A-GAATCTTAATTCAACTTTAAA------C-------TTAGCC------------------ACAG------AA-TTA i rheMac2.chr5 C 0 I 1 s bosTau2.chrM 1227 638 + 16338 AGA------GTGCTTAGTTGAATTAGGCCATGAAGCACGCACACACCGCCCGTCACCCTCCT--CAAATAG--ATTCAGTG-CATCTAACCCTATT-TA---AA-CGCACTAGCTACA--TG--------AGAGGAGACAAGTCGTAACAAGGTAAGCATACTGGAAAGTGTGCTTGGATA--A-ATCAAGATATAGCT-TA-A---ACAAAGCATCCAGTTTACACCTAGAAGAC---TTCATTCATTA--TGAATATCTTGA-AC--TAGAC-----CTAGCCCAAAGA-TAC-CC----------TCTCGACT--AA---------ACA-ACCAAGATAGA------------ATAAAACAAAACATT-TAATC--CCA---ATTTAAAGTATAGGAGATAGAA-----AT-----CTA--AGTA-CGGCGCTATAGAG----AAAGTACCGCAAGGGAAC-GATGAAA-GAAAAAAACTAA------------AAGTATAAAAAAG-CAAAGATTACCCCTTGTACCTTTTGCATAATGAATTAACTAGTATAAGACTTAACAAAATGAATTTTAGCTAAGCAGCCCGAAA-CCAGACGAGCTACTCACAAACAGTTT-----ACCAA---GAACTAACTCATCTATGTGGCAAAATAGTGAGAAGATTTGTAAGTAGAGGTGACATGCCTAACGAGCCTGGTGATAGCTGGTTGTCCAGAAAA-T-GAATCTAAGTTCAGCTTTAAA------G-------ATACCA------------------AAAAT----TCA-AAT i bosTau2.chrM C 0 C 0 s canFam2.chrM 866 628 + 16727 AGA------GAGCTTAATTGAATAGGGCCATGAAGCACGCACACACCGCCCGTCACCCTCCT--CAAGTA---ATAAGACA-CAACCATAACCATA-TT---AA-CTTAACTAAAACA--CA--------AGAGGAGACAAGTCGTAACAAGGTAAGCATACCGGAAGGTGTGCTTGGATT--A-ATCAAAGTGTAGCT-TA-A---CTAAAGCGTCTGGCCTACACCCAGAAGAT---TTCATTACTTA--TGGCCACTTTGA-AC--AAAAG-----CTAGCCCAA--C-TAA-CC----------CCAAACTT--AA---------GTA-TTACAGACA-C------------ATAAAATAAAACATT-TAGTT--AAA--CAATAAAAGTATAGGAGATAGAA-----AT-----TTT--AAT--TGGAGCGATAGAG----ATAGTACCGTAAGGGAAT-GATGAAA-G--ACATCTTAA------------CAGTATTAAACAG-CAAAGATTACCCCTTCTACCTTTTGCATAATGAACTAGCCAG-AAACAACTTAACAAAGAGAACTTAAGCTAAGCTCCCCGAAA-CCAGACGAGCTACCCATAAACAATCT-----A-AAA---GGATCAACTCATCTATGTAGCAAAATAGTGAGAAGATTTGTGGGTAGAGGTGAAAAGCCTAACGAGCCTGGTGATAGCTGGTTACCCACAGAC-A-GAATTTTAGTTCAACTTTAAA------T-------TTACCt------------------aaaa------aa-aat i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 4675 637 - 16977 AGA------GAGTTTAGCTGAACCAGGCCATAAAGCACGCACACACCGCCCGTCACCCTCTT--CAATTAT--AAGCGCCA-CATAAACTAAAACA-C----AT-TAATTCAGTAGCA--ACTAT-ATA-AGAAGAGACAAGTCGTAACAAGGTAAACATACTGGAAAGTGTGTTTGGAT---A-ACCAAAGTGTAGCT-TA-C-AACCAAAGCATCCGGCTTACACCCAGAAGAC---TTCAGATAGAC--TGACCACTTTGA-AC--TAGAC-----CTAGCCCTA--A-ACC-CA---------CAACAACAA--TA---------CTA-TCAC--ACAGC-----------AATAAATCAAAACATT-TACCA--AATACTAACTAAAGTATAGGAGATAGAA-----AT-----TTT--ACTA-AGGCGCTATAGAA----ATAGTACCGCAAGGGAAA-GATGAAA-G--ACCCCCTGA------------TAGTAAGAAACAG-CAAAGACTAATACTTTTACCTTTTGCATAATGAATTAACTAG-ACTAATTTTGGCAAAGAGAACTTTAGTCAAATATCCCGAAA-CCAGACGAGCTACTTATGGACAGTAA-----T--TA---GTACTAACTCATCTATGTCGCAAAATAGTGAGAAGATCTGTAAGTAGAGGTGAAAGACCAACCGAGCCTGGTGATAGCTGGTTGCCCA-GAAC-A-GAATTTTAGTTCAACTTAAAA------C-------TTATCT------------------CAAG------AA-CCA i dasNov1.scaffold_23239 C 0 I 4 s loxAfr1.scaffold_36650 3880 627 + 16266 AGA------GAGCTTAATTGAACAAGGCTATGAAGCGCGTACACACCGCCCGTCACTCTCCT--CAAGTATCCCCACATCA-----AACAATCATA-TT---AC-AG--ATTTAAACA--AATAC-A---AGAGGAGACAAGTCGTAACAAGGTAAGCGTACTGGAAAGTGCGCTTGGATA--A-CTCAAAGTGTAGCT-TA-A--CAAAAAGCATCTGGCTTACACCTAGAAGAC---CTCATTTACAA--TGATCACTTTGA-AC--TAAAT-----CTAGCCCTA--C-CAA-CC----------CTACACTC--AA---------TTC-TCAT--ATTAT-----------ATTAAATCAAAACATT-CACTT--AC-----CAAAAAGTATAGGAGATAGAA-----AT-----TTC--ACTA-AGGCGCAATAGAG----ATAGTACCGCAAGGGAAT-GATGAAA-G--ATAGTTTAA------------TAGTAAAAAATAG-CAAGGATTAACCCCTTTACCTTTTGCATAATGAATTAACTAG-AAAA-ATCTGACAAAGAGAACTATAGCCAGAAACCCCGAAA-TCAGACGAGCTATCTGATAGTAATCC-----C--CA---GGATCAATTCATCTATGTGGCAAAATAGTGAAGAAACTTACAGATAGAGGTGAAATACCAATCGAGCCTGATGATAGCTGGTTGTCCA-GAAATA-GAATTTTAGTTCTACCTAAAA------C-------TTACCA------------------CAAA------AACAAA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 131 630 + 18297 AGA------GTGCTCAGTTGAAACTGGCCATGAAGCGCGCACACACCGCCCGTCACCCTCCT--TA---ATTTATATATTATAAGTAACCTCCATA--A---AC-AGCTACTTATACA--CCCCA-T---AAAGGAGACAAGTCGTAACAAGGTAAGCATACTGGAAAGTGTGCTTGGAAA--ACCTCAAAACGTAGCT-TA-A--T-AAAAGCATCTGGCCTACACCCAGAAGAT---TTCA-TGACAC--TGACCGTTTTGA-AC--TAAAT-----CTAGCCCAA--CTCAA-AT----------AGAAACTT--AA----------CC-AAAT--AAAAC-----------TTTAATATAAAACATT-TG-TA--GA-----CATAAAGTATAGGAGATAGAA---ATAT-----TCC--ATAG-ATGCGCTATAGAG----ATAGTACCGTAAGGGAAA-AATGAAA-G--ATAACTTAA------------TAGTACCAAAAAG-CAAAGCTTAAACCTTATACCTTTTGCATAATGAGTAAACTAG-AAAATTTTTGACAAAGGGAACTTTAGCCAAAAACCCCGAAA-CCAGACGAGCTACCCTAGAGCAATCT-----T-GTT---GGATCAACTCATCTATGTGGCAAAATAGTGAGAAGACTTTAAGGTAGAGGTGAAAAGCCAACCGAGCCTGGTGATAGCTGGTTGCCCA-AGAA-A-GAATTTAAGTTCGACCTAAAA------A-------TTACTA------------------CCAA------TA-ACt i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117152298 631 + 174229318 AGA------GTGCTTAATTGAATTAGGCAATAGGGCGCGCACACACCGCCCGTCACCCTCCT--CAACTC---------AA-CCTACAAAAATACT-TA---AT-AA-------TATA--TCTAA-GTAAAGAGGAGAAAAGTCGTAACACGGTAAGTGTACTGGAAAGTGCACTTGGAAT--A--TCAAAATGTAGCT-TA-ACTACTAAAGCATTTAGCTTACACCTAAAAGAT---TTCAGTTAATT-CTGACCATTTTGA-GC--CAATT-----ATAGCTCTA--A-CAA-TC----------TTCAAATA--AA---------CTATTTAT--ACACT------------TATATTTAAAACATT-TTAAT--TC------CCCTAGTATAGGAGATAGAACAGAAAC-----ATA--A----TGAAGCAATAACA----ATAGTACCGTAAGGGAAAAAATGAAA-G--ATAGATTGA------------TAGCATAAAAAAG-CAAAGATTAAACCTTGTACCTTTTGCATAATGATTTAGCCAG-TCAA-CATAGGCAAAAAGAATTTAAGCCTAGAACCCCGAAA-TTAAGTGAGCTACTATAGAACAGTTA-----TTTAT---GAACTTACTCCTCTATGTGGCAAAATAGTGAGAAGATTTTATAGTAGAAGTGAAAAACCTATCGAACTTAATGATAGCTGGTTATCCA-AAAT-ACGAATTTTAGTTCAACCTTAAG------T-------TTAACA------------------CAAAGCATACGA-TAT i monDom4.chrUn C 0 C 0 s galGal2.chrM 2111 664 + 16775 ATACCCCCTAAGCTCACTTTAAGACGGCTCTGAGGCACGTACATACCGCCCGTCACCCTCTT--CACAAGCCATC----AA-CATCAATAAATATA-TA---CT-TCCCCTCCCGGCT--AA--------AGACGAGGCAAGTCGTAACAAGGTAAGTGTACCGGAAGGTGCACTTAGACT--A--CCAAGGCGTAGCTATA-A-CTTCAAAGCATTCAGCTTACACCTGAAAGATACCCTCAACAGACA--AGGTCGCCTTGA-CT--TGCCCCCCCTCTAGCCCGA--C-AAA-CT----------CGTACCCT--TA---------ACA-TAAA--AAACT-TACCTCCCCCTCTTAACCAAAACATTATAAAT--TG------TCCCAGTATAGGCGATAGAA-----AA-----GAC--TACCCCGGCGCAATAGAGGCTAACTGTACCGCAAGGGAAA-GATGAAA-T--AGCAATGAAAACCAT------AAGCAAAAAACAG-CAAAGACCAACCCTTGTACCTTTTGCATCATGATTTAGCAAG-AACA-ACCAAGCAAAGTGAGCTAAAGTTTGCCTTCCCGAAACCCAAGCGAGCTACTTGCGAGCAGCTA-----A--AATTTGAGCGAACCCGTCTCTGTTGCAAAAGAGCGGGATGACTTGCCAGTAGAGGTGAAAAGCCTACCGAGCTGGGTGATAGCTGGTTACCTG-TCAA-ACGAATCTAAGTTCCCCCTTAAC------C-------CACCCC------------------CTAA------AG-ACA i galGal2.chrM C 0 I 23 s xenTro2.scaffold_18215 7 644 + 3330 AGA------GAGCTCTCTTTAA-ATGGCCCTGGGGCGCGCACACACCGCCCGTCACCCTTCTTCCAAAAACCACC----TA-CCTTAAATAAAACA-TT---AC-AA------AAACA--A---------AGAAGAGGCAAGTCGTAACATGGTAAGCGCACCGGAAGGTGCGCTTGGA------ATCAAAGTATAGCT-TA-A--CCTAAAGCCCCTCGCTTACACCGAGACGAT---ATCCGTTAAACCCAGATTACTTTGA-GCCATAAAC-----CTAGCCTTA--T-TAT-TT----------ACCAACAA--AAGATTACCCCCTA-CACCA-ACCCC------------ACCAACTAAACCATT-T---T--AA----ACTTTTAGTATAGGCGATAGAA-----AC-----AAG--TCT--AAGAGCTACATAT----CCAGTACCGCAAGGGAAA-GGTGAAA-T--AGAAATGAAACAAAT--AATAAAGCAACAAACAG-CAGAGAAAAACCCTCGTACCTTTTGCATAATGGTCTAGCAAG-TCCTAGTCAAGCAAAAAGAATTTAAGTTTGACCCCCCGAAA-CTAAGCGAGCTACTCCGAGACAGCTT-----T-TTA---GAGCCAACCCGTCTCTGTGGCAAAAGAGTGGGAAGATCTCCGAGTAGGGGTGACAGACCAAACGAGCTTAGTGATAGCTGGTTGCTCA-GGAA-ACGAATATAAGATCAACTCTAAG------TCCCGTTATTAGCA------------------AACA------AA-GCA i xenTro2.scaffold_18215 N 0 C 0 s tetNig1.chrUn_random 103510618 674 + 171761319 AGA------GTGTCTTACTGAAACCGGCCATGAAGCGCGCACACACCGCCCGTCACTCTCCC--CAAAT----------CA-AACCCAC----CAA-TA---AT-TAATACACTATCA--CACACAA---AGGGGAGGCAAGTCGTAACATGGTAAGTGTACCGGAAGGTGCACTTGGAAA--A-ATCAGAATATAGCT-TAGA-TAGAAAAGCACCTCCCTTACACCGAGGAGCC---ACCCGTGCAAATCGGATTATTCTGACAC--CTAAT---AGCTAGCCCCT--C-CCC-CAAAAACAAAAAATAACTAT--TA---------ATA-CCCC--CTAATACACTTAATTAACCAAAACAAACCATT-TTTCC--CC-------CTAAGTATGGGCGACAGAA-----AAGGACCTAA---------GAGCTACAGAC----AAAGTACCGCAAGGGAAC-GCTGAAA-G--AGAAGTGAAACAACCCAGTTTAAGTACAAAAAAG-CAGAGATTAAACCTCGTACCTTTTGCATCATGATTTAGCCAG-CAAACCTTAGGCAAAGAGCACTTTAGTCTAATTCCCCGAAA-CTGGACGAGCTACTCCAAGACAGCCT-----TCATA---GGGCACATCCGTCTCTGTGGCAAAAGAGTGGAAAGAGCTTTGAGTAGAGGTGACAAACCTACCGAGCCCAGTAATAGCTGGTTGCCCG-AAAA-TTGAGTTTAAGCTCAGCTTTTTAGCTTCTT-------GCCTCACCAACAGTAAAAACACAA---------------- i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 1817 657 + 16596 AGA------GTGTCTCTTTGAACCCGGCTCTAAGGCGCGTACACACCGCCCGTCACTCCCTC--C-GGT----------CA-ATTGCACAAG-AAA-TA---AT-TAATACAGAAGCA--CAGAC-A---AGGGGGGAAAAGTCGTAACAAGGTAAGTGTACCGGAAGGTGCACTTGGACATTA-TCCAAGACGTGGCT-GA-A-CAGTTAAGCATCTCACTTACACCGAGAAAAC---ATCCGTGCAAATCGGATCGTCCTGA-GC--TAAAT---AGCTAGCTTAA--C-CAT-CAAGATCAACTTAAAAACAT--CA---------ATA-ACCT--ATAATCAACCTAAAACCACAAACTAAACCATT-ATATT--AT-------CCTAGTATGGGAGACAGAA-----AAGA---TAA--AATA-CTAAGCAATAGAG----AAAGTACCGCAAGGGAAC-GCTGAAA-G--AGAAATGAAATAACCC-GTAAAAGCAATAAAAAG-CAAAGATTAAACCTTGTACCTTTTGCATCATGATTTAGCCAA-C-ACCACTAGGCAAAGAGACCTTTAGTTTAAAGCCCCGAAT-CCAGGTGAGCTACCCCGAGACAGCCTATTTAACTTA---GGGCCAACCCGTCTCTGTGGCAATAGAGTGGGAAGAGCTCCGGGTAGAAGTGACAGACCTATCGAACCCGGCAATAGCTGGTTGTCTG-GGAG-ATGAATAAAAGTTCAGCTTCGTA------C-------ACCCCa---------------------------------- i danRer4.chrM C 0 I 27 a score=160222.000000 s mm8.chrM 1497 81 + 16299 CAAAATCAAA------AAGTAAG----TTTAGATTATAGCCAAAAGAGGGACAGCTCTTCTGGAA--CGGAAAAAACCTT-TAATAGTGAATAA--------- s oryCun1.scaffold_140182 1604 81 + 20791 AAAA-CCCTA------ATGAAAA----TTTAAATGTTACTCTAAAGAGGGACAGCTCTTTAGATA-TAGGACACAGCCTT-TTATAAAGAGTAA--------- i oryCun1.scaffold_140182 C 0 M 1789 s rn4.chrM 1494 81 + 16300 CAAA-TCAAA------ATGTAAA----CTTAAAATATAGCCAAAAGAGGGACAGCTCTTTAGGAA-ACGGAAAAAACCTT-AAATAGTGAATAA--------- i rn4.chrM C 0 C 0 s hg18.chrM 2072 82 + 16571 TAAA-TCCCC------TTGTAAA----TTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTGGACACTAGGAAAAAACCTT-GTAGAGAGAGTAA--------- i hg18.chrM I 2 C 0 s panTro2.chrM 1489 82 + 16554 TAAA-TCCCC------TTGTAAA----CTTAACTGTTAGTCCAAAGAGGAACAGCTCTTTAGACACTAGGAAAAAACCTT-GTAAAGAGAGTAA--------- i panTro2.chrM I 2 C 0 s rheMac2.chr5 34437184 76 - 182086969 TTAA-TTTCC------CAGTAAG----TGTAACTA-------ACTAAGGGACAGCTCTTTAGACCCTAGGAAACAACCTTCCTACAGAGAGTAA--------- i rheMac2.chr5 I 1 C 0 s bosTau2.chrM 1865 79 + 16338 -AAA-CCCCA------CTGTAGC----TTTAAAAGTTAGTCTAAAAAGGTACAGCCTTTTAGAAA-C-GGATACAACCTT-GACTAGAGAGTAA--------- i bosTau2.chrM C 0 C 0 s canFam2.chrM 1494 81 + 16727 aaaa-tttta------atgtaaa----tttaaaatataGTCTAAGAAGGTACAGCTTCTTAGAAT-CAGGATACAACCTT-TATTAGAGAGTAT--------- i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 5316 82 - 16977 TTAA-TCTTA------ATATAAG----TTTTAAATATACTCAATAGAGGTACAGCTCCATTGAAACAGGTATTAAACCTG-CACAGGAGAGTAA--------- i dasNov1.scaffold_23239 I 4 C 0 s loxAfr1.scaffold_36650 4507 81 + 16266 ATAA-TTCCA------ATGTAAG----TTTTAGAGATATTCAAAAGGGGTACAGCTCTTTTGACC-AAGGATACAACCTT-GATTAGCGAGTAA--------- i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 761 81 + 18297 ataa-attta------atgtaat----ttttagttataattaaaaGAGGTACAGCTCTTTTAATT-GAGGAAACAACCTT-ATTTAGAGAGTAA--------- i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117152929 81 + 174229318 CAAA-GCATA------TCTTAGA----CTTAATAGTTAATCAAATGAGGGACATCTCATTTGATA-AAGTGGACAAACTT-CATAAGAGGGTAA--------- i monDom4.chrUn C 0 C 0 s xenTro2.scaffold_18215 651 75 + 3330 AAA-----------------AACACTTCTTAGAATTTATTCAACCAGGGTACAGCCTGGTTGAAA-CAGGATACAACCTA-CAACTATGGGTAA--------- i xenTro2.scaffold_18215 C 0 I 10 s tetNig1.chrUn_random 103511292 89 + 171761319 ------CCGATTTA--AAGAAAC----TAAAAAAGTTAGTCAAAGGGGGTACAGCCCCTCTGACC-CAAGAAACAACTTT-CCCAGGAGAATAAGGATCCTAA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 2501 91 + 16596 ------CAAAATTAAGAGAAAAA----TACGAAAGTTAGTTAAAGAGGGTACAGCCCCTTTAACA-AAGGATACAACCTT-TTCAGGAGAATAAAGATCATAA i danRer4.chrM I 27 C 0 s galGal2.chrM 2798 72 + 16775 ----------------CGTTGGG----GTTAAGAGCAATTCGATGGGGGTACAGCTCCATCGAAA-AAGAACACAACCTC-CTCCAGCGGATAA--------- i galGal2.chrM I 23 C 0 a score=164919.000000 s mm8.chrM 1578 166 + 16299 TTAACAAAAC---------AGCTTTT--------------AACCAT-------TGTAGGCCTAAAAGCA-GCCACCAAT-AAAGAAAGCGTTCAAGCTCAACATAAAATTTCA-----ATTAATTCCA--TAA-------TTTACACCAA----------CT-TCCTAA-----ACT-TA-AAATTGGGTTAA-TCTATAACTTTATAGATGCAACACTGTTAGTATGAGT s rn4.chrM 1575 163 + 16300 ACAACTACA----------ATCACTT--------------AACCAT-------TGTAGGCTTAAAAGCAAGCCATCAAT-AAAGAAAGCGT-CAAGCC--ACATCATCTTACACACACACTAATTCCA--CAA-------ACCTCAAAAA-----------T-TCCAAA-----ATT-AC-AAATTGGGCTAAATCTATGATCCTAGTGA----ATACTGTTAATATGTG- i rn4.chrM C 0 C 0 s oryCun1.scaffold_116167 3974 163 + 15695 -------------------GTTATTTTC-----------AATCCAT-------AGTTGGCTTAAAAGCA-GCCATCAAT-TAAGAAAGCGTTAAAGCT---CAACAACTAAAA-----ACCAACTTAA--TAAGAATATTTTAAAACGAA----------CT-CTTATA-----AAC-CC-TAACTGGACTAA-TCTATAAATCTATAGAAGAAATAATGCTAATATAAGT i oryCun1.scaffold_116167 n 0 C 0 s hg18.chrM 2154 159 + 16571 ------AAA----------ATTTAAC--------------ACCCAT-------AGTAGGCCTAAAAGCA-GCCACCAAT-TAAGAAAGCGTTCAAGCT---CAACACCC---------ACTACCTAAA--AAA-------TCCCAAACATATAAC---TGAA-CTCCTC-----ACA-CC-CAATTGGACCAA-TCTATCACCCTATAGAAGAACTAATGTTAGTATAAGT i hg18.chrM C 0 C 0 s panTro2.chrM 1571 159 + 16554 ------AAA----------ATTTAAC--------------ACCCAT-------AGTAGGCCTAAAAGCA-GCCACCAAT-TAAGAAAGCGTTCAAGCT---CAACACCC---------ACAACCTTAA--AGA-------TCCCAAACATACAAC---CGAA-CTCCTT-----ACA-CC-CAATTGGACCAA-TCTATTACCCCATAGAAGAACTAATGTTAGTATAAGT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34437260 158 - 182086969 ------AAA----------ATATTAC--------------CACCAT-------AGATGGCCCAAAAGCA-ACCACCAGT-TAAGAAAGCATTTAAATT---CAACTTCT---A-----ACTATCTTCA----A-------TTCTAATCACTCTAC---TGTT-CTCCTA-----ACA-CC-ACATTGGACTAA-TCTATTATGTAATAGAAGCAATAATGTTAATATAAGT i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 1944 161 + 16338 ------AAT----------TTAACAC--------------TACCAT-------AGTAGGCCTAAAAGCA-GCCATCAAT-TAAGAAAGCGTTAAAGCT---CAACAACA---------AAAATTAAAT--AGA-------TTCCAACAACAAATG--ATTAA-CTCCTA-----GCC-CCAATACTGGACTAA-TCTATTATAGAATAGAAGCAATAATGTTAATATGAGT i bosTau2.chrM C 0 C 0 s canFam2.chrM 1575 161 + 16727 ------ATA----------CTAATAT--------------CACCAT-------AGTTGGCTTAAAAGCA-GCCACCAAT-TGAGAAAGCGTTCCAGCT---CAACAAAC---------AATA-TAACT--TAA-------TCCCAACCATACTAC--ATCAA-CTCCTAATTATACC-CC----CTGGGTCAT-TCTATTTAAGTATAGAAGCAATAATGCTAGTATGAGT i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 5398 161 - 16977 --GCCGTAT----------AAAACAC--------------TTACAT-------AGTTGGCCTAAAAGCA-GCCATCAAT-AAAGAAAGCGTTAAAGCT---CAACAACA---------AAACAATGAC--AGA-------TACCAAAAAC-CACT--GCCAC-CTCCCA-----ACC-TA-ATACTGGGCCAA-TCTATA--TAAATAGAAGAGATAATGTTAGTATAAGT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 4588 164 + 16266 ---------ATTCA-----CCATTAA--------------TTTCAT-------AGTTGGCTTAGAAGCA-GCCATCAAT-TAAGAAAGCGTTAAAGCT---CAACAACC---A-----ACCAAACTAAAAAGA-------TTCCAAA-ATTAATT-AATGAT-CTCCTA-----AACATA-ATACTGGACTAA-TCTAT--ATAAATAGAAGAAATAATGTTAGTATAAGT i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 842 159 + 18297 ---------ACAC------CAAATAA--------------TTTCAT-------AGTTGGCCTAAAAGCA-GCCACCAAT-TAAGACAGCGTTAAAGCT---CAACAATT---T-----ATTTCTCT----AGA-------TTCC----ATTAATTCAATTCTACTCCTA-----AAT-TT-ATATTGGGCAAA-TCTATTCTTATATAGAAGCTAATCTGTTAACATAAGT i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117153010 162 + 174229318 -------------TGACTTATTTTAA--------------CCCCAT-------CGTAGGCCTAAGAGCA-GCCACCAAT-TAAGAAAGCGTTAAAGCT---CAAACATA--GA-----ATTTTATTCA--ATA-------CCCTAAAACTATCAA-----AA-CCCCTA-----TAA-CA-ATATTGGATGAT-TCTATTAAACTATAGAAGACATAATGCTAAAATCAGT i monDom4.chrUn C 0 C 0 s galGal2.chrM 2870 152 + 16775 -------------TAATCACCCCTCC--------------CCGCAC-------TGTGGGCCTTCAAGCA-GCCACCAACAAAAGAGTGCGTCAAAGCT---C----------------CCTCATTAAA--AAA-------TCTAAAACCCTATTT-----GA-CTCCCT-----CAA-CC-AAAGCAGGTTAA-CCTATGA--CAATAGAAGAATCAATGCTAAAATGAGT i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18215 736 160 + 3330 --------------------------TCGACAGGAAAATGAACCA---------GTGGGCCTAAAAGCA-GCCACCTGT-TAAGAAAGCGTCAAAGCT---CCCTCATA---------TACCTTCCGC--CAA-------TACCGACATCTCCTC----CGA-ACCCTT-----TTT-CC-GTACTGAGCTGT-TCAATTCTAATATTGAAGCACCTATGCTAGAACTAGT i xenTro2.scaffold_18215 I 10 M 106 s tetNig1.chrUn_random 103511381 162 + 171761319 -------------------TAACAAA--------------GGCCATGTGTTTAGGTGGGCCTAAAAGCA-GCCACCC-T-ATTGAAAGCGTTAAAGCT---CAAACACA---------CCCCCGCCAC--TAA-------TACCGATAAATACAT---CCTA-ACCCCT-----GAC-CC-TTATCGGGCCTT-TCTATGCATACATAGAAGAGACTATGCTAATATGAGT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 2592 163 + 16596 ------------------TTTACAAA--------------ACACGT-TGTCGTAGTGGGCCTGGAAGCA-GCCACCTAA-AAAGAAAGCGTTAAAGCT---CAGGTAAG---------AAGAAATTCA--TAA-------TTCTGACAATAATAT---CTTA-CTTCCC-----TAA-AA-ATACCAGACTAA-TCCATACAAATATGGAAGAAATTATGCTAAAATGAGT i danRer4.chrM C 0 C 0 a score=-81423.000000 s mm8.chrM 1744 113 + 16299 AACAAGAA----TTCCAATTCTC---------------CA--GGCATACGCG-TATAACA----A---CTCGGATA-ACC--ATTGTTAGTTAATCAGACT------------ATAGGC-----A-------ATAATCACA-CTATA-AATAATCCACCTATAACTT-CT-CT--- s galGal2.chrM 3022 103 + 16775 AATCTGGA-----ACCTATCCTC---------------CTACGGCGTAAACT-TACATTA----A--------TAC-ATT--ATTAACAGAAC-TCAACTT------------ATACCC-----C--------CACACTAA-CAAGC-AAT-ACGTAT---TCCTCA-AT-CT--- i galGal2.chrM C 0 C 0 s monDom4.chrUn 117153172 110 + 174229318 AATAAGAA------CTCATTCTC---------------CT--TGCATAAGCC-TAAGTTA----GCCAACGGATTA-CCC--ACTAACACCTA-ACAAATAC----------AATATCT-----T--------TAATT-AA-CAACC-AGTGAATTAC---CCCAAT-AA-TT--- i monDom4.chrUn C 0 C 0 s echTel1.scaffold_181343 1001 107 + 18297 AACAAGAGA---ATAAATCTCTC---------------CC--CGCACAAGTA-TATATCA----G---AACGAATA-CTC--GCTGATAATTA-ACAACCT-----------AGTAATT----------------ATACAA-ACTCT-AGACTATTAT---ATTTAC-AC-TT--- i echTel1.scaffold_181343 C 0 C 0 s loxAfr1.scaffold_36650 4752 106 + 16266 AATAAGAA------GTATTTCTC---------------CC--TGCATAAGCT-TATATCA----G---GTCGGATG-CCC--GCTGATAGTTA-ACAACCG-----------AATAATT-----A---------GATACAA-AAATA-GAACCTTTAT---TATACC-AA-TT--- i loxAfr1.scaffold_36650 C 0 C 0 s dasNov1.scaffold_23239 5559 109 - 16977 AACAAGAA------TATTTTCTC---------------CG--TGCATAAGTG-TATATCA----G---ACCGGATAGACC--ACTGATAGTTA-ACA---------------AATAGGC-----ACCAAACTACCACCAAA-CAATA-ACAATGCCAT---ACACCT-----T--- i dasNov1.scaffold_23239 C 0 C 0 s canFam2.chrM 1736 110 + 16727 AACAAGAA-----CCATTTTCTC---------------CC--CGCATAAGCT-TATATCA----G-GAACGGATAG-ACC--ACTGATAGTTA-ACAATCT-----------GATAATA-----T--------CAACCCAA-AAATG-AAATACTTAT---CCACCC-CA-TT--- i canFam2.chrM C 0 C 0 s bosTau2.chrM 2105 109 + 16338 AACAAGAA-----AAATTTTCTC---------------CT--TGCATAAGTC-TAAGTCA----G-TGCCTGATAA-TAC--TCTGACCACTA-ACAGTC------------AATAAAA-----A--------TAATCCAA-CAATA-AACAATTTAT---TGATTA-TA-CT--- i bosTau2.chrM C 0 C 0 s rheMac2.chr5 34437418 121 - 182086969 AACATGAA------GATATTCTCTATTACATAAGCTTACA-CTGCATAAGCC-TACATCA----G---AATAACCC------ACTAACAGTTA-ACAGCCT-----------AATATTA-----A--------TAAACGATATAATA-AGCACCCTAT---TATTTA-CA-CT--- i rheMac2.chr5 C 0 C 0 s panTro2.chrM 1730 109 + 16554 AACATGAA------AACATTCTC---------------CT-CCGCATAAGCC-TACATCA----G---ACCAAAAT-ATTAAACTGACAATTA-ACAGCCT-----------AATATCT-----A--------CAATCAAC-CAACA-AGC-CATTAT---TACCCC-CG-CT--- i panTro2.chrM C 0 C 0 s hg18.chrM 2313 109 + 16571 AACATGAA------AACATTCTC---------------CT-CCGCATAAGCC-TGCGTCA----G---ATCAAAAC-ACTGAACTGACAATTA-ACAGCCC-----------AATATCT-----A--------CAATCAAC-CAACA-AGT-CATTAT---TACCCT-CA-CT--- i hg18.chrM C 0 C 0 s oryCun1.scaffold_116167 4137 110 + 15695 AACAAGAA-----TACTATTCTC---------------CT--TGCACAAGCT-TATATCA----G---ATCGGATG-CCC--ACTGATAGTTA-ACAGCCCT----------AATAGAA-----A--------TAATCCAC-AAATT-AATAATCTAT---TAACTTTCA-CT--- i oryCun1.scaffold_116167 C 0 C 0 s rn4.chrM 1738 106 + 16300 AACAAGAA------CCAATCCAC---------------CA--AGCACAAGTGCTAAGACA----A---C-CGGATA-ACC--ATTGTTAATTA-TTGAATC------------ATAGGC-----A--------TAACCCAA-CAATAGAATTACCTATCCCTAACTC--------- i rn4.chrM C 0 C 0 s tetNig1.chrUn_random 103511543 130 + 171761319 AATAAG--GGGCCAGACCCCCTC---------------CA--AGCACAAGTG-TACATCG----G---AACGAACT-CGC--ACCGAAGACTA-ACGAACCCAACCAAAGAGGGCAATGAATATC--------AAACCAAA-CAACA-AGAAAAACAT---TCACAA-CC-CCACC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 2755 127 + 16596 AACAAGAAGAACCTGTACTTCTC---------------CA--AGCACAAGTG-TAAGCCAAGTTG---GACAAAC----C--ATTGGCAATTA-ACGAGCCCAAACAAAGAGGGCAATG-----T--------GAGTTAAA-AACTG-AGAAAA--AT---CCACAA-CAGACATC i danRer4.chrM C 0 C 0 e xenTro2.scaffold_18215 896 106 + 3330 M a score=2385506.000000 s mm8.chrM 1857 323 + 16299 GTTAACCCAACACCGGAATGC---C-T----AAAGGAAAGATCCAAAAAGATAAAAGGAACTCGGCAAA--CAAGAACCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACAAGT--ATTAGAGGCACTGCCTGCCCAGTGAC-TA---A-A-GTTTaacggccgcggtatcctgaccgtgcaaaggtagcataatcacttgttccttaattagggactagcatgaacggctaaacgagggtccaactgtctcttatctttaatcagtgaaattgacctttcagtgaagaggctgaaatataataataagacgagaagaccctatggagcttaaATT s rn4.chrM 1844 320 + 16300 GTTAGCCCAACACAGGCGTGC---T-T----TAAGGAAAGTTTAAAAAAGT--AAAGGAACTCGGCAAA--CACGAACCCCGC-CTGTTTACCAAAAACATCTCCTCTAGC---ATAACAAGT--ATTAGTGGCATCGCCTGCCCAGTGAC-TA---A-A-GTTCCACGGCCGCGGTATCCCGACCGTGCAaaggtaggataatcacttgttccttaattagggactagaatgaatggctaaacgagggtccaaccgtctcttacttgcaatcagtgaaattgaccttccagtgaaggggcggactcataataa-aagacgagaagaccctatggagcttTAATT i rn4.chrM C 0 C 0 s oryCun1.scaffold_116167 4247 324 + 15695 GTTAACCCAACACAGGAGTGC---TAT----ATAGGAAAGATTAAAAGAAGAAAAAGGAACTCGGCAAA--CCCTAACCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACTAGT--ATTAGAGGCACTGCCTGCCCAGTGAC-GT---A-C-GTTCAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCACTTGTTCCTTAATTGGGGACTAGCATGAATGGCAACACGAGGGTTAAACTGTCTCTTTCTTCCAATCAGTGAAATTGACCTCCCCGTGAAGAGGCGGGGATAAAATAATAAGACGAGAAGACCCTATGGAGCTTTAATT i oryCun1.scaffold_116167 C 0 C 0 s hg18.chrM 2422 323 + 16571 GTCAACCCAACACAGGCATGC---T-CA---TAAGGAAAGGTTAAAAAAAGTAAAAGGAACTCGGCAAA--C-CTTACCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATCACCAGT--ATTAGAGGCACCGCCTGCCCAGTGAC-AC---A-T-GTTTAACGGCCGCGGTACCCTAACCGTGCAaaggtagcataatcacttgttccttaaatagggacctgtatgaatggctccacgagggttcagctgtctcttacttttaaccagtgaaattgacctgcccgtgaagaggcgggcatgacacagcaagacgagaagaccctatggagctttaatt i hg18.chrM C 0 C 0 s panTro2.chrM 1839 323 + 16554 GTTAACCCAACACAGGCATGC---C-CA---CAAGGAAAGGTTAAAAAAAGTAAAAGGAACTCGGCAAA--T-CTTACCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACCAGT--ATTAGAGGCACCGCCTGCCCGGTGAC-AT---A-T-GTTTAACGGCCGCGGTACCCTAACCGTGCAaaggtagcataatcacttgttccttaaatagggacttgtatgaatggctccacgagggtttagctgtctcttactttcaaccagtgaaattgacctacccgtgaagaggcgggcataacataacaagacgagaagaccctatggagcttTAATT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34437539 315 - 182086969 GTTAACCCAACAAAGGCATGC---T-C----TAAGGAAAGTTTACAAAAAGTGAAAGGAACTCAGCAAA--T-CTTACCCTGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACCAGT--ATTAGAGGCACTGCCTGCCCAGTGAC-GT---A-T-GTTCAACAGCTGCCATATCCTGACCATGCAAAGGTAGCATAATCACTTGTTCCCTAAGTAGGCACTTGTATGAATTGCTACACGAGGGTTCATCAGTCTCTTACTTT-------TGAAATTGACCTATCCGTGAAGAGATGGATATAAACAAATAAGATGAGAAGACCCTATGGAGCTTTAATT i rheMac2.chr5 C 0 I 384 s bosTau2.chrM 2214 324 + 16338 GTTAACCCAACACAGGAGTGC---A-TC---TAAGGAAAGATTAAAAGAAGTAAAAGGAACTCGGCAAA--CACAAACCCCGC-CTGTTTACCAAAAACATCACCTCCAGC---ATTCCCAGT--ATTGGAGGCATTGCCTGCCCAGTGAC-AA---C-T-GTTTAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCATTTGTTCTCTAAATAAGGACTTGTATGAATGGCCGCACGAGGGTTTTACTGTCTCTTACTTCCAATCAGTGAAATTGACCTTCCCGTGAAGAGGCGGGAATGCACAAATAAGACGAGAAGACCCTATGGAGCTTTACCT i bosTau2.chrM C 0 C 0 s canFam2.chrM 1846 324 + 16727 GTTAACCCAACACAGGTATGC---A-TT---CAAGGAAAGATTAAAAGGAGTAAAAGGAACTCGGCAAA--CACAAACCCCGC-CTGTTTACCAAAAACATCACCTCCAGC---ATTTCTAGT--ATTGGAGGCACTGCCTGCCCGGTGAC-AC---T-T-GTTTAACGGCCGCGGTATCCTGACCGTGCAAAGGTAGCATAATCATTTGTTCTCTAAATAGGGACTTGTATGAATGGCCACACGAGGGTTTAACTGTCTCTTACTCCCAATCAGTGAAATTGACCTTCCCGTGAAGAGGCGGGAATACCACAATAAGACGAGAAGACCCTATGGAGCTTTAATT i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 5668 327 - 16977 GTTAATCCAACACAGGCATGC---A-TAACTAACGGAAAGATTTAAAGGAATAGAAGGAACTCGGCAAA--CACGAATCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACAATT--ATTAGAGGCACCGCCTGCCCAGTGAC-AC---A-C-GTTTAACGGCCGCGGTACCCTGACCGTGCAAAGGTAGCATAATCACTTGTTCTCTAATTAAGGACCCGTATGAATGGCTAAACGAGGTTTCTACTGTCTCCTATTCCCTATCAGTAAAATTGACCTTCCCGTGAAGAGGCGGGAATAATCATATAAGACGAGAAGACCCTGTGGAGCTTAAATT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 4858 324 + 16266 GTTAACCCAACACAGGCATGC---T-T----AAGGGAAAGATTAAAAGAAGGAAAAGGAACTCGGCAAA--CACAAACCCCGC-CTGTTTACCAAAAACATCACCTCGAGC---ATTACTAGT--ATTCGAGGCACTGCCTGCCCAGTGAC-CA---AGC-GTTAAACGGCCGCGGTACTCTGACCGTGCAAAGGTAGCATAATCATTTGTTCCTTAATTAGGGACTTGTATGAACGGCCACACGAGGGTTTAACTGTCTCTTTCCTCTAATCAATGAAATTGACCTTCTCGTGAAGAGGCGAGAATAAACATATAAGACGAGAAGACCCTATGGAGCTTAAATT i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 1108 326 + 18297 GTTAACCCAACACAGGAGTGCACTC-T----AAAGGAAAGATAAAAAGAAGTAAAAGGAACTCGGCAAA--CTAAAATCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTACTAGT--ATTGGAGGCACTGCCTGCCCAGTGAC-CC---A-T-GTTTAACGGCCGCGGTACTCTGACCGTGCAAAGGTAGCATAATCATTTGTTCTCTAAATAAGGACTTGTATGAATGGCAACACGAGGATTTAACTGTCTCTTACTTCTTATCAGTGAAATTGACCTCCCCGTGAAGAGGCGGGGATTAGAACATAAGACGAGAAGACCCTATGGAGCTTAAATT i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117153282 327 + 174229318 GTTAACCCAACACAGGCATGC---A-CTACTAAAGGACAGATTAAAAAGAATAAAAGGAACTCGGCAAA--CCAAAACCCCGC-CTGTTTACCAAAAACATCACCTCTAGC---ATTTCAAGT--ATTAGAGGCACTGCCTGCCCAGTGAA-TT---A-A-TTTTaacggccgcggtatcctgaccgtgcaaaggtagcataatcacttgtctcctaaatagagacttgtatgaatggcaaaacgagggtttaactgtctctttttctcaatcaatgaaattgacctacccgtgcagaggcgggtataactttataagacgagaagaccctgtggagcttaaAAT i monDom4.chrUn C 0 I 9 s galGal2.chrM 3125 327 + 16775 GTTAAGCCAACCCAGGAGCGC---C------CACAGGATGATTAAAACCTACAGAAGGAACTCGGCAAA--CCAAAGACCCGA-CTGTTTCCCAAAAACATAGCCTTCAGCT-AACAACAAGT--ATTGAAGGTGATGCCTGCCCAGTGAC-CCCCAA-A-GTTCAACGGCCGCGGTATCCTAACCGTGCGAAGGTAGCGCAATCAATTGTCCCGTAAATTGAGACTTGTATGAATGGCTAAACGAGGTCTTAACTGTCTCCTGTAGGTAATCTATGAAATTAGTATTCCCGTGCAAAAACGAGAATGTGAACATAAGACGAGAAGACCCTGTGGAACTTTAAAA i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18215 1002 327 + 3330 GTTAACCTAACACAAGAGCAT---T------TAAAGAAAGATTAAAAGATGCAGAAGGAACTCGGCAAA--AGTGAACCCCGCNCTGTTTACCAAAAACATCGCCTCTTGCCAAACAACACGT--ATAAGAGGTCCAGCCTGCCCAGTGACTAT---A-T-GTTCAACGGCCGCGGTATTCTGACCGTGCAAAGGTAGCGTAATCACTTGTCTTTTAAATAAAGACTGGTATGAATGGCACCACGAAGGTTCAACTGTCTCCTGCATCCAATCCATTAAACTGACCTCCCCGTGCAGAGGCGGGGATATTCCCATAAGACGAGAAGACCCTATGGAGCTTTAAAC i xenTro2.scaffold_18215 M 106 C 0 s tetNig1.chrUn_random 103511673 329 + 171761319 GTTAACCCTACACTGGCGTGC---C-TA---ATTGGAAAGACTTAAAGAAAAAGAAGGAACTCGGCAAACCCATAAGCCTCGC-CTGTTTACCAAAAACATCGCCTCTTGC---AAAAACAATGAATAAGAGGTCCCGCCTGCCCTGTGAC-TA---T-ACGTTTAACGGCCGCGGTATTTTGACCGTGCAAAGGTAGCGCAATCACTTGTCCTTTAAATGGGGACCTGTATGAATGGCACGACGAGGGCTTAACTGTCTCCTTTTTCAAGTCAATGAAATTGATCTTTCCGTGCAGAAGCGGGAATAAAAACATAAGACGAGAAGACCCTATGGAGCTTTAGAC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 2882 324 + 16596 GTTACCCCCACACTGGAGTGC---A-TA---TAAGGAAAGACTAAAAGAAAGGGAAGGAACTCGGCAAA--CACAAGCCTCGC-CTGTTTACCAAAAACATCGCCTCCTGA---CATCCCAAT--ATAGGAGGTCCAGCCTGCCCAGTGAC-AA---T-A-GTTTAACGGCCGCGGTATTTTGACCGTGCAAAGGTAGCGCAATCACTCGTCCTTTAAATAGGGACCTGTATGAATGGCCAAACGAGGGCTTAACTGTCTCCCCCATCAAGTCAGTGAAATTGATCTATCCGTGCAGAAGCGGATATAATAATACAAGACGAGAAGACCCTTTGGAGCTTAAGGT i danRer4.chrM C 0 C 0 a score=-149774.000000 s mm8.chrM 2180 39 + 16299 ATATAACTT-A--TCTATTTAATTTATTAAACCT--AAT------GGCCC s rn4.chrM 2164 37 + 16300 TACTAATTT-----CAATTTATATAAAAAAACCT--AAT------GGGCG i rn4.chrM C 0 C 0 s oryCun1.scaffold_116167 4571 41 + 15695 ATTTAACCC-A--ACACTTCCTTTATTCTACTCTACAAT------GAGCC i oryCun1.scaffold_116167 C 0 C 0 s panTro2.chrM 2162 37 + 16554 CATTAATGCAA--ACAAT---ACTTAACAAACCT--ACA------GGTCC i panTro2.chrM C 0 I 2 s hg18.chrM 2745 37 + 16571 taTTAATGCAA--ACAGT---ACCTAACAAACCC--ACA------GGTCC i hg18.chrM C 0 I 2 s bosTau2.chrM 2538 17 + 16338 -------------------------AACCAACCC--AAA------GAGAA i bosTau2.chrM C 0 I 21 s canFam2.chrM 2170 23 + 16727 -------------------------AACTAACCC--AAACTTATGGATAC i canFam2.chrM C 0 I 18 s dasNov1.scaffold_23239 5995 38 - 16977 AACTAGATC-A--GCAATATCAACATATCCATCA--ACA------GATA- i dasNov1.scaffold_23239 C 0 I 1 s loxAfr1.scaffold_36650 5182 37 + 16266 AACTAATTTAA--TTGCT---AGCCTATAAATCT--ATA------AGATA i loxAfr1.scaffold_36650 C 0 I 1 s echTel1.scaffold_181343 1434 35 + 18297 AA-TAACCCAA--TTGTT----TCTCACAAAACC--AAA------AGGCA i echTel1.scaffold_181343 C 0 I 1 s monDom4.chrUn 117153618 28 + 174229318 AATTAATTTAT--ACTAT-----------ACCCT--AAG------GGAT- i monDom4.chrUn I 9 C 0 s galGal2.chrM 3452 29 + 16775 -------------TCACGACCACCTTACAACCTT--ACA------CAGCC i galGal2.chrM C 0 I 11 s xenTro2.scaffold_18215 1329 36 + 3330 ---TTACGGCA--ACTGCTAAACAATCCAACCCC--ACA------CGGG- i xenTro2.scaffold_18215 C 0 I 4 s tetNig1.chrUn_random 103512002 26 + 171761319 -----ATAAAA--CAGATCACGTCAAACACCCT----------------- i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3206 28 + 16596 -----ACAAGATTTAATTTACATCAAGCAAACC----------------- i danRer4.chrM C 0 C 0 e rheMac2.chr5 34437854 384 - 182086969 I a score=88545.000000 s mm8.chrM 2219 80 + 16299 ------------AAAA-------------ACTATAG---TATAAGT---T-TG-------AAATTTCGGTTGGGGTGACCTCGGAGAATAAAAAATCCTCC-----GAAT-----GA----------------TTATAACCTAGA s rn4.chrM 2201 83 + 16300 ------------AAAACA-----------ACAAAAT---TATGAAC---TACC-------AAATTTCGGTTGGGGTGACCTCGGAGAATAAAAAATCCTCC-----GAAT-----GA----------------TTATAACCGAGT i rn4.chrM C 0 C 0 s oryCun1.scaffold_116167 4612 83 + 15695 ------------TAACCA-----------AGGAAAT--CCCTGGGT---T-AA-------AAATTTTGGTTGGGGTGACCTCGGAGTATAAATCAACCTCC-----GAAT-----GA----------------TTTTAGCCTAGA i oryCun1.scaffold_116167 C 0 C 0 s hg18.chrM 2784 79 + 16571 --------------AACT-----------ACCAAA----CCTGCAT---T-AA-------AAATTTCGGTTGGGGCGACCTCGGAGCAGAACCCAACCTCC-----GAGC-----AG----------------TACATGCTAAGA i hg18.chrM I 2 C 0 s panTro2.chrM 2201 79 + 16554 --------------AACT-----------ATTAAA----CCTGCAT---T-AA-------AAATTTCGGTTGGGGCGACCTCGGAGCACAACCCAACCTCC-----GAGC-----AA----------------TACATGCTAAGA i panTro2.chrM I 2 C 0 s rheMac2.chr5 34438238 81 - 182086969 --------------aaaa-----------aatata----tatatatatat-at-------atatGTTGGTT-GGGTGACCCCGGAGCATAATTCAACCTCC-----GAAC-----GA----------------CCTAAACTAAGA i rheMac2.chr5 I 384 C 0 s bosTau2.chrM 2576 83 + 16338 --------------AACA-----------ACAATCT--CCATGAGT---T-GG-------TAGTTTCGGTTGGGGTGACCTCGGAGAATAAAAAATCCTCC-----GAGC-----GAT-----------T---TTAAAGACTAGA i bosTau2.chrM I 21 C 0 s canFam2.chrM 2211 85 + 16727 --------------AACATAA-------CACCATTA--TTATGAGT---T-AG-------CAATTTAGGTTGGGGTGACCTCGGAATATAAAAAAACTCCC-----GAGT-----GA----------------TTAAAATTTAGA i canFam2.chrM I 18 C 0 s dasNov1.scaffold_23239 6034 80 - 16977 ------------AAAACA-----------GAATGA----TATGAAC---T-AT-------TAATTTTGGTTGGGGTGACCTCGGAGCACAGCAAAACCTCC-----GAAT-----GA-----------------CAGCGCCAAGA i dasNov1.scaffold_23239 I 1 C 0 s loxAfr1.scaffold_36650 5220 84 + 16266 --------------AACT-----------A-AACAG---CATGATAAATT-AA-------CAATTTTGGTTGGGGTGACCTCGGAGAAGAAAAAATCCTCC-----GAAC-----GAT-----------A---TTATAATTTAGA i loxAfr1.scaffold_36650 I 1 I 1 s echTel1.scaffold_181343 1470 81 + 18297 --------------AACT-----------ATAACTA---TATGGAG-----AA-------AGATTTCGGTTGGGGTGACCTCGGAGCATAATTAAACCTCC-----GAAT-----GAT-----------A---TATACATCTAGA i echTel1.scaffold_181343 I 1 M 388 s monDom4.chrUn 117153646 83 + 174229318 ------------------TAATCT----TACAAAAC--TTTTTAAG---C-TG-------AATTTTTGGTTGGGGTGACCTCGGAGCACAAGCAACCCTCC-----GAAT-----GA-----------------CATAACTAAGA i monDom4.chrUn C 0 C 0 s galGal2.chrM 3492 96 + 16775 ---------------------ACCCACACATAAACC---CCTGGTC---G-AC-------ATTTTTCGGTTGGGGCGACCTTGGAGAAAAAAAAATCCTCC-----AAACCCACAGACCAC------AAC---TCTTCACTAAGA i galGal2.chrM I 11 C 0 s xenTro2.scaffold_18215 1369 100 + 3330 ------------CAGACA-----------ATTAAGCAACAATGACC---T-AA-------AGTTTTCGGTTGGGGCGACCACGGAGAAAAAAAAATCCTCCTTGATGTAC-----GGGGCCT---TACCC---TCTTAACCAAGA i xenTro2.scaffold_18215 I 4 C 0 s tetNig1.chrUn_random 103512028 111 + 171761319 TAGATAAAAGAACAAACT-----------------A---AGTGAGC---C-CTGTTCAAATGTCTTTGGTTGGGGCGACCGCGGGGTAACAAAAAACCCCC-----ATGT-----GGAATAAAAACACCCTTTTTAAAACCAAGA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3234 107 + 16596 AATAAAAGTGATTAAACT-----------AGTAAAA---GATAAAC---C-TC-------TACCTTCGGTTGGGGCGACCACGGAGTAAAAAACAACCTCC-----AAGC-----GGAACGGGCACAGCC---CTAAAACCAAGA i danRer4.chrM C 0 C 0 a score=173589.000000 s mm8.chrM 2299 79 + 16299 CT---------TACAAGTCA---AAGTAAAATCAACATATCT------TATT------GACCCAGATA---TATTTTGATCAACGGACCAAGTTACCCTAGGGATA s rn4.chrM 2284 84 + 16300 CGGTAACCGTGTCCGACCCAGTCAAGTAATACTAA--TATCT------TATT------GACCCAATTA---T----TGATCAACGGACCAAGTTACCCTAGGG-TA i rn4.chrM C 0 C 0 s oryCun1.scaffold_116167 4695 76 + 15695 CC--------CAACAAGTCA---AAGCAATTATAA--TCATA------AATT------GACCCAAATA---A--TTTGATCAACGGAACAAGTTACCCTAGGGATA i oryCun1.scaffold_116167 C 0 n 0 s hg18.chrM 2863 76 + 16571 CT--------TCACCAGTCA---AAGCGA-ACTACTATACTC------AATT------GATCCAA-TA---A--CTTGACCAACGGAACAAGTTACCCTAGGGATA i hg18.chrM C 0 C 0 s panTro2.chrM 2280 76 + 16554 CC--------TCACCAGTCA---AAGCGA-ATTACTACATCC------AATT------GATCCAA-TG---A--CTTGACCAACGGAACAAGTTACCCTAGGGATA i panTro2.chrM C 0 C 0 s rheMac2.chr5 34438319 74 - 182086969 CC--------ACACCAGTCT---ACGCGA-GTTAACACAC---------ATT------GGCCCAATTA---A--TTTGATCAATGGAGTAAGTTATCCTATGGATA i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 2659 72 + 16338 CC---------CACAAGTCA---AATCAC----TCTATCGCT------CATT------GATCCAA-AA---A--CTTGATCAACGGAACAAGTTACCCTAGGGATA i bosTau2.chrM C 0 C 0 s canFam2.chrM 2296 74 + 16727 CC---------CACAAGTCA---AAATAC----AACATCACT------TATT------GATCCAA-TA---ATTTTTGATCAACGGAACAAGTTACCCTAGGGATA i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 6114 73 - 16977 CC---------AACCGGTCA---AAGCCC--ATAACGAAACC------AATT------GATCCAA--A---A--ATTGACCAACGGAACCAGTTACCCCAGGGATA i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 5305 72 + 16266 ---------TCTACAAGTCA---AAATTT-ACTAA--TCGCT------TATT------GACCCAA--T---A--CTTGATCAACGGAACAAGTTACCCTAGGGATA i loxAfr1.scaffold_36650 I 1 C 0 s echTel1.scaffold_49882 2559 71 - 7170 ---------CCTACAAGTCG---CAATTA-A--AA--TCACT------TATT------GACCCAA-TT---A--CTTGAGCAACGGACCAAGTTACCCTAGGGATA i echTel1.scaffold_49882 I 1561 C 0 s monDom4.chrUn 117153729 75 + 174229318 ---------CTAACACATCT---AAGTGCAACCTAAGCCAGT------AATT------GACCCAA--A---A--CTTGATCAACGGAACAAGTTACCCCAGGGATA i monDom4.chrUn C 0 C 0 s galGal2.chrM 3588 72 + 16775 ---------CCAACTCCTCA---AAGTACCAACAG--TAACC------A---------GACCCAATAT---A--ATTGAGCAATGGACCAAGCTACCCCAGGGATA i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18215 1469 80 + 3330 ---------ACGACAGTTCT---AAGTAA---CAAAACATTTGACCACTATT------GATCCAGTCC---A--ACTGATCAACGAACCAAGTTACCCTAGGGATA i xenTro2.scaffold_18215 C 0 C 0 s tetNig1.chrUn_random 103512139 79 + 171761319 ---------GCCACCGCTCT---AATGAA---CAGAACATCT------GACCAATCA-GATCCGGCCT---A--GCCGATCAACGAACCGAGTTACCCTAGGGATA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3341 83 + 16596 ---------GAAACATCTCT---AAGCCT---CAGAACACCT------GACCAAAGACGATCCGGCCTATAA--GCCGATCAACGAACCAAGTTACCCTAGGGATA i danRer4.chrM C 0 C 0 a score=1521193.000000 s mm8.chrM 2378 161 + 16299 ACAGCGCAATCCTATTTAA-GAGTTCATATCGACAATTAGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCCAATGGTGTAGAAGCTATTAATGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTT s rn4.chrM 2368 153 + 16300 ACAGCGCGA-CCTATTTAA-GAGTTCATATCGACAATTAGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCCAATGGTGCAGAAGCTATTAATGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTAAGTCCGG-------CAATCCAGGTCGGTT i rn4.chrM C 0 C 0 s oryCun1.scaffold_205008 2 161 - 118789 ACAGCGCAATCCTATTTTA-GAGTCCCTATCGACAATAGCGGTTTAC-GACCTCGATGTTGGATCAGGACATCCCAATGGTGTAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGAAATCCAGGTCGGTT i oryCun1.scaffold_205008 n 0 C 0 s hg18.chrM 2939 160 + 16571 ACAGCGCAATCCTATTCTA-GAGTCCATATCAACAAT-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTT i hg18.chrM C 0 C 0 s panTro2.chrM 2356 160 + 16554 ACAGCGCAATCCTATTCCA-GAGTCCATATCAACAAT-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCCGATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34438393 161 - 182086969 ACAACAAAATCCTATTCTAGGATTCCCTATTGGCAAT-AGGGTTTAC-AACCTCGATGTTGGATCAGGACATCCTAATGGTGTAGCTGCTATTAAGGGTTCATTTATTCAATGATTAA-AGTCCTACCTGATCTGAGTTCAGACCGGAGTAATCCAGGTTGGTT i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 2731 160 + 16338 ACAGCGCAATCCTATTCAA-GAGTCCATATCGACAAT-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCTGATGGTGCAACCGCTATCAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTT i bosTau2.chrM C 0 C 0 s canFam2.chrM 2370 160 + 16727 ACAGCGCAATCCTATTCAA-GAGTCCATATCGACAAT-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCTAATGGTGCAGCAGCTATTAAGGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCGGTT i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 6187 160 - 16977 ACAGCGCAATCCTATTCCA-GAGCCCATATCAACAAT-AGGGTTTAC-GACCTCGATGTTGGATCAGGACACCCAAATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 5377 160 + 16266 ACAGCGCAATCCTACTCTA-GAGTCCCTATCGACAGC-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCTAATGGTGCAGCCGCTATTAAGGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTT i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_49882 2630 161 - 7170 ACAGCGCAATCCTATTTAA-GAGTTCATATCGACGAT-AGGGTTTACTGACCTCGATGTTGGATCAGGACACCCAGATGGTGCAACAGCTATCAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTT i echTel1.scaffold_49882 C 0 I 1469 s monDom4.chrUn 117153804 161 + 174229318 ACAGCGCAATCCTATTTAA-GAGCCCATATCGACAATTAGGGTTTAC-GACCTCGATGTTGGATCAGGACACCCCAATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGAAATCCAGGTCGGTT i monDom4.chrUn C 0 C 0 s galGal2.chrM 3660 161 + 16775 ACAGCGCAATCTCCTCCAA-GAGCCCATATCGACAAG-GAGGTTTAC-GACCTCGATGTTGGATCAGGACAACCTAATGGTGCAACCGCTATTAAGGGTTCGTTTGTTCAACGATTAACAGTCCTACGTGATCTGAGTTCAGACCGGAGCAATCCAGGTCGGTT i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18215 1549 160 + 3330 ACAGCGCAATCCATTTCGA-AAGTTCCTATCGACAAA-TGGGTTTAC-GACCTCGATGTTGGATCAGGGCATCCCAGTGGTGCAGCCGCTACTAAAGGTTCGTTTGTTCAACGATTAA-AGCCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCAGTT i xenTro2.scaffold_18215 C 0 C 0 s tetNig1.chrUn_random 103512218 160 + 171761319 ACAGCGCAATCCTCTTTTA-GAGCCCATATCGACAAG-AGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCTAATGGTGCAGCCGCTATTAAGGGTTCGTTTGTTCAACGATTAA-AGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCAGTT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3424 161 + 16596 ACAGCGCAATCCTCTCTAA-GAGTCCATATCGACGAG-GGGGTTTAC-GACCTCGATGTTGGATCAGGACATCCTAATGGTGCAGCCGCTATTAAGGGTTCGTTTGTTCAACGATTAATAGTCCTACGTGATCTGAGTTCAGACCGGAGTAATCCAGGTCAGTT i danRer4.chrM C 0 C 0 a score=51271.000000 s mm8.chrM 2539 136 + 16299 TCTATCTATTTAC--G-ATTTCTCCC-AGT-ACGAAAGGACAAGAGAAATAGAGCC-ACCTTACAAATAAG-CG--CTCTCAACT----TAATTTATGAATAAAATCTAAAT--AAAA---TAT---ATACG---T-ACACCCTCT---AACCTAGAGA----AGGTT- s rn4.chrM 2521 132 + 16300 TCTATCTATTTAC--A-ATTTCTCCC-AGTTACGAAAGGACAAGAGAAATGGAG---ACCAACCAATCCTA-GG--CTTCCAACC-----AATTTAG----AAAAACTTAAT--AAAG---TAT---ATATG---T-ACAATAAAT---AACCT-TAGACCC-AAGTT- i rn4.chrM C 0 C 0 s oryCun1.scaffold_205008 163 136 - 118789 TCTATCTATTAAG--T-ATTTCTCCC-AGT-ACGAAAGGACAAGAGAAATAGAGCCTACTGCACCA--CAG-AG--CTCTAAGTC----CAAAAGATGAA-ATAATCTTAAT--CTAG---TAC---ACTTA---C-CCAACATAG---AGCCC-TAGACCA-GAGCT- i oryCun1.scaffold_205008 C 0 C 0 s hg18.chrM 3099 129 + 16571 TCTATCTACTTCA--A-ATTCCTCCC-TGT-ACGAAAGGACAAGAGAAATAAGGCCTACTTCACAA---AG-CG-CCTTCCCCCG----TAAATGAT----ATCATCTCAAC--TTAGTATTAT---ACCCA---C-ACCCAC---------CC-AAGAACA-GGGT-- i hg18.chrM C 0 I 89 s panTro2.chrM 2516 117 + 16554 TCTATCTGTTCTA--A-ATTTCTCCC-TGT-ACGAAAGGACAAGAGAAATGAGGCCTACTTCACAA---AG-CG-CCTTCCCCAA----TAAATGAT----ATTATCTCAAT--TTAGCGCCAT---GCCAA---C-ACCCACT------------------------- i panTro2.chrM C 0 I 92 s rheMac2.chr5 34438554 132 - 182086969 TCTATATATTTAA--T-ATTTCTCCT-AGT-ATGAAAGGACAAGAGAAATAGGGCCCACTTCATAA---AG-TGCCCTTGCCGCA----TAAATGAT----GCTATCTCTGT--CTAA---CAA---ACCAT---C-ACACACCCT---A-CCC-AGAAACA-GGGT-- i rheMac2.chr5 C 0 I 2 s bosTau2.chrM 2891 130 + 16338 TCTATCTATTACG--T-ATTTCTCCC-AGT-ACGAAAGGACAAGAGAAATAAGGCCAACTTTAAAT-CAAG-CG--CCTTAAGAC-----AACCAATGAT-AACATCTCAA---CTGA---CAA---CACAA---A-ACCCT--------GCCC-TAGAACA-GGGCT- i bosTau2.chrM C 0 I 2 s canFam2.chrM 2530 138 + 16727 TCTATCTATTATA--CAACCTCCCCC-AGT-ACGAAAGGACAAGGGATGTAAGGCCTACCTCACAG--AGG-CG--CCTTAAAAC----TAATAGATGAA-GTCAACTCAAT--CTAA---CCA---GTTTA---T-CTCCTCATA---AGCCC-GAGAAAAGGGGCT- i canFam2.chrM C 0 I 2 s dasNov1.scaffold_23239 6347 137 - 16977 TCTATCTATAACC--A-ATTTCTCCC-AGT-ACGAAAGGACAAGAGAAATAAGGCCAACTTTACAA-GAGG-CG-CCTTAAATCA----AAATAGATGAA-ATAATCTCAAC--CTAA---AAC---AT-TA---C-ATAAACATT---AGTCC-TAAGCCA-GGACC- i dasNov1.scaffold_23239 C 0 I 2 s loxAfr1.scaffold_36650 5537 134 + 16266 TCTATCTATAGTT--T-ATTTATTCC-AGT-ACGAAAGGACAGAAAAAATGAGGCCAATCTTACCA---AGACG--CCTCCAGCT----AAATTTATGAA-TAAATCTCAAT--CTAG-----------ATAAGCT-AAACCACCC---AATCC-AAGAACA-GGATT- i loxAfr1.scaffold_36650 C 0 I 1 s echTel1.scaffold_181343 1939 126 + 18297 TCTATCTATTTTA--T-ATCTCCTCCTAGT-ACGAAGGACCAGAGAGA---TAGCCACTTTCAACC---AG-CG--CCTTAA--C----AAACCAATGAT-ATAATCTTAAT--TTAC-----------CTA---T-ATCCATTTC---TGCTC-TAGATAA-GAGCT- i echTel1.scaffold_181343 M 388 I 1 s monDom4.chrUn 117153965 135 + 174229318 TCTATCTATATAA--TAATTTCTCCT-AGT-ACGAAAGGACAAGAGAATTAAGGCCAACATTACAA--ACA-AG--CCTTACAAC----TAACTAATGAT-CTTATCTCAAT--TAGT---TAA---TGCAA---G-ATTTTATT-----ACTC-TAGAGAA-GAGTT- i monDom4.chrUn C 0 C 0 s galGal2.chrM 3821 142 + 16775 TCTATCTATGGAC----ACTCCTCCT-AGT-ACGAAAGGACCGGAGAAGTGGGGTCAATACCACTG---AG-CA--CACCCCAACCTTCTAAGCAATGAA-TACAACTCAACTGCCAA---GAA---CCCCT---C-CCCCACACCCGAACTCC-TAGAAAA-GGAT-- i galGal2.chrM C 0 I 3 s xenTro2.scaffold_18215 1709 136 + 3330 TCTATCTATGCAG--T-ATTTTCTCT-AGT-ACGAAAGGACCGAGAAAATGAGGTCTATGTCACAA--ACA-AG--CCTCCTCCC----TTATCAATGAA-AACAACTTAAT--TGAA---TAA---AGGAC---T-AACAACTTC---AGCCC-AAGATAA-GGGCT- i xenTro2.scaffold_18215 C 0 M 690 s tetNig1.chrUn_random 103512378 139 + 171761319 TCTATCTATGAAG-TG-CCCTTTTCT-AGT-ACGAAAGGACCGAAAAGGAGAGACCCCTGCCAAAA--GCA-CG--TCCCCCTCT----CACCCGTTGTC-TCCAACTAAAA--CAGA---CAA---GAGAG---CACACAACAAC---AGCCA-AAGAACA-TGACAT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3585 141 + 16596 TCTATCTGTAAAGCTA-TTTTTTCCT-AGT-ACGAAAGGATCGGAAAAAGGGGGCCCATACTAAAA--GCA-CG--CCCCACCCT----AAATTTATGAA-TAAAGATAAAA--AAAA---TAAAAGGAGAG---C-TAAAACCTC---TTCCC-GA-AATA-AGGGTT i danRer4.chrM C 0 C 0 a score=312226.000000 s mm8.chrM 2675 76 + 16299 A-ttagggtggcagagccaggaaattgcgtaagacttaaaaccttgttcccagaggttcaaatcctctccctaa-ta--G s rn4.chrM 2653 76 + 16300 A-ttagggtggcagagccaagtaattgcgtaagacttaaaaccttgttcccagaggttcaaatcctctccctaa-ta--G i rn4.chrM C 0 C 0 s oryCun1.scaffold_205008 299 79 - 118789 Agttaaggtggcagagcccggtaattgcgtaaaacttaaaactttataaccagaggttcaactcctctccttaa-caATA i oryCun1.scaffold_205008 C 0 C 0 s rheMac2.chr5 34438688 76 - 182086969 -gttaagatggaggagcttggtaattgcataaaacttaaaattttataataagaggttcaactcctcttcttaa-ca--A i rheMac2.chr5 I 2 I 2 s bosTau2.chrM 3023 76 + 16338 -gttaaggtggcagagcccggtaattgcataaaacttaaacttttatatccagagattcaaatcctctccttaa-ca--A i bosTau2.chrM I 2 I 2 s canFam2.chrM 2670 75 + 16727 -gttagggt-gcagggcccggtaactgcgtaaaacttaaacctttactatcagaggttcaattcctctccctaa-ca--A i canFam2.chrM I 2 I 2 s dasNov1.scaffold_23239 6486 76 - 16977 -gttaagatggcagagacaggtaattgcataagacttaaacctttattaccagaggttcaaatcctcttcttaa-ca--t i dasNov1.scaffold_23239 I 2 I 3 s loxAfr1.scaffold_36650 5672 76 + 16266 -gttaagatagcaaaaactggtcactgcataaaacttaagcttttactcacggaggttcaactcctcttcttaa-ca--A i loxAfr1.scaffold_36650 I 1 C 0 s echTel1.scaffold_181343 2066 76 + 18297 -Attaagatggcagagcccggtaattgcacaagacttaaacccttgccgtcagaggttcaatccctcttcttaa-ta--A i echTel1.scaffold_181343 I 1 C 0 s monDom4.chrUn 117154100 75 + 174229318 -Attaaggtggcagag-caggtaattgcataaaacttaagcctttactatcagaggttcaacccctctccttaa-ta--T i monDom4.chrUn C 0 I 1 s galGal2.chrM 3966 75 + 16775 -GCTAGCGTGGCAGAGCTCGGCAAATGCAAAAGGCTTAAGCCCTT-TATCCAGAGGTTCAAATCCTCTCCCTAG-CT--A i galGal2.chrM I 3 I 30 s tetNig1.chrUn_random 103512517 75 + 171761319 -gttagggtggcagagcccggtaaatgcaaaagacctaagcccttt-atacagaggttcaactcctctccttaa-cT--A i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3726 77 + 16596 -GCTGGGATGGCAGAGCTCGGTAATTGCAAAAGGCCTAAGCCCTTTCACCCAAAGGTTCAAATCCTTTTCCCAGTTT--A i danRer4.chrM C 0 C 0 e xenTro2.scaffold_18215 1845 690 + 3330 M e panTro2.chrM 2633 92 + 16554 I e hg18.chrM 3228 89 + 16571 I a score=353365.000000 s mm8.chrM 2751 92 + 16299 ------------------TGTTCTTTATTAATATCCTAACACTCCTCGTCCCCATTCTAATC---GCCATAGCCTTCCTAACATTAGTAGAACGCAAAATCTTAGGGTACATA s galGal2.chrM 4071 92 + 16775 ------------------ACCTTCTAATCATAACCTTATCCTATATTCTCCCCATCCTAATC---GCCGTGGCCTTCTTAACACTTGTAGAACGAAAAATCCTAAGCTACATG i galGal2.chrM I 30 C 0 s monDom4.chrUn 117154176 92 + 174229318 ------------------TGTTCCTAATCAATCTACTAATCTATATTATTCCTATTCTACTA---GCAGTAGCTTTTTTAACATTAATCGAACGAAAAGTCCTAGGTTATATA i monDom4.chrUn I 1 C 0 s echTel1.scaffold_181343 2142 92 + 18297 ------------------TGTTTATTATTAATCTCTTATCACTGATTGTTCCTATCCTCCTA---GCAGTAGCTTTCCTTACACTTCTTGAACGAAAAGTACTAGGATATATG i echTel1.scaffold_181343 C 0 C 0 s loxAfr1.scaffold_36650 5748 92 + 16266 ------------------TGTTCTTAATCAATGTCCTAACAGTAACCTTACCTATCCTCCTA---GCAGTAGCCTTCCTTACCTTAGTTGAACGAAAGGCCTTAGGCTATATA i loxAfr1.scaffold_36650 C 0 C 0 s dasNov1.scaffold_23239 6565 92 - 16977 ------------------TGTACTTAATCAATGTTCTATCTCTAATTATCCCAATTCTCCTA---GCAGTAGCCTTCCTAACGTTACTAGAACGAAAAATTCTAGGCTATATA i dasNov1.scaffold_23239 I 3 C 0 s canFam2.chrM 2747 92 + 16727 ------------------TGTTCTTTATCAACATTATCTCTCTTATTATCCCAATCCTTCTT---GCCGTAGCCTTCCTCACCCTCGTTGAACGAAAAGTCTTAGGCTATATA i canFam2.chrM I 2 C 0 s bosTau2.chrM 3101 92 + 16338 ------------------TGTTCATAATTAACATCTTAATACTAATTATTCCCATCCTATTG---GCCGTAGCATTCCTTACGTTAGTGGAACGAAAAGTTCTAGGCTATATA i bosTau2.chrM I 2 C 0 s rheMac2.chr5 34438766 92 - 182086969 ------------------TGCCTTTAATTAACCTTCTCCTACTCATTATCCCCACTCTTATC---GCTATAGCGTTCCTTACACTCATCAAACGAAAAATCTTAGGCTATACA i rheMac2.chr5 I 2 C 0 s hg18.chrM 3317 83 + 16571 ---------------------------CCAACCTCCTACTCCTCATTGTACCCATTCTAATC---GCAATGGCATTCCTAATGCTTACCGAACGAAAAATTCTAGGCTATATA i hg18.chrM I 89 C 0 s panTro2.chrM 2725 92 + 16554 ------------------CACCCATGACCAACCTCCTACTCCTCATTGTACCCATCCTAATC---GCAATAGCATTCCTAATGCTAACCGAACGAAAAATTCTAGGCTACATA i panTro2.chrM I 92 C 0 s oryCun1.scaffold_205008 378 92 - 118789 ------------------TGTTCCTAATTAATACACT---CCTTTTAATCCTACCTGTACTTTTAGCCATAGCATTCCTCACCTTAGTCGAACGAAAAATCTTAGGGTACATA i oryCun1.scaffold_205008 C 0 C 0 s rn4.chrM 2729 92 + 16300 ------------------TGTACTTTATTAATATCCTAACACTCCTAATCCCAATCTTAATT---GCCATAGGCCTTCTCACCCTAGTAGAACGGAAAATCCTAGGCTACATA i rn4.chrM C 0 C 0 s tetNig1.chrUn_random 103512592 110 + 171761319 TGATTACAACCCTCATCACACACATCCTAAACCCTCTTGCCTTTATTGTCCCCGTCCTACTA---GCCGTCGCTTTTCTGACACTCCTAGAACGAAAAGTTCTAGGATACATA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3803 110 + 16596 TGCTAGACATCTTAACAAGCCACTTAATTAACCCCCTAGCCTACGCCGTACCAGTATTAATT---GCAGTAGCCTTCCTTACCTTAGTTGAACGAAAAGTGTTAGGCTATATA i danRer4.chrM C 0 C 0 e xenTro2.scaffold_18215 1845 690 + 3330 M a score=1741996.000000 s mm8.chrM 2843 346 + 16299 CAACTACGAAAAGGCCCTAACATTGTTGGTCCATACGGCATTTTACAACCATTTGCAGACGCCATAAAATTATTTATAAAAGAACCAATACGCCCTTTAACAAC-CTCTATATCCTTATTTATTATTGCACCTACCCTATCACTCACACTAGCATTAAGTCTATGAGTTCCCCTACCAAT---ACCACACCCA---TTAATTAATTTAAACCTAGGGATTTTATTTATTTTAGCAACATCTAGCCTATCAGTTTACTCCATTCTATGATCAGGATGAGCCTCAAACTCCAAATACTCACTATTCGGAGCTTTACGAGCCGTAGCCCAAACAATTTCATATGAAGTAACCATAG s rn4.chrM 2821 346 + 16300 CAATTACGCAAAGGCCCCAACAACGAAGGCCCATATGGTAAACTACAACCATTTGCAGATGCCATAAAACTATTCATAAAAGAACCCATACGCCCTCTAACCAC-CTCAATATCACTATTTATTATCGCCCCAACCCTCTCCCTTACACTAGCTCTAAGCCTATGAATTCCCTTACCAAT---ACCCCACCCC---CTTATCAACCTCAACCTAGGCATACCATTTATTCTAGCCACATCCAGCCTTTCGGTCTACTCCATTCTATGATCGGGATGAGCCTCAAATTCAAAATACTCCCTATTCGGAGCCCTACGAGCCGTTGCCCAAACCATCTCTTACGAAGTCACAATAG i rn4.chrM C 0 C 0 s oryCun1.scaffold_205008 470 347 - 118789 CAACTACGTAAAGGCCCAAACATTGTAGGACCCTATGGCCTCCTCCAACCAATCGCAGACGCTATTAAGCTATTCACTAAAGAACCCCTACGACCCCTAACATCGCTCTCCGCTACTCTTTATTATCGCCCCAACCCTAGCTCTAACTCTCGCACTATCAATGTGACTTCCTATCCCCAT---ACCTTACCCA---CTAGTCAACCTAAATATAGGCATTCTATTCATCCTAGCAACCTCCAGCTTAGCCGTTTACTCAATCCTATGATCAGGATGAGCATCCAACTCAAAATACGCCCTATTTGGTGCTCTCCGAGCAGTCGCACAAACCATTTCCTACGAAGTCACACTTG i oryCun1.scaffold_205008 C 0 C 0 s panTro2.chrM 2817 346 + 16554 CAACTACGCAAAGGTCCCAACATTGTAGGTCCTTACGGGCTATTACAGCCCTTCGCTGACGCCATAAAACTCTTCACTAAAGAACCCTTAAAACCCTCCACTTC-AACCATTACCCTCTACATCACCGCCCCAACCCTAGCCCTCACCATTGCCCTCTTACTATGAACCCCCCTCCCCAT---ACCCAACCCC---CTAGTCAATCTTAACTTAGGCCTCCTATTTATTCTAGCCACCTCCAGCCTAGCCGTTTACTCAATCCTCTGATCAGGGTGAGCATCAAACTCGAACTACGCCTTAATCGGTGCACTACGAGCAGTAGCCCAAACAATCTCATACGAAGTCACTCTAG i panTro2.chrM C 0 C 0 s hg18.chrM 3400 346 + 16571 CAACTACGCAAAGGCCCCAACGTTGTAGGCCCCTACGGGCTACTACAACCCTTCGCTGACGCCATAAAACTCTTCACCAAAGAGCCCCTAAAACCCGCCACATC-TACCATCACCCTCTACATCACCGCCCCGACCTTAGCTCTCACCATCGCTCTTCTACTATGAACCCCCCTCCCCAT---ACCCAACCCC---CTGGTCAACCTCAACCTAGGCCTCCTATTTATTCTAGCCACCTCTAGCCTAGCCGTTTACTCAATCCTCTGATCAGGGTGAGCATCAAACTCAAACTACGCCCTGATCGGCGCACTGCGAGCAGTAGCCCAAACAATCTCATATGAAGTCACCCTAG i hg18.chrM C 0 C 0 s rheMac2.chr5 34438858 346 - 182086969 CAACTATGCAGAAGACACAGAATTGTCGGTCTCGATGGGCTGCTTCAACCATTCGCTGATGCAATAAAACTTTTCACCAAAGAACCCTTACGGCCTTCAAAATC-TGCTATTACCCTTCACATTATTGCTTCAACACTAGCCTTTTCCATCACTCTCCTCTTATGAACTCCCCTCCCTAT---CCCAGACCCT---CTAATTAATTTTAACATAAGCCTCCTATTTATACTAGCCACATCAAGCCCAGCCGTCTCCTCTATTCTATGATCAGGATGAGCATCTAATTCAAATTATGCACTAATCAGCACATTACGAGCTGTGGCCCAAACAATTTCATATGAGGTCACCTTGG i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 3193 346 + 16338 CAACTCCGAAAAGGTCCAAATGTCGTAGGTCCATATGGCCTACTTCAACCCATCGCCGATGCAATCAAACTTTTCATTAAAGAACCACTACGACCCGCTACATC-TTCAGCCTCAATATTTATCCTAGCACCTATCATAGCTTTAGGCCTAGCCTTAACCATGTGAATTCCCCTACCAAT---ACCCTATCCT---CTTATCAACATAAACCTAGGAGTCCTATTTATACTAGCCATATCAAGCCTAGCCGTATACTCCATTCTCTGATCAGGCTGAGCTTCCAACTCAAAATACGCACTAATCGGAGCCCTACGAGCAGTAGCACAAACAATCTCATACGAAGTAACGCTAG i bosTau2.chrM C 0 C 0 s canFam2.chrM 2839 346 + 16727 CAACTTCGAAAAGGACCTAATATTGTAGGCCCCTACGGCCTCCTTCAACCAATCGCAGACGCAGTAAAACTCTTCACAAAAGAACCTCTACGACCACTTACATC-CTCTATATCAATATTCATCCTAGCCCCCATTCTAGCTCTATCACTAGCCCTAACTATGTGAATTCCCCTCCCAAT---ACCCTACCCA---CTCATTAATATAAACTTGGGAGTCCTATTCATACTAGCAATATCAAGCCTCGCCGTGTACTCCATCCTCTGATCAGGATGAGCCTCAAACTCCAAATACGCCCTAATCGGAGCCCTTCGAGCAGTAGCTCAAACAATCTCATATGAAGTAACGCTAG i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 6657 346 - 16977 CAGTTACGTAAAGGCCCAAACATCGTAGGACCATACGGCCTACTACAACCAATCGCAGACGCCATTAAACTATTCATCAAAGAACCACTACGACCAGCCACATC-ATCAAAACTCATATTTACCTTAGCACCCACACTAGCACTAACTCTCGCACTTTCACTTTGAATCCCCATCCCAAT---ACCTTACCCA---TTGGTTAACTTAAATTTAGGGGTACTATTCATTTTAGCCATATCAAGCCTAGCTGTCTATTCAATCTTATGGTCAGGATGAGCATCAAACTCCAAATACGCCCTCATCGGAGCCCTTCGAGCAGTAGCACAAACAATTTCCTACGAAGTAACCCTGG i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 5840 346 + 16266 CAACTTCGTAAAGGTCCCAATGTAGTAGGACCTTACGGTCTTCTCCAACCTATTGCAGATGCAATCAAGCTATTTACTAAAGAACCCATCTACCCACAAACCTC-ATCAAAATTCCTATTTACCGTCGCCCCAATTCTAGCCCTAACCTTAGCCCTAACTGTATGAGCTCCTCTTCCAAT---ACCATATCCT---CTAATTAACTTAAATCTGAGCCTACTATTCATTCTCGCAATATCAAGTCTGATAGTTTATTCCATCCTATGATCAGGCTGAGCATCAAACTCAAAATATGCCCTCATAGGAGCCCTGCGAGCAGTAGCCCAAACCATCTCCTATGAAGTCTCTATAA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 2234 346 + 18297 CAACTTCGTAAAGGCCCTAACGTTGTTGGCCCATATGGGCTCTTTCAACCATTTGCTGACGCAATCAAACTATTTACTAAAGAACCGCTACGCCCAATGACTTC-ATCTATAACTATATTTTTACTTGCCCCAATCCTAGCGCTATCCCTAGCTCTTACACTGTGGGTTCCTCTGCCAAT---ACCTCATTCC---CTTGTTAATCTTAACCTAAGCCTCTTATTCATCTTAGCCATATCTAGCCTAGCTGTCTACTCTATTCTATGATCAGGATGAGCATCTAACTCCAACTATGCTCTAATTGGCGCACTCCGAGCAGTCGCCCAAACAATCTCTTATGAAGTCTCTCTAG i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117154268 346 + 174229318 CAACTCCGAAAAGGCCCAAACGTTATTGGACCATACGGCATCCTACAGCCATTCGCAGACGCTGTAAAATTATTCACAAAAGAACCCCTCCGACCTCTAACTTC-ATCAATCTCAATATTTATTATTGCACCTATTTTAGCCCTAACCTTAGCTCTAACAATCTGAACCCCTCTACCTAT---ACCCCACACC---CTAATTGACTTAAACCTAGGACTTTTATTTATTTTATCCTTATCAGGACTATCAGTTTACTCAATTCTATGATCAGGATGAGCATCAAATTCTAAATATGCACTCATTGGAGCCTTACGAGCCGTAGCTCAAACAATTTCATACGAAGTCACATTAG i monDom4.chrUn C 0 C 0 s galGal2.chrM 4163 346 + 16775 CAGGCCCGAAAGGGCCCAAACATTGTGGGCCCTTTTGGTCTACTCCAACCCGTTGCAGACGGGGTAAAACTATTCATTAAAGAGCCAATCCGACCATCTACCTC-CTCCCCCTTCCTCTTCATTATTACTCCAATCCTAGCACTACTCCTAGCCCTGACTATTTGAGTCCCCCTCCCACT---ACCATTCCCC---CTTGCAGACCTCAACCTAGGACTACTATTTCTCCTAGCCATATCAAGCCTAACTGTCTACTCTCTACTCTGATCCGGATGAGCATCAAACTCCAAGTATGCCCTAATCGGAGCCCTTCGAGCCGTCGCACAAACAATCTCATACGAAGTCACCCTAG i galGal2.chrM C 0 C 0 s xenTro2.scaffold_8452 11274 352 + 23823 CAAGTGCGCGTGGGCCCGAACCGCGTCGGCCCGCTGGGCCTGCTGCAACCGCTTGCCGATGGCCTGAAGCTCCTGACCAAGGAAATCATCACACCAACGGCGGC-CAGCAAGGGCCTGTTCTTCCTGGGGCCGGTGATGGCCATCATGCCGGCCCTGGCCGCCTGGGCGGCCATCCCCTTCGGCCCCGACGTCGTGCTGGCGAACGTGAATGCCGGGCTGCTGCTCATCATTGCCATCGCCTCGATCGAGGTCTATGGCGTCATCATCGCGGGCTGGGCGTCCAACTCCAAGTACGCCTTCCTGGGCGCACTGCGTGCCTCGGCGCAGATGGTGAGCTATGAAATCGCCATGG i xenTro2.scaffold_8452 n 0 I 124 s tetNig1.chrUn_random 103512702 346 + 171761319 CAACTACGAAAAGGTCCAAACATCGTAGGCCCTTATGGCCTTCTCCAACCAATTGCAGACGGGGTAAAACTATTTATTAAAGAGCCCGTACGACCCTCAACCTC-CTCCCCAATCCTATTCATCCTCACCCCCATACTAGCCCTCACATTAGCCATAACACTATGAGCCCCCCTACCCCT---TCCATACCCA---GTCCTAGACCTAAACCTAGCCATCCTTTTCATTCTCGCCCTCTCTAGTCTCGCAGTGTATTCAATCCTCGGTTCCGGTTGAGCCTCAAACTCAAAATATGCCTTAGTAGGAGCCCTACGAGCCGTCGCACAAACCATCTCCTATGAAGTAAGCCTAG i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 3913 346 + 16596 CAACTCCGAAAAGGACCAAATGTAATAGGCCCCCGAGGACTGTTACAATCAGTAGCTGATGGCGTGAAACTTTTTATTAAAGAACCCATTCGACCATCTATGGC-TTCTCCAATTTTATTTTTAACAGCTCCAGTTCTTGCACTAATCCTAGCAATAATGCTATGGGCACCCATACCCAT---GCCCTATCCA---GTACTCGACCTAAATCTTGGAATTTTATTTATTATAGCCATCTCAAGCCTAGCAGTATACTCAATCCTGGGATCAGGTTGAGCATCAAACTCAAAATACGCATTAATTGGGGCCTTACGAGCTGTAGCGCAAACAATTTCATATGAAGTTAGCCTAG i danRer4.chrM C 0 C 0 a score=274539.000000 s mm8.chrM 3189 85 + 16299 CTATTATCCTTTTATCAGTTCTATTAATAAATGGATCCTACTCTCTACAAACACTTATTACAACCCAAGAACACATATGATTACT s galGal2.chrM 4509 85 + 16775 CCATCATCCTGTTATCCACAATCATACTGAGCGGCAATTACACCTTAAGCACCCTGGCCATCACCCAAGAGCCCATCTACCTCAT i galGal2.chrM C 0 C 0 s monDom4.chrUn 117154614 85 + 174229318 CAATTATTCTGCTTTCAATTATACTAATTAATGGCTCCTTTACCCTAAAAAATTTAATAATTACCCAAGAAAATATATGATTAAT i monDom4.chrUn C 0 C 0 s echTel1.scaffold_181343 2580 85 + 18297 CTATTATTCTGCTATCAGTAATATTATTTAATGGTTCATTCTCTTTGTCCTCCCTCACTATTACTCAAGAACATTTATGACTGCT i echTel1.scaffold_181343 C 0 C 0 s loxAfr1.scaffold_36650 6186 85 + 16266 CAACTATCACCTTATCAATAGTACTAATAAATGGGTCCTTCACACTAACCGCCTTCGCTATAACACAAGAACATCTATGACTAAT i loxAfr1.scaffold_36650 C 0 C 0 s dasNov1.scaffold_23239 7003 85 - 16977 CCATCATCTTACTATCAATCATAATAACAAATGGCTCATTCACCCTATCTACCCTAACAACAACACAAGAACACATATGACTAAT i dasNov1.scaffold_23239 C 0 C 0 s canFam2.chrM 3185 85 + 16727 CAATTATTCTTCTATCAGTCCTCCTAATAAACGGGTCATTTACACTATCCACGCTAATTATTACCCAAGAACATATATGATTAAT i canFam2.chrM C 0 C 0 s bosTau2.chrM 3539 85 + 16338 CAATTATCCTGTTATCAGTACTCCTAATAAGTGGGTCCTTTACCCTCTCCACATTAATTACTACACAAGAACAAATATGGTTAAT i bosTau2.chrM C 0 C 0 s rheMac2.chr5 34439204 85 - 182086969 CCATTATCCTGCTATCAGTTCTACTGATAAGCCGCTCGTTTAACTTATACAAACTCTTCACCATGCAAGAATTCCTCTGACTGCT i rheMac2.chr5 C 0 C 0 s hg18.chrM 3746 85 + 16571 CCATCATTCTACTATCAACATTACTAATAAGTGGCTCCTTTAACCTCTCCACCCTTATCACAACACAAGAACACCTCTGATTACT i hg18.chrM C 0 C 0 s panTro2.chrM 3163 85 + 16554 CCATTATCCTACTGTCAACGCTACTAATAAGTGGCTCCTTCAATCTCTCTACCCTTGTCACAACACAAGAGCACCTCTGACTAAT i panTro2.chrM C 0 C 0 s oryCun1.scaffold_205008 817 85 - 118789 CAATTATCCTCCTATGCATCCTCCTAATAAATGGCTCATTTACATTATCATCCCTAATCACAACACAAGAATATATATGAATCCT i oryCun1.scaffold_205008 C 0 C 0 s rn4.chrM 3167 85 + 16300 CCTTATACCTCTTATCCGTCCTCCTAATAAGCGGCTCCTTCTCCCTACAAATACTTATCACTACACAAGAACATATCTGACTATT i rn4.chrM C 0 C 0 s tetNig1.chrUn_random 103513048 85 + 171761319 GCCTAATCCTACTCTCCCTAATTATCTTCACTGGGGGCTTCACACTACAAACCTTCAACACCGCCCAAGAAAGTATTTGACTTAT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4259 85 + 16596 GACTTATTCTATTATCTGCCGTTATTTTTTCTGGGGGATACACCCTACAAACATTTAATACAACTCAGGAAGACACATGACTTCT i danRer4.chrM C 0 C 0 e xenTro2.scaffold_8452 11626 124 + 23823 I a score=377866.000000 s mm8.chrM 3274 64 + 16299 TCTGCCAGCCTGACCCATAGCCATAATATGATTTATCTCAACCCTAGCAGAAACAAACCGGGCC s rn4.chrM 3252 64 + 16300 AATCCCCGCCTGACCAATAGCCATAATATGATACATTTCAACCCTCGCAGAAACAAATCGAGCT i rn4.chrM C 0 C 0 s oryCun1.scaffold_205008 902 64 - 118789 ACTACCAGCATGACCACTTGCCATAATATGATTTATCTCAACCCTAGCAGAAACCAACCGGGCT i oryCun1.scaffold_205008 C 0 I 2359 s panTro2.chrM 3248 64 + 16554 CCTGCCAACATGACCCCTGGCCATAATATGATTTATCTCTACACTAGCAGAGACCAACCGAACT i panTro2.chrM C 0 C 0 s hg18.chrM 3831 64 + 16571 CCTGCCATCATGACCCTTGGCCATAATATGATTTATCTCCACACTAGCAGAGACCAACCGAACC i hg18.chrM C 0 C 0 s rheMac2.chr5 34439289 63 - 182086969 CCTACCATCATGGCCC-TAGCCATAACATGATTCATCTCCACACTAGCAGAAACTAACCGAGCC i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 3624 64 + 16338 CCTCCCAGCATGGCCTCTAGCAATAATATGATTTATCTCAACACTAGCAGAAACAAACCGAGCT i bosTau2.chrM C 0 C 0 s canFam2.chrM 3270 64 + 16727 CTTTCCGGCCTGACCCCTAGCCATGATATGATTCATCTCTACCCTAGCAGAAACTAATCGAGCC i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 7088 64 - 16977 CTTTCCCCTCTGGCCACTAGCAATAATATGATTTATCTCCACACTAGCAGAAACCAATCGCGCC i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 6271 64 + 16266 CCTTCCTATATGACCCCTGATAATAATATGATTCACATCAACCTTAGCAGAAACTAACCGAGCC i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 2665 64 + 18297 AGTCCCCTCATGACCCCTAGCAATAATATGATTCATCTCAACACTAGCAGAAACTAACCGGGCC i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117154699 64 + 174229318 TATAACCGCATGACCTCTAACTATAATATGGTATATTTCTACATTAGCCGAGACAAACCGAGCT i monDom4.chrUn C 0 C 0 s galGal2.chrM 4594 64 + 16775 TTTTTCCGCATGACCCCTCGCAATAATATGATACATCTCTACCCTTGCTGAAACCAACCGCGCC i galGal2.chrM C 0 C 0 s xenTro2.scaffold_8452 11750 64 + 23823 GCTGCCGCTGCTGCCCATCTTCGTGGTCTACCTGATTTCCAGCGTGGCCGAAACCAACCGCCAC i xenTro2.scaffold_8452 I 124 C 0 s tetNig1.chrUn_random 103513133 64 + 171761319 CATCCCAACCTGACCCCTTGCCGCAATATGATACATCTCCACCCTAGCAGAAACCAACCGAGCC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4344 64 + 16596 ACTTCCACTATGACCATTAGCCATTATATGATTTATCTCAACGCTGGCAGAAACAAACCGAGCA i danRer4.chrM C 0 C 0 a score=1445299.000000 s mm8.chrM 3338 294 + 16299 CCCTTCGACCTGACAGAAGGAGAATCAGAATTAGTATCAGGGTTTAACGTAGAATACGCAGCCGGCCCATTCGCGTTATTCTTTATAGCAGAGTACACTAACATTATTCTAATAAACGCCCTAACAACTATTATCTTCCTAGGACCCCTATA--CTATATCAATTTACCAGAACTCTACTCA-------ACTAACTTCATAATAGAAGCTCTACTACTATCATCAACATTCCTATGGATCCGAGCATCTTATCCACGCTTCCGTTACGATCAACTTATACATCTTCTATGAAAAAACTTTCTA s rn4.chrM 3316 294 + 16300 CCCTTCGACTTAACAGAAGGAGAATCAGAATTAGTCTCAGGCTTTAACGTCGAATACGCCGCAGGACCATTCGCCCTATTCTTCATAGCCGAGTACACCAACATTATTCTAATAAACGCCCTAACATCAATTGTATTCCTAGGCCCCTTATA--TCATATCAATTACCCTGAATTATACTCA-------ACCAGCTTCATAACAGAAACACTACTTCTATCCACAACTTTCCTATGGATTCGAGCATCCTACCCCCGTTTTCGATATGACCAACTAATGCACCTCCTATGAAAAAATTTCCTC i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 3485 294 + 20791 CTCATTGACTTAACCGAAGGTGAATCAGAGCTCGTCTCCGGCTTCAATGTGGAGTACGCAGGAGGCCCCTTTGCTCTTTTCTTTTTAGCTGAATATACTAATATTATCCTTATAAATGCCCTTACAGCCATCCTATTCCTAGGCTCATTTCA--CAGCCACACTAACCCAGAAATATTTACA-------GTCAACTTTGCCACAAAGACTCTCCTACTCACAATAACATTTCTATGGATTCGAGCATCCTATCCCCGATTTCGCTATGACCAGCTAATACACCTCTTGTGAAAAAGTTTTCTA i oryCun1.scaffold_140182 M 1789 C 0 s panTro2.chrM 3312 294 + 16554 CCCTTCGACCTTACTGAAGGAGAATCTGAACTAGTCTCAGGCTTTAATATCGAGTATGCCGCAGGCCCCTTTGCCCTATTTTTCATAGCCGAATACATAAACATTATTATAATAAACACCCTCACTGCTACAATCTTCCTAGGAGCAACATA--CAATACTCACTCCCCTGAACTCTACACG-------ACATATTTTGTCACCAAAGCTCTACTTCTAACCTCCCTGTTCCTATGAATTCGAACAGCATATCCCCGATTTCGCTACGACCAGCTCATACACCTCCTATGAAAAAACTTCCTA i panTro2.chrM C 0 C 0 s hg18.chrM 3895 294 + 16571 CCCTTCGACCTTGCCGAAGGGGAGTCCGAACTAGTCTCAGGCTTCAACATCGAATACGCCGCAGGCCCCTTCGCCCTATTCTTCATAGCCGAATACACAAACATTATTATAATAAACACCCTCACCACTACAATCTTCCTAGGAACAACATA--TGACGCACTCTCCCCTGAACTCTACACA-------ACATATTTTGTCACCAAGACCCTACTTCTAACCTCCCTGTTCTTATGAATTCGAACAGCATACCCCCGATTCCGCTACGACCAACTCATACACCTCCTATGAAAAAACTTCCTA i hg18.chrM C 0 C 0 s rheMac2.chr5 34439352 294 - 182086969 CCTTTTGATCTATCAGAAGGAGAGTCAGAGTTAGTCTCAGGCTTCAACATCGAATACGCCACAGGCTCATTTGTCCTCTTCTTTATAGCAGAATATATGAATATTATCATAATAAATGCCCTAACTACTGCTATTTTCATAGGAGTACTACA--CACTATATACTCACCAGAATTCTATACT-------ACAAATTTCATTACCAAGACCCTTCTTTTAACCACTCTATTTTTATGAATTTGAATGGCATACCCTCAATTCCACTGTGACCAACTCATACATCTTTTATGAAAAAACTTCCTA i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 3688 294 + 16338 CCATTTGATTTAACTGAAGGAGAATCAGAGCTAGTCTCGGGCTTCAACGTAGAATATGCAGCAGGACCATTTGCCCTCTTCTTCATAGCAGAGTACGCAAATATTATCATAATAAATATCTTTACAGCAATTTTATTCCTAGGAACATCCCA--CAATCCACACATACCAGAACTCTACACA-------ATCAATTTTACCATTAAATCCCTACTGCTCACAATATCCTTCCTATGAATCCGAGCATCCTACCCTCGATTTCGCTATGACCAACTAATACACTTACTATGAAAAAATTTTCTA i bosTau2.chrM C 0 C 0 s canFam2.chrM 3334 294 + 16727 CCCTTCGACTTAACTGAAGGAGAATCCGAACTAGTCTCTGGATTTAACGTAGAGTATGCAGCAGGTCCTTTCGCCCTATTCTTTCTAGCAGAGTACGCAAATATTATTATAATAAACATCCTCACAACAATTCTGTTCTTCGGCGCATTCCA--CAACCCATTCATACCAGAACTCTACTCT-------ATTAACTTCACTATAAAAACCCTCTTATTAACCATCTGCTTCCTATGAATTCGAGCATCATACCCTCGATTCCGCTACGATCAGTTAATACACTTATTATGAAAAAATTTTCTA i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 7152 294 - 16977 CCATTCGACCTAACAGAAGGTGAATCAGAATTAGTGTCCGGATTCAACGTCGAATATGCAGCAGGGCCATTTGCCCTATTCTTTTTAGCTGAGTATGCCAACATCATTATAATAAATGCACTAACAGCCATTTTATTTTTTGGGGCCATACA--CAACCCAATATTCCCAGAACTACACACC-------CTAAACTTAATCACAAAAACCCTGATTCTTACTATAATATTTCTATGAGTACGCGCATCCTATCCACGATTCCGCTATGACCAACTAATACACCTCCTATGAAAAAGCTTTCTC i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 6335 294 + 16266 CCATTTGATTTAACCGAAGGAGAATCAGAATTAGTTTCTGGCTTCAATGTCGAATACTCAGCTGGCCCTTTCGCCCTATTTTTTATAGCTGAATACGCTAACATCATCATAATAAACGCTCTTACTGTGATTCTATTTATAGGAACCTCTTA--TGACCCCCAAATACCAGAAATTAGTACC-------ATTAACTTTGTCATAAAAACTATTATCCTAACCATCTGCTTTCTATGAGTACGAGCATCTTACCCACGATTCCGATACGACCAACTAATACATCTCCTCTGAAAAAATTTTCTC i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 2729 294 + 18297 CCATTTGACTTAACAGAAGGGGAATCAGAATTAGTTTCAGGCTTTAACGTTGAATATGCAGCAGGGCCCTTCGCTCTATTTTTCCTTGCAGAATACGCTAACATCATTATAATGAATGCTCTAACCACTATTCTATTTATAGGAGCATTTCA--TAATATATCTGTTACAGAAATTTACACG-------TTAAATTTTATTACAAAAACACTACTTCTCACTATACTATTTTTATGAGTTCGAGCATCATACCCTCGATTTCGATATGATCAACTAATACATTTATTATGAAAAAACTTCTTA i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117154763 294 + 174229318 CCTTTTGACCTGACAGAAGGAGAGTCGGAATTAGTCTCAGGTTTTAATGTGGAATATGCCGCTGGACCCTTCGCTATATTCTTTTTAGCAGAGTACGCCAACATTATAGCAATAAATGCCATAACAACAATTCTCTTCCTGGGGCCCCCCCT--AAACCACAACCACACTTATACCTGCACC-------ATTAGCTTCATATTCAAAACAATATTACTAACATCAGCCTTCCTATGAGTACGAGCATCATACCCTCGCTTTCGATATGATCAATTAATGTACTTATTATGAAAAAGCTTCCTC i monDom4.chrUn C 0 C 0 s galGal2.chrM 4658 294 + 16775 CCATTTGACCTAACAGAAGGAGAGTCAGAGCTAGTCTCAGGATTTAATGTAGAATATGCCGCCGGACCATTCGCCATATTCTTCTTAGCCGAATACGCCAACATTATACTAATAAACACACTAACCACCGTCCTATTCCTGAACCCAAGCTT--CCTAAATCTCCCACCAGAATTATTTCCC-------ATTGCACTCGCTACAAAAACCCTCCTCCTTTCATCCTCATTTCTATGAATCCGGGCCTCATATCCACGGTTCCGCTATGACCAACTAATACATCTTCTATGAAAAAACTTCCTC i galGal2.chrM C 0 C 0 s xenTro2.scaffold_8452 11814 303 + 23823 CCGTTCGACGTGGTCGAAGGCGAGGCCGAGATCGTGGCTGGTCATATGGTCGAGTATTCGGGCATGGGCTTCGCCATCTTCTTCCTGGCTGAATACGCCGCGATGTGGCTGGTTTCCATCCTGGCCGTGCTGATGTTCCTGGGCGGCTGGCTGCCACCGTTCGCGGCCCTGTCCTTCATCCCGGGCTGGATCTGGCTGGCGGCCAAGACCTTCCTGGTGGTCTCCATGTTCATCTGGATCCGTGCCACCTTCCCGCGCTACCGCTATGACCAGATCATGCGCCTGGGCTGGAAGATCTTCATC i xenTro2.scaffold_8452 C 0 I 1675 s tetNig1.chrUn_random 103513197 294 + 171761319 CCATTTGATCTAACTGAAGGCGAGTCAGAACTAGTTTCTGGTTTTAACGTAGAATACGCAGGAGGCCCTTTCGCCCTATTCTTCCTCGCAGAATACGCCAACATCCTATTTATAAACACCCTTTCCGCCAGCCTCTTCCTAGGAGCCTCCCA--TATCCCAATACTTCCAGAACTGACCACA-------ATAAACCTAATAACCAAAGCAGCCGTCCTCTCACTCGTCTTCCTATGGGTACGAGCCTCCTACCCACGATTTCGCTATGACCAACTAATACACCTTATCTGAAAAAACTTCTTA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4408 294 + 16596 CCGTTCGATCTTACAGAGGGGGAATCAGAACTAGTCTCAGGCTTCAATGTAGAGTATGCAGCAGGACCATTTGCCTTATTCTTTTTGGCTGAGTACTCAAATATTTTACTAATAAACACCCACTCAACAGTACTATTTTTAGGAGCATCGTT--TACCCCAGATGCACCTGAGCTAATAACA-------ATCAGTATTGCAACCAAAACTGCAATACTATCTATTTTGTTTCTCTGAATACGAGCATCATACCCACGATTCCGATACGACCAACTTATGCATCTTATCTGGAAAAACTTTCTT i danRer4.chrM C 0 C 0 a score=692934.000000 s mm8.chrM 3632 140 + 16299 CCCCTAACACTAGCATTATGTATGTGACATATTTCTTTACCAATTTTTACAGCGGGAGTACCACCATACATATA------GAAATATGTCTGA--T---AA--AAGAATTACTTTGATAGAGTAAATTATAGAGG-TTCA--AGCCCTCTTAT-TTc- s rn4.chrM 3610 140 + 16300 CCACTAACACTAGCATTCTGCATATGATACATTTCCCTGCCAATTTTCCTAGCAGGAATTCCACCCTACACATA------GAAATATGTCTGA--C---AA--AAGAGTTACTTTGATAGAGTAAATAATAGAGG-TTTA--AATCCTCTTAT-TTc- i rn4.chrM C 0 I 71 s oryCun1.scaffold_140182 3779 141 + 20791 CCCCTCACATTAGCCCTGTGCATATGACATATCTCAATACCTATCATACTTTCAAGTATCCCTCCTCAGATATA------GAAATATGTCTGA--T---AA--AAGAGTTACTTTGATAGAGTAAATAATAGAGGATCTT--AGCCCTCTTAT-TTc- i oryCun1.scaffold_140182 C 0 I 77 s panTro2.chrM 3606 141 + 16554 CCACTCACCCTAGCATCACTCATGTGATATATCTCCATACCCACTACAATCTCCAGCATCCCCCCTCAAACCTAA-----GAAATATGTCTGA--T---AA--AAGAATTACTTTGATAGAGTAAATAATAGGAG-TTCA--AATCCCCTTAT-TTc- i panTro2.chrM C 0 I 70 s hg18.chrM 4189 141 + 16571 CCACTCACCCTAGCATTACTTATATGATATGTCTCCATACCCATTACAATCTCCAGCATTCCCCCTCAAACCTAA-----GAAATATGTCTGA--T---AA--AAGAGTTACTTTGATAGAGTAAATAATAGGAG-CTTA--AACCCCCTTAT-TTc- i hg18.chrM C 0 I 70 s rheMac2.chr5 34439646 136 - 182086969 CCACTTACACTAGCATTTTGC-----ATATATCTCAATGCTTGTCCTAATTTCCACCATCCCACCCTAAACATAG-----GCAATATGTCAGA--C---AA--AAGAATTACTTTGATAGAGTAAACAATAGAGA-TTAA--AATCCTCTGAT-TTc- i rheMac2.chr5 C 0 I 71 s bosTau2.chrM 3982 141 + 16338 CCTCTGACACTAGCCCTGTGCATGTGACACGTATCCCTACCCATCCTTACATCAGGCATCCCACCACAAACATAA-----GAAATATGTCTGA--C---AA--AAGAGTTACTTTGATAGAGTAAATAATAGAGG-TTCA--AACCCTCTTAT-TTc- i bosTau2.chrM C 0 I 71 s canFam2.chrM 3628 141 + 16727 CCCTTAACTTTAGCCCTATGCATATGACATGTTGCCTTACCCATTATCACCGCAAGTATCCCACCCCAAACATAA-----GAAATATGTCTGA--T---AA--AAGAGTTACTTTGATAGAGTAAATAATAGAGG-TTTA--AATCCTCTTAT-TTc- i canFam2.chrM C 0 I 72 s dasNov1.scaffold_23239 7446 140 - 16977 CCACTTACATTAGCATTATGTATACTCCACGTATCAGCCCCAGCAACATTCGCAGGCGTACCCCCACACATATA------GGAATATGTCTGA--T---AA--AAGAATTACTTTGATAGAGTAAATAATAGAGG-TTTG--AACCCTCTTAT-TCc- i dasNov1.scaffold_23239 C 0 I 72 s loxAfr1.scaffold_36650 6629 140 + 16266 CCACTAACTCTAGCTCTATGCATATGACACATCTCAGTCCTAATCTCACTAGCATGTATTCCACCACAAGCATA------GAAATATGTCTGA--C---AA--AAGAATTACTTTGATAGAGTAAATTATAGAGG-TCTG--AACCCTCTTAT-TTc- i loxAfr1.scaffold_36650 C 0 I 71 s echTel1.scaffold_181343 3023 140 + 18297 CCAATAACCTTAGCCCTATGCATATGATACATCTCCATTCCTGTCATATTAGCTAGTATTCCCCCTCAAATATA------GAAACATGTCTGA--T---AA--AAGAGTTACTTTGATGGAGTAAATAATAGAGG-TTTA--AATCCCCTTGT-TTc- i echTel1.scaffold_181343 C 0 I 67 s monDom4.chrUn 117155057 141 + 174229318 CCAATTACCCTAGCACTATGTCTAATATTTATCTCTATTCCAATTGCACTATCAAGTATCCCACCACAAATATAA-----GAAATATGTCTGA--C---AA--AAGAATTATCTTGATAGGATAAATAATAGGGG-TTCA--AACCCCCTTAT-TTc- i monDom4.chrUn C 0 I 70 s galGal2.chrM 4952 142 + 16775 CCCCTAACCCTAGCCTTATGCCTCTGACATACCAGCATACCAATCAGCTACGCCGGCCTCCCCCC---AATCTAAG----GAAGCGTGCCTGAACA---AA--AAGGATCACTATGATAAAGTGAAC-ATAGAGG-TATAACAACCCTCTCAC-TTC- i galGal2.chrM C 0 I 75 s xenTro2.scaffold_18215 2547 143 + 3330 CCAATCACACTAGCAATAACACTATGACACATCTCCTTACCAATCTCTCTATCAGGCCTACCACCTCAGATATAG-----GAAACGTGCCCGA--A---AGTTAGGGATCACTNTGATAGAGTGAAACATAGGGG-TTCA--AACCCCCTCGT-CTC- i xenTro2.scaffold_18215 M 690 I 2 s tetNig1.chrUn_random 103513491 148 + 171761319 CCCCTAACATTAGCACTTGTTATCTGACACCTGGCACTCCCAATCACATTTGCAGGCCTCCCGCCTCAAATATAGC-CAGGAGCTGTGCCTGA--AT--TA--AAGGGCCACTTTGATAGAGTGAACCATGGGGG-TTAA--ATTCCCCCCAGCTCCT i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4702 150 + 16596 CCAATCACATTAGTTCTAGTACTATGACATATCGCCCTACCAATCGCACTAGCTGGTCTACCCCCACAAACATAACTCAAGAACCGTGCCCGA--ATGCTA--AGGGGTCACTTTGATGGAGTGAACCATAGGGG-TTAA--AATCCCCTCGG-TTCT i danRer4.chrM C 0 C 0 a score=14911.000000 s mm8.chrM 3772 70 + 16299 taggacaataggaattgaacctacacttaag-----------aattcaaaattctccgtgctacctaaacaccttatccta s xenTro2.scaffold_18215 2692 70 + 3330 TAGAAAGACAGGAATTGAACCTGCACCTGAG-----------AGATCAAAACCCTCCGTACTCCCACTATACCACTCTCTA i xenTro2.scaffold_18215 I 2 C 0 s tetNig1.chrUn_random 103513639 70 + 171761319 TAGAAAGAAGGGACTCGAACCCAACCCAGAGAGATCAAAACT-----------CTCAGTGCTTCCACTACACCACTTTCTA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4852 70 + 16596 TAGAAAGAAGGGGGTCGAACCCATGCCCAAG-----------AGATCAAAACTCTTAGTGCTTCCACTACACCACTTTCTA i danRer4.chrM C 0 C 0 e monDom4.chrUn 117155198 70 + 174229318 I e echTel1.scaffold_181343 3163 67 + 18297 I e loxAfr1.scaffold_36650 6769 71 + 16266 I e dasNov1.scaffold_23239 7586 72 - 16977 I e canFam2.chrM 3769 72 + 16727 I e bosTau2.chrM 4123 71 + 16338 I e rheMac2.chr5 34439782 71 - 182086969 I e panTro2.chrM 3747 70 + 16554 I e hg18.chrM 4330 70 + 16571 I e rn4.chrM 3750 71 + 16300 I e oryCun1.scaffold_140182 3920 77 + 20791 I e galGal2.chrM 5094 75 + 16775 I a score=791168.000000 s mm8.chrM 3842 168 + 16299 ATAG--TAAGGTCAGCT-AA-T-TAAGCTATCGGGCCCATACCCCGAAAACGTTGGTTTAAATCCTTCCCGTACTAATAAATCCTATCACCCTTGCCATCATCTACTTCA--CAATCTTCTTAGGTCCTGTAATCACAATATCCAGCACCAACCTAATACTAATATGAGTAGGCC s rn4.chrM 3821 167 + 16300 ATAG--TAAGGTCAGCT-AA-C-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTT-AAACCCTTCCCGTACTAATAAATCCAATTACCCTAACCATTATTTACTTAA--CCACCTTTAAAGGCCGCCTAATCACGACACTTAGCACCAACTTACCACCAATATGAGTAGGAT i rn4.chrM I 71 C 0 s oryCun1.scaffold_140182 3997 168 + 20791 TAAG--TAAGGTCAGCT-AA-A-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTTTATATCCTTCCCGTACTAATTAACCCCCTAACTCTTATTATTATTATATTTA--CTCTATTTATAGGCACGATAATCACAGTATTTAGCTCCCACTGACTAACTATATGAATCGGAT i oryCun1.scaffold_140182 I 77 C 0 s hg18.chrM 4400 167 + 16571 aAAG--TAAGGTCAGCT-AA-A-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTT-ATACCCTTCCCGTACTAATTAATCCCCTGGCCCAACCCGTCATCTACTCTA--CCATCTTTGCAGGCACACTCATCACAGCGCTAAGCTCGCACTGATTTTTTACCTGAGTAGGCC i hg18.chrM I 70 C 0 s panTro2.chrM 3817 167 + 16554 aAAG--TAAGGTCAGCT-AA-A-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTT-ACACCCTTCCCGTACTAATTAATCCCCTAGCCCAACCCATCATCTACTCTA--CCATCCTTACAGGCACGCTCATTACAGCGCTAAGCTCACACTGATTTTTCACCTGAGTAGGCC i panTro2.chrM I 70 C 0 s rheMac2.chr5 34439853 160 - 182086969 -GAT--TAAGGTCAGCT-AA-A-TAAGCTATTGGGCCCATACACCGAAAATGTTGGTT-ATACCCTTCCCGTAC--------CCCTTAGCTCAACTTATTATTTCCCTCAGCCCATTTTCACAGGAACTCATATCACAATGCTATGCTCACACTGATTTCTAATCTGAACAGGGC i rheMac2.chr5 I 71 C 0 s bosTau2.chrM 4194 168 + 16338 TTAG--TAAGGTCAGCT-AA-T-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTTTATATCCTTCCCGTACTAATAAACCCAATTATCTTTATTATTATTCTACTAA--CCATTATACTAGGAACTATTATTGTCATAATCAGTTCTCACTGACTACTTGTCTGAATCGGGT i bosTau2.chrM I 71 C 0 s canFam2.chrM 3841 169 + 16727 aCAG--TAAGGTCAGCTAAA-T-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTTTATACCCTTCCCGTACTAATAAAACCCCCTATTCTCATTATCATCATAGCAA--CTATCATGACAGGAACCATAATCGTCATACTAAGCTCGCACTGATTACTGATCTGAATTGGAT i canFam2.chrM I 72 C 0 s dasNov1.scaffold_23239 7658 166 - 16977 --AG--TAAGGTCAGCT-AA-C-AAAGCTATCGGGCCCATACCCCGAAAATGTAGGCTCATACCCTTCCCGTACTAATAAATCCCttaatttttattattattatattta--CCTTAATCTTAGGAACAGTAATTACCATAATTAGCTCCCATTGATTATTAATCTGGATAGGCC i dasNov1.scaffold_23239 I 72 C 0 s loxAfr1.scaffold_36650 6840 169 + 16266 CTAG--TAAGGTCAGCT-AA-ATTAAGCTATCGGGCCCATACCCCGAAAATGTCGGATCACACCCCTCCCATACTAATAAACCCACTAGCTCTTAGCCTAATCCTAACAA--CACTACTCGCAGGAACACTGATTACCATAATAAGCTCCCATTGATTGACAGCCTGAATGGGAC i loxAfr1.scaffold_36650 I 71 C 0 s echTel1.scaffold_181343 3230 167 + 18297 ctaG--TAAGGTCAGCT-AA-A-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTTTAT-TCCTTCCCATACTAATTAACCCATTAGCTTCCATTATTATGTCTAGTA--CTCTAATTTCAGGCACTCTAATTACTTTAATCAGCTCTCACTGACTTATAGCATGAATAGGTC i echTel1.scaffold_181343 I 67 M 371 s monDom4.chrUn 117155268 165 + 174229318 ---G--TAAGGTCAGCT-AA-A-TAAGCTATCGGGCCCATACCCCGAAAATGTTGGTTTGCACCCTTCCCATACTAATGTCCCCCTATGTATTAACCATTGTTTCGCTCA--GCTTATTAACAGGAACTTCAGTAACTCTAATTAGCAACCATTGGTTAACTGCCTGAATAGGCC i monDom4.chrUn I 70 C 0 s galGal2.chrM 5169 168 + 16775 CTAG--TAAGGTCAGCT-AA-C-TAAGCTATCGGGCCCATACCCCGAAAATGATGGTTTAACCCCTTCCCCTACTAATGAACCCCCATGCAAAACTAATCTGCACAGTAA--GCCTCATCATGGGAACCAGCATCACAATCTCCAGCAACCATTGAATCTTAGCCTGAACAGGCT i galGal2.chrM I 75 C 0 s xenTro2.scaffold_18215 2762 165 + 3330 ---G--TAAAGTCAGCT-AA-A-AAAGCTTTTGGGCCCATACCCCAAACATGTTGGTTAAACTCCTTCCTTTACTAATGAACCCTATCGCACTATCAATAATCCTCTCAA--GCCTAGCATTAGGCACTATCCTCACTGTATCAAGCAATCATTGATTCCTAGCCTGAATAGGCC i xenTro2.scaffold_18215 C 0 C 0 s tetNig1.chrUn_random 103513709 166 + 171761319 ---G--TAAAGTCAGCT-AAGT-TAAGCTTTTAGGCCCATACCCTAAAGATGTAGGTTAAAATCCTTCCTTTACTAATGAGCCCTTACATTACAGCCTCCTTGCTATTTG--GCCTACTCCTAGGCACAACAATCACCGCAACCAGCTCCCACTGACTAATTGCCTGAATAGGCC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 4922 167 + 16596 ---GGATGAGGTCAGCT-AA-T-TAAGCTACCGGGCCCATACCCCGAACATGATGGTTAAAGTCCCTCCTTCATCAATGAACCCTTATGTCCTTATAATTTTAATATCCA--GCCTAGGTCTAGGAACCACATTAACTTTTTCTAGCTCACACTGAATTTTAGCCTGAATAGGAT i danRer4.chrM C 0 C 0 a score=1213783.000000 s mm8.chrM 4010 399 + 16299 TGGAATTCAGCCTACTAGCAATTATCCCCATACTAATCAACAAAAAAAACCCACGATCAACTGAAGCAGCAACAAAATACTTCGTCACACAAGCAACAGCCTCAATAATTATCCTCCTGGCCATCGTACTCAACTATAAACAACTAGGAACATGAAT--ATTTCAACAACAAAC-AAACGGTCTTATCCTTAAC----ATAACATTAATAGCCCTATC------CATAAAACTAGGCCTCGCCCCATTCCACTTCTGATTACCAGAAGTAACTCAAGGGATCCCACTGCACATAGGACTTATTCTTCTTACATGACAAAAAATTGCTCCCCTATCAATTTTAATTCAAATTTACCCGCTACTCAACTCTA--CTATCATTTT----------AATA-CTAGCAATTACTTCTATTTTCATAGGGG s rn4.chrM 3988 399 + 16300 TGGAAATAAGCCTTTTAGCTATCATCCCACTTCTAGCCAACAAAAAAAGCCCACGATCAACTGAAGCAGCAACAAAATATTTTCTAACCCAAGCTACAGCCTCAATAATTATCCTACTAGTCATCATCCTCAACTACAAACAATCAGGAATATGAAC--CCTTCAACAACAAAC-CAATAACATACTACTCAAC----ATAATACTCATTTCACTGGC------CATAAAACTTGGACTAGCCCCATTCCACTACTGACTACCCGAAGTCACCCAAGGAATTCCCCTACACATTGGATTAATCTTACTAACATGACAAAAAATTGCTCCACTATCAATTCTATACCAATTTTATCAACTCCTAAACCCAA--CTATCACCAC----------CATT-CTCGCAATTTCATCAGTCTTTGTTGGCG i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 4165 399 + 20791 TAGAAATAAACATACTAGCAATTATCCCTATTCTAATCAACAAAGCCACCCCACGATCAACAGAAGCTGCAACCAAATATTTTCTAACACAAGCCACAGCATCTATAATCTTAATAATAGCTATTACACTTAATATCCTTGACTCCGGACAATGAAC--CCT-----AATTAAT-CCACAGAATCA-ACTTACT----CCAGTCCTAATTACACTGGCACTAATCATTAAACTAGGAATAGCCCCCTTCCACTTCTGAGTACCAGAGGTCACCCAAGGAGTTCCCCTAAAATCAGGATTAATCCTTCTCACGTGACAAAAATTAGCCCCCCTATCCATCCTTTACCAAATCTCCCCATCAATTAATCCAA--CTATAATAAT----------ATCA-GTAGCCATTCTATCAATTATAGTTGGCG i oryCun1.scaffold_140182 C 0 C 0 s hg18.chrM 4567 399 + 16571 TAGAAATAAACATGCTAGCTTTTATTCCAGTTCTAACCAAAAAAATAAACCCTCGTTCCACAGAAGCTGCCATCAAGTATTTCCTCACGCAAGCAACCGCATCCATAATCCTTCTAATAGCTATCCTCTTCAACAATATACTCTCCGGACAATGAAC--CAT-----AACCAATACTACCAATCAATACTCATCATTAATAATCATAATGGCTATAGC------AATAAAACTAGGAATAGCCCCCTTTCACTTCTGAGTCCCAGAGGTTACCCAAGGCACCCCTCTGACATCCGGCCTGCTTCTTCTCACATGACAAAAACTAGCCCCCATCTCAATCATATACCAAATCTCTCCCTCACTAAACGTAA--GCCTTCTCCT----------CACT-CTCTCAATCTTATCCATCATAGCAGGCA i hg18.chrM C 0 C 0 s panTro2.chrM 3984 399 + 16554 TAGAAATAAATATACTAGCTTTTATCCCAATCCTAACCAAAAAAATAAGCCCCCGCTCCACAGAAGCCGCCATCAAATACTTTCTCACACAAGCAACTGCGTCCATAATTCTCCTGATAGCTATCCTCTCCAACAGCATACTCTCCGGACAATGAAC--CAT-----AACCAATACTACCAATCAATACTCATCATTAATAATTATAATAGCAATGGC------AATAAAACTAGGAATAGCCCCCTTTCACTTTTGAGTTCCAGAAGTTACCCAAGGCACCCCCCTAATATCCGGCCTACTCCTCCTCACATGACAAAAATTAGCCCCTATTTCAATTATATACCAAATCTCCTCATCACTGAACGTAA--ACCTTCTCCT----------CACC-CTTTCAATCTTGTCCATTATAGCAGGCA i panTro2.chrM C 0 C 0 s rheMac2.chr5 34440013 395 - 182086969 TAGAAATAAACATACTAGCACTTACCCTAATCTTAATTAAAAAAATAAATCCCCGCTCTACAGAAGCAGCCACCAAATATTTCCTTACACAAGCAACCATATCTATAATTCTCATGACAGGTATCCTTTCCAATAACCTGTTCTCCAGACAATGAAA--AAT-----AATAAACACTATCAATCAATTCTTATCCTTAATAATAATAGTGGCCCTAGT------AATAAAACTAGGAATATTCCCCTTTCACTTCTGAGTCTCAGTGATAACCCAAGGAATCTCTTTAATGTCTGGTATACTTCTCCTCACATGACAAAAAGTAGCTCTTATCTCTATTATGTTTCAAAGTTTTTCATCAACAAACAGGA--ACATCCTCCT----------AACA-----CAATCCTATCCATTATAGTGGGTG i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 4362 399 + 16338 TTGAAATAAATATACTCGCCATCATCCCCATCATAATAAAAAATCACAACCCACGAGCTACAGAAGCATCAACTAAATATTTTTTGACTCAATCAACAGCCTCAATACTACTAATAATAGCCGTCATCATTAACCTAATATTCTCAGGCCAATGAAC--CGT-----AATAAAACTATTTAACCCAATAGCCTCAATACTTATAACGATAGCCCTAGC------TATAAAACTAGGAATAGCCCCATTTCACTTCTGAGTCCCAGAAGTAACACAGGGCATCCCCCTATCCTCAGGCCTTATCCTACTGACATGACAAAAACTAGCACCTATATCTGTACTTTACCAAATCTTCCCATCAATTAACCTAA--ACTTAATTCT----------AACC-CTATCAGTTTTATCAATCCTAATTGGAG i bosTau2.chrM C 0 C 0 s canFam2.chrM 4010 399 + 16727 TCGAAATAAACATGCTAGCCATCATCCCTATTCTCATAAAAAAGTACAATCCACGAGCCATAGAGGCCTCTACAAAATATTTTCTTACACAAGCTACAGCCTCAATATTACTAATAATAGGAGTCACTATCAACCTCCTTTACTCCGGCCAATGGGT--AAT-----CTCAAAAATCTCAAACCCCATCGCATCCATCATGATAACCACTGCCCTAAC------AATAAAACTAGGCCTATCTCCATTCCACTTCTGAGTTCCCGAAGTAACACAGGGAATTACGCTCATATCAGGAATAATCCTACTAACATGACAAAAAATCGCACCTATATCCATCCTATATCAAATCTCTCCATCAATTAACACTA--ACCTTCTTAT----------ACTA-ATAGCCCTTACATCCGTTCTAGTAGGAG i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 7824 399 - 16977 TAGAAATAAACATATTCTCAATAATCCCCATTATCATAATAAAATCACACCCTCGATCAACAGAAGCCGCCACCAAATATTTCATGACACAAGCAACAGCATCTATACTTCTAATAATAGGCGTAATCATTAACTTATACTACTCAGGACAATGAAC--AAT-----TATAAATTCACTCAACCCAGTTACATCATATATAATAACCATCGCACTTGC------CATAAAACTAGGACTAGCCCCATTCCACTTCTGAGTGCCAGAGGTAACGCAAGGTACCCAACTAACATCAGGAATAATTCTTCTCACATGACAAAAACTAGCCCCAATAACAATCCTCTATCAAATCCACTCATCCCTAAACCTAA--ATCTAATACT----------AACC-CTAGCTATCCTTTCAATCCTAATCGGGG i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 7009 399 + 16266 TAGAAATGAACATACTTACTATAATTCCCATTCTAATAAAGACAACCAATCCACGATCCACAGAAGCCGCCACAAAGTACTTTATAACCCAAGCCATAGCATCCATAATACTTATAATGGCTTTAACAATTAACCTAATATACTCAGGACAATGATC--AAT-----TACAAAAATAACCAACCCTGTAGCATCAAACATAGCATTAATAGCTTTAAT------AACCAAACTAGGCTCAGCCCCATTCCACTTCTGAGTTCCAGAAGTAACGCAAGGAGTCGAACTTACACCAGGGATGATCTTGTTAACCTGACAAAAATTAGCACCATTATCCCTACTATATCAAATGGCCACCTACACTAACACTA--ACCTAATCTA----------CCTT-TCTGGTCTACTTTCAATCCTAATTGGGG i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_49882 4260 392 - 7170 TTGAAATGAATATATTTGCTATTATTCCTATGATCATAAAAAATAACTCCCCCCGAGCAATTGAGGCTGCAATAAAATATTTCCTCATTCAAGCATCCGCCTCCATACTACTACTTATAGCAGCCTCCCTTAATTTTATATACTCAGGTCAATGAAC--GTT-----AACAGAAATAAATGTCTCAATAGCATCCCTAATTATATTAATTGCTATACT------GATAAAATTAGGTATGGCACCATTTCACTTCTGAGTCCCAGAAGTTACTCAAGGTACTGTTTTATTGACCAGCCTCATTATTTTAACTTGACAAAAGCTAGCCCCCCTAGCTATTCTTTTCCAAATCGCCCCCTCAATTAATGTAG--ATATTATTCT----------TACA-ACAGCTATCCTATCAATTCTA------- i echTel1.scaffold_49882 I 1469 n 67 s monDom4.chrUn 117155433 399 + 174229318 TAGAAATTAATACACTGGCCATTATTCCACTAATAACTTACCCCCACCACACACGAAACACAGAATCAGCCATCAAATATTTCATAACTCAAGCTACAGCTTCAATACTCCTCATATTCTCTATTATTTATAATGCATCCTTCACTAACCAATGGAC--CAT-----TAACCACTCACCCAACCAATGAGCCTCCTTACTAATAACCCTAGCCCTAGC------AATAAAACTAGGACTAGCCCCCTTTCACTTTTGAGTGCCAGAAGTTACACAAGGAATCCCACTATTATCTGGTATAATACTCCTAACATGACAAAAAATTGCTCCCATCTCAATCATATACCAAATTTCACCCTCACTTAATATAC--AAGTACTAAT----------AACC-TTAAGCATTTTATCCACACTATTAGGAG i monDom4.chrUn C 0 C 0 s galGal2.chrM 5337 399 + 16775 TAGAGATCAACACCTTAGCCATCATCCCCCTCATCTCCAAGTCACACCACCCCCGAGCGATTGAAGCCACTATCAAATATTTCCTCACCCAATCAACTGCATCAGCCCTAATCCTCTTCTCGAGCATAACCAACGCCTGATCCACCGGACAATGAGA--CAT-----TACACAACTAAACCACCCGACATCATGCCTAATATTAACAATAGCAATCGC------AATCAAATTAGGACTAGTCCCATTCCACTTCTGATTCCCAGAAGTACTCCAAGGCTCCTCCCTAATCACTGCCCTACTACTCTCCACCCTAATAAAACTCCCCCCAATCACACTCCTCCTCCTAACATCACAGTCTCTTAATACCA--CCTTACTCAC----------CCTC-CTAGCAATCTCCTCCACCCTAATCGGAG i galGal2.chrM C 0 C 0 s xenTro2.scaffold_18215 2927 399 + 3330 TAGAAATCAATACCCTAGCTATCATCCCACTGATAGCCCAAAACCACCACCCACGAGCAGTTGAAGCCTCAACCAAATACTTTCTAACTCAAGCTGCAGCCTCAGCTCTTCTCTTATTCTCAGCTTTAAATAATGCTTGGTTCACTGGAGAATGGTC--AAT-----TATAAACTTGACCAACTCAATCTCATGCACCACCATAACCATCGCCATCTG------CATGAAACTCGGACTAGCACCATTCCACTTCTGACTCCCAGAGGTCCTCCAAGGACTTAATTTAACAACAGGTCTTATCCTATCTACCTGACAAAAACTTGCCCCAATGGCCATCCTCTACCAGATCTCTCCATCAATAAACACCT--CCCTTCTTCT----------TTTA-ATTGGACTAACCTCAACATTAATCGGGG i xenTro2.scaffold_18215 C 0 n 0 s tetNig1.chrUn_random 103513875 396 + 171761319 TAGAAATCAACACCCTCGCCATTATTCCCCTGATAGCCCAACACCACCACCCACGAGCAGTAGAGGCCACAACCAAATATTTCCTCACACAAGCCACCGCAGCAGCCATACTCCTATTCGCAAGCACAACCAACGCATGACTGACCGGACAGTGAGAACTGC-----AACAA--ATAACACACCCCCTTCCCTCCACATTAATTATTCTTGCCCTGGC------CCTAAAAATTGGACTAGCCCCACTACACACTTGACTCCCAGAAGTCCTCCAAGGATTAGACCTAACAACCGGACTCGTCCTCTCCACATGACAAAAGCTCGCACCCTTTGCCCTCCTCCTCCAACT---TCAACCAAACAACCCAA--CACTGCTCGT----------CATC-CTAGGAGTGCTATCAACACTAATCGGAG i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 5089 399 + 16596 TAGAAATTAATACTTTAGCAATTGTCCCTCTAATAGCACAACAACACCACCCACGGGCAGTAGAAGCCACCACAAAATACTTCCTTATTCAAGCTGCTGCCGCAGCAATAATTCTATTCACAAGTACAACAAATGCCTGAATTTCAGGACAATGGGA--TGT-----TACAGGTATACCAGGCCCAGCCACCAGTACAGCAATAATGTTTGCATTGGC------TCTCAAAATCGGTCTAGCACCAATACATTTTTGATTACCAGAAGTTCTTCAAGGATTAGATCTGTTGACAGGACTAATTTTGTCAACCTGACAAAAACTTGCCCCAATAGCATT--------AA-----TTATCCAAACGACCCAAACCACTGACCCTCTTATTCTTACATCACTAGGAATTGCTTCCTCTCTCATTGGAG i danRer4.chrM C 0 C 0 a score=552799.000000 s mm8.chrM 4409 135 + 16299 CATGAGGAGGACTTAACCAAACACAAATACGAAAAATTATAGCCTATTCATCAATTGCCCACATAGGATGAATATTAGCAATTCTTCCTTACAACCCATCCCTCACTCTACTCAACCTCATAATCTATATTATTC s galGal2.chrM 5736 135 + 16775 GCTGAATGGGCCTAAACCAAACACAAACACGAAAAATCCTAGCCTTCTCATCCATCTCCCATTTAGGATGAATAATTATAATTATCTCCTATAACCCACAACTCACTATTCTCACCTTCATCCTCTACACAATTA i galGal2.chrM C 0 C 0 s monDom4.chrUn 117155832 135 + 174229318 GATGAGGAGGACTAAACCAAACACACCTACGAAAAATACTAGCATACTCATCAATCGCTCACATAGGGTGAATAACAATTATTATCATTATTTACCCTACACTCACTATACTAAATTTACTAATTTATTTTACTA i monDom4.chrUn C 0 C 0 s echTel1.scaffold_181343 3775 135 + 18297 GCTGGGGCGGCCTAAACCAAACCCAACTACGAAAAATTATAGCGTACTCGTCAATTGCTCACATGGGCTGAATAGCTGCCGTAATAATTTATAATCCCACCCTAATATTACTTAACCTATTATTATACTTAATCT i echTel1.scaffold_181343 M 371 C 0 s loxAfr1.scaffold_36650 7408 135 + 16266 GATGAGGAGGCCTAAATCAAACACAACTACGAAAAATCTTAGCCTATTCATCAATCTCCCATATAGGCTGAATACTCATTATCTTGCCCTTCAATCCCACCCTTACCCTACTAAACTTAACCATTTACATTATAC i loxAfr1.scaffold_36650 C 0 C 0 s dasNov1.scaffold_23239 8223 135 - 16977 GATGAGGAGGACTAAACCAAACACAACTACGAAAAATTATAGCGTATTCATCCATTGCACACATAGGATGAATAACAGCAATCATTATATACAATACATCATTAATGATACTAAACCTAGTGATCTACCTAATAA i dasNov1.scaffold_23239 C 0 C 0 s canFam2.chrM 4409 135 + 16727 GCTGAGGCGGACTAAATCAAACTCAACTACGAAAAATCATAGCATACTCCTCCATTGCCCACATAGGCTGAATAGCCGCTATCATTACTTATAACCCTACAATAATAGTTCTAAACTTAACTTTATATATTCTAA i canFam2.chrM C 0 C 0 s bosTau2.chrM 4761 135 + 16338 GCTGAGGGGGACTAAACCAAACACAACTCCGAAAAATCATAGCCTACTCATCAATCGCTCATATAGGCTGAATAACAGCAGTACTACCATATAACCCCACCATAACATTGCTAAACTTAATTATCTATATCATTA i bosTau2.chrM C 0 C 0 s rheMac2.chr5 34440408 87 - 182086969 GTTGAGGGGAACTTAACCAAA--CAACTGCGTCAAATCCTAGCCCACTCCTC----------------------------------------------AACATTACCACCCTAAACCTGATTATTTACCTTATCT i rheMac2.chr5 C 0 C 0 s panTro2.chrM 4383 135 + 16554 GCTGAGGCGGACTAAACCAAACCCAACTACGCAAAATCCTAGCATACTCCTCAATCACCCACATAGGCTGAATAATAGCAGTCCTACCATATAACCCTAACATAACCATTCTTAATTTAACCATTTACATCATCC i panTro2.chrM C 0 C 0 s hg18.chrM 4966 135 + 16571 GTTGAGGTGGATTAAACCAAACCCAGCTACGCAAAATCTTAGCATACTCCTCAATTACCCACATAGGATGAATAATAGCAGTTCTACCGTACAACCCTAACATAACCATTCTTAATTTAACTATTTATATTATCC i hg18.chrM C 0 C 0 s oryCun1.scaffold_140182 4564 135 + 20791 GTTGAGGTGGACTAAACCAAACCCAACTACGAAAAATCCTAGCATACTCTTCAATCGCCCACATAGGATGAATAGCAGCTATCATCACATTTAACCCAAATACTATAGTCCTAAACCTAATTATCTATATTCTCA i oryCun1.scaffold_140182 C 0 C 0 s rn4.chrM 4387 135 + 16300 CCTGAGGAGGACTTAACCAGACCCAAACACGAAAAATCATAGCATACTCATCAATTGCCCACATAGGATGAATAACAGCAATCCTTCCATACAACCCTAACTTAACCCTCCTAAACTTAACAATTTACATCCTAC i rn4.chrM C 0 C 0 s tetNig1.chrUn_random 103514271 135 + 171761319 GCTGAGGAGGCCTAAACCAAACCCAGCTACGAAAAATCCTGGCATACTCATCCATCGCCCACCTAGGTTGAATAATCTTAATTCTGCAATTTTCACCAACCCTCACCCTCCTCACACTTATATTATACCTAATCA i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 5488 135 + 16596 GGTGAAGCGGACTTAACCAAACCCAACTCCGAAAAATTCTAGCTTATTCATCAATTGCCCACATAGGGTGAATAATTATTGTTATCCAGTACGCTCCGCAACTTACTCTGATTGCTTTAGGAACATATATCTTTA i danRer4.chrM C 0 C 0 e xenTro2.scaffold_18215 3326 0 + 3330 I a score=401805.000000 s mm8.chrM 4544 198 + 16299 TTACAGCCCCTATATTCATAGCACTTATACTAAAT-AA-----CT-CTATAACCATC---AACTCAATCTCACTTCTATGAAATAAAACTCCAGCAATACTAACTATAATCTCACTGATATTACTATCCCTAGGAGGCCTTCCACCACTAA----------CAGGATTCTTACCAAAATGAATTATCATCACAGAACTTATAAAAAACAACTGTCTAA s rn4.chrM 4522 198 + 16300 TTACTGTTCCAATATTCAATTACATCATAACAAAC-TC-----AG-CAACAACAATC---AACACACTCTCACTCGCATGAAATAAAACTCCCATAATCCTAACCATAGCATCCATCATCCTCCTATCACTAGGAGGACTCCCCCCTCTCA----------CAGGATTTTTACCAAAATGAGCAATTATCTCCGAGCTTCTAAAAAACAACTGCTCAA i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 4699 198 + 20791 TGACAATCCCTATATTCATAATATTCATACAGCAC-TC-----AA-GTACAACCACT---CTATCACTATCACAAATGTGAAACAAAAATCCACTAATAGTATCTACTATCCTAATCACCCTAATATCCCTAGGAGGCCTGCCCCCACTCA----------CAGGTTTTATCCCTAAATGAATTATCATCCAGGAATTAACAAAAAATGGCAATATCA i oryCun1.scaffold_140182 C 0 C 0 s hg18.chrM 5101 198 + 16571 TAACTACTACCGCATTCCTACTACTCAACTTAAAC-TC-----CA-GCACCACGACC---CTACTACTATCTCGCACCTGAAACAAGCTAACATGACTAACACCCTTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCTGCCCCCGCTAA----------CCGGCTTTTTGCCCAAATGGGCCATTATCGAAGAATTCACAAAAAACAATAGCCTCA i hg18.chrM C 0 C 0 s panTro2.chrM 4518 198 + 16554 TAACTACTACCGCATTTCTGCTACTCAACTTAAAC-TC-----CA-GCACCACAACC---CTACTACTATCTCGCACCTGAAACAAGCTAACATGATTAACTCCCCTAATTCCATCCACCCTCCTCTCCCTAGGAGGCCTACCCCCACTAA----------CTGGCTTCTTACCCAAATGAGTTATCATCGAAGAATTCACAAAAAATAATAGCCTCA i panTro2.chrM C 0 C 0 s rheMac2.chr5 34440495 198 - 182086969 TAACAACAACTGCATTTCCAGCACTCAACCTGAGT-AT-----AA-GCACCACAAAG---CTATCATTATTTCACACCTGAAACAAATGAACATGGTTGACACCTGTAATTCCACTAATTCTACTATCCTTAGGAGGTTTATCCCCATTAA----------CAGGGTTCCTGCCTTAATGAATCACCATTCAAGAATTTACAGAAAACAATAGCCTTA i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 4896 198 + 16338 TAACTTCCACCATATTTACCATATTTATAGCCAAT-TC-----CA-CCACCACTACC---CTGTCATTATCACACACATGAAATAAAACACCCATTATAACCGTCCTAATTCTTGCCACTCTCCTATCCATAGGAGGACTCCCTCCCCTAT----------CTGGGTTTATACCAAAATGAATAATCATCCAAGAGATAACAAAAAATAACAGCATCA i bosTau2.chrM C 0 C 0 s canFam2.chrM 4544 198 + 16727 TAACACTATCTACCTTCATACTATTTATATTAAAC-TC-----AT-CCACCACGACC---CTATCTTTATCCCACATATGAAACAAATTTCCCCTAATCACTTCCATAATCTTAATCTTAATACTATCCCTAGGAGGACTACCCCCATTAT----------CTGGCTTCATCCCCAAATGAATAATTATTCAAGAATTAACGAAAAATAACATAATTA i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 8358 198 - 16977 TAACAATCACAATATTTGCCCTCTTTA---TTAAC-TC-----AA-CAACAACAACTACACTATCTCTATCTCTTACATGAAACAGTACACCAATCCTAACAACAATGCTCCTAACAACCCTACTATCACTAGGAGGCCTTCCCCCACTAT----------CAGGCTTCGCACCAAAATGAATAATCATCCAAGAGATGACAAAAAACAACATACTCC i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 7543 198 + 16266 TAACACTGTCCATCTTTATAATTCTAA-CAAATAC-TT-----TCACAACTTCAATA---TCATCCCTAACTCTAATATGAAACAAAACACCTGCAATAACCATTATACTTATAACTACTTTACTATCTTTAGGAGGACTACCCCCACTAT----------CGGGATTCATACCCAAATGACTTATGATTCACGAACTAACCAAAAACAACAGTATTA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 3910 198 + 18297 TCACATTTTCAGCATTCACCATCTTAATTAAATGC-TC-----TT-CAACCTCAACT---TCTATACTAACAATAACCTGAAATTCCTACCCATTAATAGTCTCTATCCTATTAATTATTCTTTTATCAATGGGAGGATTACCTCCATTAA----------CAGGTTTTGTACCTAAATGACTAATTATCTATGAACTGATTAAAAATACTAACATTG i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117155967 198 + 174229318 CAACCATTACCATATTCCTTATATTCAACCACTCA-TC-----AA-TAACCAAAATC---AACTCACTATCAACCCTATGAAACAAGTCTACCCCCATTACCATCATTATTATATTAACACTTCTATCCTTAGGGGGACTACCCCCATTAA----------CAGGTTTTATACCCAAATGATTAATTCTCCAAGAACTAATTTCATATAAAAATATAC i monDom4.chrUn C 0 C 0 s galGal2.chrM 5871 198 + 16775 TGACCTCAACTGTATTCCTATCCCTAGCCCAAATC-AA-----AG-TCCTAAAACTG---TCAACACTACTCATCTCATGAACTAAAACCCCAATACTAAATGCAACTGTAATACTAACCCTCCTCTCCCTAGCTGGCCTCCCACCATTAA----------CCGGCTTCATGCCAAAATGACTCATTATCCAAGAACTAACCAAACAAGAAATAACCC i galGal2.chrM C 0 C 0 s xenTro2.scaffold_96 2673143 176 - 2855184 TCACAGGCGAGACATCCCTGGCACATATACTAAATATT-----TC-TAACAATAATT------------------ACACAATATAA------------------TATGCACCTTCCAAACTTAGTGTCCCTGGGGTGCTGCCCTCTGCTAAAGCTTTATTTAAACATTCTCATTAAGAAAAATACTTTGTATAAAACTAACTGAGGGCATATTTTTAA i xenTro2.scaffold_96 n 0 I 6355 s tetNig1.chrUn_random 103514406 198 + 171761319 TAACCTCCTCCGCCTTCCTCACATT-----CATCC-TCAACAAAA-CCACAACAATC---AATGCACTAGCCACATCCTGAGCCAAAACCCCCATTCTTACATCCCTCTTACCCCTTGTTCTCCTATCCCTCGGAGGCCTCCCTCCGCTAA----------CTGGCTTCATACCAAAATGACTAATCCTACAAGAACTAACTAAACACGATCTCGCCC i tetNig1.chrUn_random C 0 C 0 s danRer4.chrM 5623 198 + 16596 TAACATCCGCGGCATTCCTTACTTTAAAAGTATTA-TC-----AG-CCACAAAAATT---AACACCCTAACAACGACCTGACCGAAAAGCCCAATCCTGGCAGCAATTGCTACTTTAGTTATATTATCACTGGGAGGACTTCCCCCACTGA----------CGGGATTCATACCAAAATGATTAATCCTACAAGAGTTAACGAAACAAGACCTACCAG i danRer4.chrM C 0 C 0 a score=271987.000000 s mm8.chrM 4742 205 + 16299 TTATAGCAACACTCATAGCAATAATAGCTCTACTAAACCTATTCTTTTATACTCGCCTAATTTATTCCACTTCACTAACAATATTTCCAA---CCAACAATAACTCAAAAATAATA-ACTCACCAAACAAAAACTAAACCCAACCTA---ATATTTTCCACC--CTAGCTATCATAAGCACAATA---------ACCCTACCCCTAGC-------CCCCC-------AACTAATTAC s rn4.chrM 4720 205 + 16300 CCCTATCAACACTAATAGCTATCATAGCCCTATTAAGCCTATTCTTCTATACTCGACTAATTTACTCTATATCCCTCACCACATTCCCAA---CCAACAACAACTCCAAAATAATC-TCCCACCACCAAAACCCAAAACATAATTTT---ATCCTCCCAACC--CTCACAGTATTAAGTACCCTA---------ACCCTACCGCTTTC-------CTCCC-------AACTAATCAC i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 4897 219 + 20791 TTTTACCCACCGCTATAGCCATGCTTGCCCTCCTAAATCTATATTTTTATATACGCCTTATCTATTCTTCCTCACTAACTATATTCCCTA---CCACCAACAATCTAAAAATAAAA-TGACAATTTGAATCAACAAAACGCATACCC---CTCATCACTCCA--CTAATTATTTTATCAACCATA---------CTCCTCCCCCTCACACCAGCACTCTCAGTATTAAATTAGCTTT i oryCun1.scaffold_140182 C 0 C 0 s hg18.chrM 5299 211 + 16571 TCATCCCCACCATCATAGCCACCATCACCCTCCTTAACCTCTACTTCTACCTACGCCTAATCTACTCCACCTCAATCACACTACTCCCCA---TATCTAACAACGTAAAAATAAAA-TGACAGTTTGAACATACAAAACCCACCCCA---TTCCTCCCCACA--CTCATCGCCCTTACCACGCTA---------CTCCTACCTATCTC-------CCCTT-TTATACTAATAATCTT i hg18.chrM C 0 C 0 s panTro2.chrM 4716 211 + 16554 TCATCCCCACCATCATAGCCATCATCACTCTCCTTAACCTCTATTTCTACCTACGCCTAATCTACTCCACCTCAATTACACTACTTCCCA---TATCTAATAACGTAAAAATAAAA-TGACAATTCGAACATACAAAACCCACCCCC---TTCCTCCCTACA--CTCATCACCCTTACCACACTG---------CTTCTACCCATCTC-------CCCCT-TCATACTAATAATCTT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34440693 211 - 182086969 TTACCCCAATCATTACAGCCATCATAACCCTACTCAACCTGTACTTTTACATACGCCTAGTCTATTCCTTCTCAGTAATACTATTCCCCT---CATCTAACAATATGAAAATAAAA-TGACAATTTGGAAACACAAAACCCATACTA---CTTTTCCCCCAG--CTTGTCATCTCTTCTACCCTC---------CTCTTATCCATCTC-------TCCAT-TAATATTAAATATAAC i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 5094 211 + 16338 TTCTACCCACTTTCATAGCAATCACAGCTCTACTAAACTTATATTTTTATATACGACTCACGTATTCTACCACACTAACAATATTTCCCT---CCACAAACAACATAAAAATAAAA-TGACAATTTCCCCTTATGAAAAAAATAACT---TTTCTACCAACA--ATAGTCGTATTATCTACCATA---------ATACTACCACTCAC-------GCCAA-TACTATCAGTGTTAGA i bosTau2.chrM C 0 C 0 s canFam2.chrM 4742 211 + 16727 TTATTCCAACACTAATGGCTATCACCGCTCTACTTAACTTATATTTCTACCTGCGACTCACATATAGCACCGCACTTACCATATTTCCAT---CCACAAACAACATAAAAATAAAA-TGACAGTTCGAATACACAAAAAAGGCAACC---CTATTACCCCCC--TTAATTATTACCTCAACTATA---------CTACTCCCACTAAC-------ACCTA-TATTATCAGTCTTGGA i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 8556 211 - 16977 TACTACCAACAACAATAGCCATTATGGCACTACTGAACCTCTATTTCTACATACGACTTATCTACTCAACATCACTCACAATATTCCCAA---CGACCAATAACAACAAAATAAAA-TGAAAATACAAAACACAAAATTTTATCCCC---CTATCACCAACA--TTAATTACACTATCCACAATA---------CTCATCCCCCTCAC-------TCCAA-TAATATTAATCTTAAA i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 7741 211 + 16266 TCATACCACTAACCATGGCCATTATAGCATTACTAAACATGTACTTCTACATACGACTAATCTACTACTCATCACTAACAATCCTACCAT---CTACAAATAATATGAAAATAACC-TGACGATTTACTAATACTAAACACACAATA---ACATTACCCACC--CTAATCACCCTATCTAACATA---------CTACTTCCCCTAAC-------CCCAA-TAATTTCAATGCTAGA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 4108 211 + 18297 CCATAACACTAACAATATCTATCCTAGCCCTCTTGAATCTCTTCTTTTATTTACGCTTAATTTATGCATCCTCACTCACCCTGTTCCCGA---CAAGTAGTAATCTAAAATTCAAA-TGGAAA---ATCAATACCCCAAACAAAATATATTTTTTACCAACA--ATAGTCTCAATTTCACTACTT---------TTCCTTCCTGTCTC-------CCCAA-TAATTCTTATATTAAA i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117156165 211 + 174229318 CCCTAGCAACAGCACTAGCATTATCCGCACTACTAAACCTATTCTTTTATATACGAATTATTTATTTATCAACACTTACCATAGCACCGT---CCATTAATAACTCAAAAATACAA-TGAACTCTTCTACCCCCAAAAACACTCACA---CTCATTCCAACA--CTGACAATAATCTCATTACTA---------TTCTTACCTCTTAC-------CCCTA-TATTTATTGTACTCAC i monDom4.chrUn C 0 C 0 s galGal2.chrM 6069 208 + 16775 CAATAGCCACAATCATCACAATACTATCACTCCTAAGCCTATTCTTCTACCTCCGACTTGCATACCACTCAACAATCACACTCCCCCCCAACTCATCAAACCACATAAAACTCTGA-CGA--------ACTAACAAAACCCTAAACA---CCCCCACCGCCATTCTAACTGCGCTATCAACCACC---------CTATTGCCCCTTTC-------CCCCC-TAATTATTACCATACT i galGal2.chrM C 0 C 0 s tetNig1.chrUn_random 103514604 205 + 171761319 CAACAGCCACCCTGGCAGCACTCAGCGCCCTACTAAGCCTCTACTTCTATCTTCGCCTCTCCTACGCCATAACCCTAACAATCGCCCCCA---ACAAC-TTAACAGGGACCCTCCCATGACGTACCCAAACAACCCAACCAAACATG---ATAACCGCCACC--ATAACAGCCTCTTCAATCCTT---------CTCCTCCCCATGAC-------CCCTG-GAATTCTTAC------ i tetNig1.chrUn_random C 0 N 0 s danRer4.chrM 5821 205 + 16596 CCACAGCTACTATCATGGCGCTTACCGCCCTCCTAAGCTTATTTTTTTACCTACGTCTATGTCATGCAATAACATTAACGACTTCACCAA---ACACTATCAATTCAGCCCCTCAC-TGACGGGTACAAACGACCCA---AAAC-------TCACTAC--CC--CTAACAATCTCTGTTACTGTTACTATAGGACTTTTACCACTGAC-------CCCAG-CCATCTTAAT------ i danRer4.chrM C 0 I 9 e xenTro2.scaffold_96 2673319 6355 - 2855184 I a score=105153.000000 s mm8.chrM 4947 33 + 16299 CTAGAAG---------TTTAGGATATA-CT------AGTCCGCGAGC--CT s rn4.chrM 4925 32 + 16300 ATAGAAG---------TTTAGGATATA-C-------AGTTCAAGAGC--CT i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 5116 32 + 20791 AAAGGAG---------TTTAGGTTACA-C-------AGACCAAGAGC--CT i oryCun1.scaffold_140182 C 0 C 0 s hg18.chrM 5510 34 + 16571 ATAGAAA---------TTTAGGTTAAA-TA-----CAGACCAAGAGC--CT i hg18.chrM C 0 C 0 s panTro2.chrM 4927 34 + 16554 ATAGAAA---------TTTAGGTTAAG-CA-----CAGACCAAGAGC--CT i panTro2.chrM C 0 C 0 s rheMac2.chr5 34440904 33 - 182086969 TTAGAAA---------TTTAGGTTAAA-TA------AGACCGAGGAC--CT i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 5305 32 + 16338 ATAGGAA---------TTTAGGTTAAA-C-------AGACCAAGAGC--CT i bosTau2.chrM C 0 C 0 s canFam2.chrM 4953 33 + 16727 CTAGGAG---------TTTAGGTTAGACC-------AGACCAAGAGC--CT i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 8767 33 - 16977 CTAGGGA---------TTTAGGTTAGA-CA------AGACCAAGAGC--CT i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 7952 32 + 16266 ATAGGAA---------TTTAGGTTAAA-C-------AGACCAAGAGC--CT i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 4319 33 + 18297 TTAGGGG---------GTTAGGTTAAATT-------AGACCAAGAGC--CT i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117156376 43 + 174229318 ATAAGAATTACAAGCTTTTATCTTGCA-T-------ACTTCGAACGCAAAT i monDom4.chrUn C 0 C 0 s galGal2.chrM 6277 39 + 16775 ATAGAAA---------CTTAGGATTAA-CTGTCACCAAACCAAAGGC--CT i galGal2.chrM C 0 C 0 s danRer4.chrM 6035 33 + 16596 ATAGAGA---------CTTAGGATAAC-CT------AGACCAAGAGC--CT i danRer4.chrM I 9 C 0 e xenTro2.scaffold_96 2673319 6355 - 2855184 I a score=2531764.000000 s mm8.chrM 4980 575 + 16299 TCAAAGCCCTAAGA--AAAC---ACA-CAAGTTTAACTTCTG--------A------------TAAGGACTGTAAGACTTCA-TC--CTACATCTATTGAA--TGCAAATCAAT---------TGCTTTA-------AT-TAAGCTAAGACCTC--------AA-CTAGATTGGCAGGAATTAAA--CCTACG-AAA---ATTTAGTTAACAGCTAAATAC-CCTA----T-TACTGGCTTCAATCTA-CTTCTACC--GCCG--A--A------AAAAAAA--AATGGCGGTA-----GAAGTCTTAGTA-GAGAT--TT-CTCTACACCTTCGAAT-----------------TTGCAATTCGACATGA-ATAT---CACCTT----AAGACCTCT-------------------GGTAAAAAGA--GGATTTAAACCTCTGTGTTTAGATTTACAGTCTAATGCT---T----ACTCAGCCATTTTA----------------------------------CC-----------TATG---TTCATTAATCGTTGATTATTCTCAACCAATCACAAAGATATCGGAACCCTCTATCTACTATTCGGAGCCTGAGCGGGAATAGTGGGTACTGCACTAAGTATTTTAATTCGAGCAGAATTAGGTCAACCAGGTGCACTTTTAGGAGATGACCAAATTTACAATGTTATCGTAACTGCCCATGCTTTTGTTATAATTTTCTTCATAGTAATACCAATAATAATTGGA s rn4.chrM 4957 579 + 16300 TCAAAGCCCTTAGA--AAAC---AAA-CAAGTTTAACTTCTG--------A------------TAAGGACTGTAAGACTATA-TC--TTACATCTGTTAAA--TGCAAATCAAC---------TGCTTTA-------AT-TAAGCTAAATCCTC--------AA-CTAGATTGGAAGGAATCAAATTCCTACG-AAA---ATTTAGTTAACAGCTAAATAC-CCTA---CT-TACTGGCTTCAATCTA-CTTCTCCC--GCCT--A--T------CAGAAAA--GA-GGCGGGA-----GAAGCCTTAGTA-GAGGAGATT-CTCTACACCTTCGAAC-----------------TTGCAATTCGACATGA-TAAT---CACCTT----AAGGCTTTT------------------TGGTAAAAAGG--GGGCTCAA-CCCCTGTCTTTAGATTTACAGTCTAATGCT---T----ACTCAGCCATTTTA----------------------------------CC-----------TATG---TTCGTAAACCGTTGACTCTTTTCAACTAACCACAAAGATATCGGAACCCTCTACCTATTATTTGGAGCCTGAGCAGGAATAGTAGGGACAGCTTTGAGTATTCTAATTCGAGCTGAACTAGGACAGCCAGGCGCACTCCTAGGAGATGACCAAATCTATAATGTCATCGTCACAGCCCATGCATTCGTAATAATTTTCTTTATAGTAATACCTATAATAATTGGA i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 5148 581 + 20791 TCAAAGCTCTAAGC--AAGT---AGATCATACTTAACCCCTG--------CT-----------TAAGGACTGCAAA--TTAA-CT--TTACATCTCCTGAA--TGCAAACCAGG---------TGCTTTA-------AT-TAAGCTAAATCCTC-----------CTAGATTGGTGGGCTCCAAC--CCCACG-AAG---CTTTAGTTAACAGCTAAATAC-CCTAG--TC-AACTGGCTTCAACCTA-CTTCTCCC--GCCGTAA--G------AAAAAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GAGTT--GA-AGCTGCTTCTTTGAAT-----------------TTGCAATTCAATATGT-GAGTACCCACCTC----AGGGCTT---------------------GGTAAAAAGA--GGGCTTAA-CCTCTGTCTTTAGATTTACAGTCTAATACC---T----ACTCGGCCATTTTA----------------------------------CCCTT-----ACTTATG---TTCGTCAATCGTTGACTTTTCTCTACCAACCACAAAGACATCGGCACTCTTTATCTCCTATTTGGAGCTTGAGCTGGGATGGTGGGAACAGCCCTTAGCCTGCTAATTCGAGCAGAATTAGGTCAGCCAGGGACTCTACTCGGGGATGATCAAATCTATAATGTAATCGTCACCGCACATGCCTTTGTAATAATCTTCTTTATAGTCATACCTAT-ATAATTGGA i oryCun1.scaffold_140182 C 0 C 0 s hg18.chrM 5544 588 + 16571 TCAAAGCCCTCAGT--AAGT---TGC-AATACTTAATTTCTGCAACAG--C------------TAAGGACTGCAAAACCCCA-CT--CTGCATCAACTGAA--CGCAAATCAGC---------CACTTTA-------AT-TAAGCTAAGCCCTT---------A-CTAGACCAATGGGACTTAAA--CCCACA-AAC---ACTTAGTTAACAGCTAAGCAC-CCTAA--TC-AACTGGCTTCAATCTA-CTTCTCCC--GCCG--C--C------GGGAAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GGTTT--GA-AGCTGCTTCTTCGAAT-----------------TTGCAATTCAATATGA-AAAT---CACCTC----GGAGCT----------------------GGTAAAAAG---AGGCCTAA-CCCCTGTCTTTAGATTTACAGTCCAATGCT---T---CACTCAGCCATTTTA----------------------------------CCTCACCCCCACTGATG---TTCGCCGACCGTTGACTATTCTCTACAAACCACAAAGACATTGGAACACTATACCTATTATTCGGCGCATGAGCTGGAGTCCTAGGCACAGCTCTAAGCCTCCTTATTCGAGCCGAGCTGGGCCAGCCAGGCAACCTTCTAGGTAACGACCACATCTACAACGTTATCGTCACAGCCCATGCATTTGTAATAATCTTCTTCATAGTAATACCCATCATAATCGGA i hg18.chrM C 0 C 0 s panTro2.chrM 4961 587 + 16554 TCAAAGCCCTCAGC--AAGT---TAC-AATACTTAATTTCTGCAACAA--C------------TAAGGACTGCAAAACCCCA-CT--CTGCATCAACTGAA--CGCAAATCAGC---------CACTTTA-------AT-TAAGCTAAGCCCTT---------A-CTAGATTAATGGGACTTAAA--CCCACA-AAC---ATTTAGTTAACAGCTAAACAC-CCTAA--TC-AACTGGCTTCAATCTA-CTTCTCCC--GCCG--C--A------AGAAAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GGTTT--GA-AGCTGCTTCTTCGAAT-----------------TTGCAATTCAATATGA-AAAT---CACCTC----AGAGCT----------------------GGTAAAAAG---AGGCTTAA-CCCCTGTCTTTAGATTTACAGTCCAATGCT---T---CACTCAGCCATTTTA----------------------------------CCCCA-CCCTACTGATG---TTCACCGACCGCTGACTATTCTCTACAAACCACAAAGATATTGGAACACTATACCTACTATTCGGTGCATGAGCTGGAGTCCTGGGCACAGCCCTAAGTCTCCTTATTCGGGCTGAACTAGGCCAACCAGGCAACCTCCTAGGTAATGACCACATCTACAATGTCATCGTCACAGCCCATGCATTCGTAATAATCTTCTTCATAGTAATGCCTATTATAATCGGA i panTro2.chrM C 0 C 0 s rheMac2.chr5 34440937 590 - 182086969 TCAAAGTCCTTAGT--AAGTA--AGT-TACTCTTAATTTCTGTAACAGATC------------TAAAGATGGCAAGATGCTA-TT--CTGCATCAATTGAA--CGCAAATCAAC---------CACTTTG-------AT-TAAGCTAAGCCCTT---------A-CTAGATTTATGGAATTCAAA--CCCACG-AATAAAATTTAGTTAACGGCTAAGCAC-CCTAA--TC-AACTGGCTTCAATCTA-CCCCCGCC--GCCG--T--T------GGGGGAG--AA-AGGCAGA-----GAAGACCCAGCA-GGATT--GA-AGCTTCTCCTTTGACT-----------------TTGCAATTCAACATGAGAAAT---CACCTC----AGGGCT----------------------GCTAAAAAGC--AGCCTTGA-CCTCTGTCTTTAGATTTACAGTCTAATGCT---T----ACTCAGCCATTTTA----------------------------------CCTTTTCCCCACTTATG---TTCATCAATCATTGATTGTTTTCAGCTAACCACGAAGATATCGGAACACTATACCTGCTAT--GGCGC---AGTGGAGATAGTAGGCACCGCCTTAAGCCTTCTAATTCCAGCAGAACTAGGCCAACCAGGAACTCTGCTAGGAGATGATCAGATCTACAATGTTATTGTTACCGCTCACACATTCGTTATAATTTTATTTATGATAACACTAATCATGATTGGG i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 5337 577 + 16338 TCAAAGCCCTAAGC--AAGTA--CAA-TTTACTTAATTCCTG--------A------------TAAGGATTGCAAGACTACA-CC--TTACATCAATTGAA--TGCAAATCAAC---------CACTTTA-------AT-TAAGCTAAATCCTC---------A-CTAGACTGGTGGGCTCCACC--CCCACG-AAA---CTTTAGTTAACAGCTAAACAC-CCTAG--CT-AACTGGCTTCAATCTA-CTTCTCCC--GCCG--CA-A------GAAAAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GAATT--GA-AGCTGCTTCTCTGAAT-----------------TTGCAATTCAACGTGT-AAAT--TCACCAC----AGGGCTT---------------------GGTAAAAAGA--GGAGTCAAACCTCTATCTTTAGATTTACAGTCTAATGCT---T---TGCTCAGCCATTTTA----------------------------------CC-----------CATG---TTCATTAACCGCTGACTATTCTCAACCAACCATAAAGATATTGGTACCCTTTATCTACTATTTGGTGCTTGGGCCGGTATAGTAGGAACAGCTCTAAGCCTTCTAATTCGCGCTGAATTAGGCCAACCCGGAACTCTGCTCGGAGACGACCAAATCTACAACGTAGTTGTAACCGCACACGCATTTGTAATAATCTTCTTCATAGTAATACCAATCATAATTGGA i bosTau2.chrM C 0 C 0 s canFam2.chrM 4986 590 + 16727 TCAAAGCTCTAAGC--AAGTG--CTA-CACACTTAACCCCTG--------ATCAAATCACCTCTAAGGGCTGCAAGAATCTA-TC--TTACATCAATTGAA--TGCAAATCAAA---------CACTTTA-------AT-TAAGCTAAGCCCTC---------C-CTAGATTGGTGAGCTTCTAC--CTCACG-AAA---TTTTAGTTAACAGCTAAATAC-CCTAG---T-AACTGGCTTCAATCTACCTTCTCCC--GCCG--CGTA------GAAAAAA--AA-GGCGGGA-----GAAGCCCCGGCG-GCGTC--TA-GGCTGCTTCTTTGAAT-----------------TTGCAATTCAATATGA-AAAT--TCACCAC----GGAGCTT---------------------GGCAAAAAGA--GGACTTAAACCCCTATCTTTAGATTTACAGTCTAATGCT---T---TTATCAGCCATTTTA----------------------------------CC-----------TATG---TTCATTAACCGATGACTGTTCTCCACTAATCACAAGGATATTGGTACTTTATACTTACTATTTGGAGCATGAGCCGGTATAGTAGGCACTGCTTTGAGCCTCCTCATCCGAGCCGAACTAGGTCAGCCCGGTACTTTACTAGGTGACGATCAAATTTATAATGTCATCGTAACCGCCCATGCTTTCGTAATAATCTTCTTCATAGTCATGCCCATCATAATTGGG i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 8800 579 - 16977 TCAAAGCCCTTAGC--AAGTA--AAA-ATTACTTAATCCCTG--------ACG----------TAAGGACTGCAAGATTTAG-CC--CCACATCTCCTGAA--CGCAAATCAGG---------CACTTTA-------AT-TAAGCTAAGTCCTC---------T-CTAGACTGGTGGGCTCCAAC--CCCACG-AAA---TTTTAGTTAACAGCTAAATAC-CATAA--TC-ACCTGGCTTCAATCTA----TTCCC--ACCT--C--A------AAAACAA--GC-CAAAGGAATCATAAAGCCCTGGCA-GAGTT--TACAGCTGCTTCTCTGAAC-----------------TTGCAATTCAA-ATAG-TATT--------C----AAGGCTTAT--------------TTAATGGTAAAAAAA--GGACTTCA-CCTTTGTCTTTAGATTTACAGTCTAATGCT---T----ACTCAGCCATTTTA----------------------------------CC-----------CATG---TTCATTACCCGTTGACTATTTTCAACAAACCACAAAGATATTGGAACTCTATATTTACTATTTGGCGCCTGGGCTGGAATAGTAGGCACCGCCCTAAGTCTACTAATTCGTGCCGAGCTTGGCCAACCAGGCACATTACTAGGAGACGATCAAATTTATAATGTAATTGTTACCGCCCATGCATTCATCATAATTTTCTTTATAGTAATACCAATCATGATCGGG i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 7984 579 + 16266 TCAAAGCCCTAAGT--AAGTA--CAT-TATACTTAACTCCTG----AA--A------------TAAGGACTGCAAGATACTA-TC--TTACATCAACTGAA--TGCAAATCAGA---------CGCTTTA-------AC-TAAACTAAGCCCT----------T-CTAGATTGGAGGGCTTCAAT--CCCACGAAAT---TCTTAGTTAACAACTAAACAC-CCTAG--CT-AACTGGCTTCAATCTA-CTTCTCCC--GCCT--T--GAGGGAGGGGGAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GAATT--GA-AGCTGCTTCTTCGAAT-----------------TTGCAGTTCGACATGT-TTAC--AC-TTTC----AAGGCCT---------------------GGCAAAAA----GAGATTAC-TCTCTGTGGTTAGATTTACAGTCTAATGCC---T----ACTCAGCCATTTTA----------------------------------CC-----------TATG---TTTGCTAACCGCTGACTATATTCAACGAACCACAAAGATATCGGAACACTGTATCTATTATTTGGTGCTTGAGCTGGTATAGTAGGGACTGCTTTTAGTATCCTAATTCGGGCAGAACTAGGCCAACCAGGCTCTCTTCTTGGAGATGATCAAATCTACAATGTTATTGTCACAGCACACGCCTTCGTAATAATCTTCTTTATAGTCATGCCAATTATAATTGGA i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 4352 619 + 18297 TCAAAGCTCTAAGC--AAGTA--AAC-AATACTTACCCTCTG-----A--A------------TAAGGACTGCAAGACTGTACTC--TTACATCAATTGGA--CGCAAACCAAA---------CACTTTA-------ACTTAAGCTAAATCC-----------T-CTAGATTGATGGGGTTTAAA--CCCATG-AAC---TATTAGTTAACAGCTAATTAC-CCTAC--CTCAACTGGCTTCAATCTA-C-TCTCCC--GCCT--T--T-GAATAGAAAAAA--AA-GGCGGGA-----GAAGCCCCGGCA-GATTT--GA-AGCTGCTTCTTCGAAT-----------------TTGCAATTCAATATGA-ATAC--TCACTTC----AGAGCCT---------------------AGTAAAAAGGAGGAGCCTCC-CTCCTGTCTTTAGATTTACAGTCTAATGCCTATT----ACTCAGCCATTTTACTTTCATATATTAGAACTTCCTTCTATACCCTTTCT-----------TATG---TTCATAAACCGTTGACTATACTCTACTAACCATAAAGACATTGGAACCCTCTACTTATTATTCGGAGCTTGAGCTGGCACAGTAGGAACTGCTCTTAGCCTCCTAATCCGTGCTGAACTCGGACAGCCAGGAGCCCTACTAGGTGATGATCAAATCTATAACGTAATCGTAACTGCACACGCCTTCGTTATAATTTTCTTTATAGTTATACCCATTATGATTGGG i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117156419 635 + 174229318 CGAACGCTTTAATT--AAGC---TAA-ACCCTTAAACTACTA--------T------------TTAAACCTCGGTAGCTTTA-CTAACTAC-TTTTTTGAATTTGCAATTCAACGTATTAATATACTTCAAGATTAGAT-TATCCTAAAGGCTTAGGATAAAAT-CTAGACCGAAGG----------CCTTCA-AAG---CCTTAAGCAGGTGATAAATCCACCTAGCCTT-TACTAATTAC-ATCAA-GCTCTCCC--GCCT--TG-G------AGAAAAA--AA-GGCGGGA-----GAGCCCCGGGCA-GCCCT--ATTAATTGTTTCATAAACTAAACTGGTGGGTATTTATCCCACTCTATCTTAA-TTAA---CAGTTA----AGCGCCTGTCTTTCGGCCTCAGTTTAGTGGTAAAAAGA--GATGTTAT-TCTCTGTCTTTGAATTTACAGTTCAATGCC---T---AGCTCAGCCATTTTA----------------------------------CC-----------TATG---TTCATTAATCGTTGACTCTTCTCAACTAACCATAAAGATATTGGTACTTTATATTTATTATTTGGTGCTTGAGCAGGAATAGTTGGAACCGCACTAAGCCTCCTAATTCGAGCAGAATTAGGCCAACCAGGGACTCTAATTGGTGATGATCAAATTTATAACGTAATCGTAACTGCCCACGCTTTCGTTATAATTTTCTTCATAGTAATACCTATCATGATTGGA i monDom4.chrUn C 0 C 0 s galGal2.chrM 6316 559 + 16775 TCAAAGCCTTAAAT--AAGAGTTAAA-CTCTCTTAGTTTCTG-CCCAA--C------------TAAGACCAACAGGACATTA-AC--CTGTATCTCCTGAA--TGCAAATCAGA---------CGCTTTA-------AT-TAAGCTAAGGCCTC-------TAC-CTAGACAGATGGGCTTCGAT--CCCATA-CAA---TTTTAGTTAACAGCTAAATGC-CAACA--CC-AATTGGCTTCTGCCTA-----------------C--A------------------------------GA--CCCCGGCA-CACTT--TA-GTGTACATCAACGAGT-----------------TTGCAACTCATTATGA-ACTT---CACTAC----AGAGTC----------------------GATAAGAAGA--GGAATTGAACCTCTGTAAAAAGGACTACAGCCTAACGCT---TCAACACTCAGCCATCTTA----------------------------------CC-----------TGTGACCTTCATCAACCGATGATTATTCTCAACCAACCACAAAGACATTGGCACTCTTTACCTAATTTTCGGCACATGGGCGGGCATAGCCGGCACAGCACTTAGCCTTCTAATTCGCGCAGAACTAGGACAGCCCGGAACTCTCTTAGGAGACGATCAAATTTACAATGTAATCGTCACAGCCCATGCTTTCGTCATAATCTTCTTTATAGTTATACCCATCATGATCGGT i galGal2.chrM C 0 C 0 s tetNig1.chrUn_random 161619026 580 + 171761319 TCAAAGCCCTCAGCGGGAGTG--AAA-ATCTCCCAGTCCCTG--------A------------TAAGACTTGCGGGACACTA-CC--CCACATCTCCTGCA--TGCAAAACAGA---------CACTTTA-------AT-TAAGCTAAAGCCTT---------ACCTAGACAGGCAGGCCTCGAT--CCTACA-AAC---TCTTAGTTAACAGCTAAGCGC-TCAAA--CC-AGCGAGCATCTATCTA-CCTTTCCCCGCCTG--T--C------AAAACAA--AA-GGCGGGG-----AAAGCCCCGGCA-GACGT--CA-ATCTGCTTCTTTAGAT-----------------TTGCAATCTAACATGT---AA---CACCCC----AGGGCTT---------------------GGTAGAAAGA--GGAATTTAACCTCCGTACGTGGGGCTACAATCCACCGCT---T-AACACTCAGCCATCCTA----------------------------------CC-----------TGTG---GCAATCACACGCTGATTTTTCTCAACCAACCATAAAGACATCGGCACCCTCTACCTAGTATTTGGTGCCTGAGCCGGAATAGTGGGAACGGCCCTTAGCCTCCTCATCCGAGCTGAACTTAGCCAACCAGGCGCACTCTTGGGTGATGACCAGATTTATAATGTAATCGTCACAGCCCATGCATTTGTAATAATTTTCTTTATAGTAATGCCAATCATGATTGAA i tetNig1.chrUn_random N 0 N 0 s danRer4.chrM 6068 584 + 16596 TCAAAGCTCTCAGTAGAAGTG--AAA-ATCTTCTAGTCTCTG--------A------------TAGGACTTAC-AGACGTTA-CT--CCGCATCTTCTAAA--TGCAAATCAGA---------TATTTTA-------AT-TAAACTAAAGCCCT---------A-CTAGATGGGAAGGCCTCGAT--CCTACA-AAA---TCTTAGTTAACAGCTAAGCGC-CCAAG--CC-AGCGAGCATCCATCTA-CTTTTCCC--GCCG--T--T------GAACCCGGTAA-GGCGGGA-----AAAGCCCCGGCAGGAGGT--TT-ACCTGCGTCTTCAGAT-----------------TTGCAATCTGATATGT---AT---CATCACCACGAGGCCAT---------------------GGTAGAAAAA--GGACTCAAACCTCTGTCCGCGGAGCTACAATCCGCCGCC---TAAACACTCGGCCACCCTA----------------------------------CC-----------TGTG---ACAATCACACGTTGATTTTTCTCAACTAATCATAAAGACATTGGCACCCTGTATCTAGTATTTGGTGCTTGAGCCGGAATAGTAGGGACCGCATTAAGCCTCTTAATCCGAGCTGAACTTAGCCAACCAGGAGCACTTCTTGGTGATGATCAAATCTATAATGTTATTGTTACTGCCCATGCTTTTGTAATAATTTTCTTTATAGTAATACCCATTCTTATTGGG i danRer4.chrM C 0 C 0 e xenTro2.scaffold_96 2673319 6355 - 2855184 I a score=799335.000000 s mm8.chrM 5555 131 + 16299 GGCTTTGGAAACTGACTTGTCCCACTAATAATCGGAGCCCCAGATATAGCATTCCCACGAATAAATAATATAAGTTTTTGACTCCTACCACCATCATTTCTCCTTCTCCTAGCATCATCAATAGTAGAAGC s rn4.chrM 5536 131 + 16300 GGCTTCGGAAACTGACTTGTACCACTAATAATTGGAGCCCCTGATATAGCATTCCCACGAATAAATAACATAAGCTTTTGACTGCTTCCTCCATCATTTCTACTCCTTTTAGCATCCTCCATAGTAGAAGC i rn4.chrM C 0 C 0 s oryCun1.scaffold_140182 5729 131 + 20791 GGCTTCGGGAACTGGCTTGTCCCCCTGATAATTGGGGCTCCTGACATAGCCTTCCCCCGAATAAATAATATGAGCTTCTGACTTCTCCCCCCTTCATTCCTTCTTCTACTAGCCTCCTCAATAGTAGAAGC i oryCun1.scaffold_140182 C 0 M 264 s hg18.chrM 6132 131 + 16571 GGCTTTGGCAACTGACTAGTTCCCCTAATAATCGGTGCCCCCGATATGGCGTTTCCCCGCATAAACAACATAAGCTTCTGACTCTTACCTCCCTCTCTCCTACTCCTGCTCGCATCTGCTATAGTGGAGGC i hg18.chrM C 0 C 0 s panTro2.chrM 5548 131 + 16554 GGCTTTGGCAACTGGCTAGTTCCCTTGATAATTGGTGCCCCCGACATGGCATTCCCCCGCATAAACAACATAAGCTTCTGGCTCCTGCCCCCTTCTCTCCTACTTCTACTTGCATCTGCCATAGTAGAAGC i panTro2.chrM C 0 C 0 s rheMac2.chr5 34441527 131 - 182086969 GTTTTCGGCAACTGGCTAGTCCCTCTGACCATTGGTTGACTGGACATGGCATCCCCCTGAATAAATAATATGATTTTCTGACTTCTCCCCCTATCTTTTCTACTCCTACTTGCGTCTTCAATAGTAGAAGC i rheMac2.chr5 C 0 C 0 s bosTau2.chrM 5914 131 + 16338 GGATTCGGTAACTGACTTGTTCCCCTAATAATTGGTGCTCCCGATATAGCATTTCCCCGAATAAATAATATAAGCTTCTGACTCCTCCCTCCCTCATTCCTACTACTCCTCGCATCCTCTATAGTTGAAGC i bosTau2.chrM C 0 C 0 s canFam2.chrM 5576 131 + 16727 GGCTTTGGAAACTGACTAGTGCCGTTAATAATTGGTGCTCCGGACATGGCATTCCCCCGAATAAATAACATGAGCTTCTGACTCCTTCCTCCATCCTTTCTTCTACTATTAGCATCTTCTATGGTAGAAGC i canFam2.chrM C 0 C 0 s dasNov1.scaffold_23239 9379 131 - 16977 GGCTTCGGAAACTGATTAGTCCCATTAATAATTGGCGCGCCCGATATAGCCTTCCCACGAATAAACAACATAAGTTTCTGACTATTACCCCCTTCATTCCTACTCCTACTAGCCTCCTCTATAGTAGAAGC i dasNov1.scaffold_23239 C 0 C 0 s loxAfr1.scaffold_36650 8563 131 + 16266 GGCTTTGGAAACTGGTTAATTCCACTTATAATTGGAGCACCTGATATAGCTTTTCCTCGAATAAACAATATGAGTTTTTGACTACTGCCTCCATCTTTCCTACTACTTTTAGCATCCTCTATAGTAGAAGC i loxAfr1.scaffold_36650 C 0 C 0 s echTel1.scaffold_181343 4971 131 + 18297 GGATTTGGTAACTGACTGATCCCATTAATGATTGGTGCCCCTGACATAGCTTTCCCCCGAATAAATAACATAAGTTTCTGGCTCCTTCCCCCCTCTTTTCTTCTTCTGTTAGCTTCATCTATAGTTGAAGC i echTel1.scaffold_181343 C 0 C 0 s monDom4.chrUn 117157054 131 + 174229318 GGTTTTGGTAACTGACTAGTACCACTAATAATTGGAGCACCAGATATAGCATTTCCCCGAATAAATAATATAAGTTTCTGACTACTACCACCCTCATTCCTTCTTTTACTAGCATCATCCACAGTTGAAGC i monDom4.chrUn C 0 C 0 s galGal2.chrM 6875 131 + 16775 GGCTTCGGAAACTGACTAGTCCCACTTATAATCGGTGCCCCAGACATAGCATTCCCCCGCATAAATAACATAAGCTTCTGACTCCTCCCTCCCTCCTTCCTTCTCCTACTAGCCTCATCTACCGTAGAAGC i galGal2.chrM C 0 C 0 s tetNig1.chrUn_random 417498 131 - 171761319 GGTTTTGGTAATTGGTTTGTTCCTTTGATGTTGGGAGCTCCAGATATAGCATTTCCAAGGTTGAACAACATTAGTTTTTGGCTTTTGCCACCTTCTTTGCTTCTATTGGTAAGTTCTTCTTTGGTAGAGGC i tetNig1.chrUn_random N 0 C 0 s danRer4.chrM 6652 131 + 16596 GGATTTGGAAACTGACTTGTGCCACTAATGATTGGGGCCCCCGATATGGCATTTCCCCGAATAAATAATATAAGCTTCTGACTTCTTCCACCCTCATTTCTTCTTCTATTAGCTTCTTCTGGAGTTGAAGC i danRer4.chrM C 0 C 0 e xenTro2.scaffold_96 2673319 6355 - 2855184 I