melanogaster TATCTAC--TATTTTCAGT----TATATT-TTTATTTTAATTATTTTCCACG---CGCATTTCTCGACTA------TTTTTTCGAGTGTTG---CAACAAGTGG-C--TCG-A-------
simulans --TCTAA--TATTTTCAGT----AATATT-TC--TTTTAATTATTTTCCACATTCCGCATTTCTGGACTA------TTTTTTCGAGTGTTG---CAACAAGTGG-C--TCG-A-------
sechellia --TCTAA--CATTTTCAGT----TATATT-TC--TTTTAATTATTTTCCATATTCCGCGTTTCTGGACTA------TTTTTTCGAGTGTTG---CAACAAGTGG-C--TCG-A-------
yakuba --TTCAA----CTTTAAGT----TGTTACTTT--TTTCAACTTTAATTTGTTGACTATATATTTTGTAGATATTTTTTTTTTCGAGTGTTG---CAACAAGTGC-C--TCG-A-------
erecta --TTAAACTTCCTTTAAAC----TCTTTC-GT--TTTCAACTGTTAGTTGTTCACTGCATACGCCGCGTA------TTTTTTCGAGTGTTG---CAACAAGTGC-C--TCG-A-------
ananassae --ACCGA--GATATAAGGTTTAATATTAT-TT--TTTGAGCAACCCCTAATAGTCC--------------------TTTTCTGTTATGTTGTGCCGACAAGTGT-C--TCTCA-------
pseudoobscura -----------------------------------------------------------------------------------------------AACAAGTGC-C--TTG-C-------
persimilis -----------------------------------------------------------------------------------------------AACAAGTGC-C--TTG-C-------
virilis --TCCGA--GATGTATTGGT---TCTGGT-TG--GTCTTGGC----------------------------------CTGGATCTAATG-------ATCAAGTGCAC--GCG-A-------
mojavensis TGTCCAA--CATCTCGTGA----TCTATT-TG--GTCCAG-------------------------------------TGGTCCAGGCG-------ATCAAGTGCACGAGCG-AGCCCTTC
grimshawi TGGCCAG--CCTGGCCTGG----CCTGGC-TT--GGCCTGGCTTGG------------------------------CTAGCTGCAGCG-------AACAAGTGTGC--GCG-A-------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---------------------------GTTCAGA------TATCTGGTTA------TTTC-------TTCGGTTCGGGCAAGTGATTTCCAGGGAAGTGTTAG-TATCCCCTT-GTTTCG
simulans ---------------------------GTTCAGA------TATCTGGATA------TTTC-------TTCGGTTCGGCCAAGTGATTTCCAGGGAAGTGTTAG-GATCCCCTT-GTTTCG
sechellia ---------------------------GTTCAGA------TATCTGGATA------TTTC-------TTCGGTTCGGCCAAGTGATTTCCAGGGAAGTGTTAG-GATCCCCTT-GTTTCG
yakuba ---------------------------GCTCAGA------TATCTGGAGA------TTCT-------TTCGGTTCGGCCAAGTGATTTCCCGGGAAGTGTTAG-GATCCCCTT-GTTTCG
erecta ---------------------------GTTCAAA------TATCTGGAGA-----TTTTT-------TTCGGTTCGGCCAAGTGATTTCCCGGGAAGTGTTAG-GATCCCCTT-GTTTCG
ananassae ---------------------------GTTCGGA------CATCTATAGG------TTCTGGTTCTGTTCGGACGGGGCAAGTGATTTCCCTGGAAGTGTTAG-AATACCCTT-GTTTCG
pseudoobscura ---------------------------CTTTTGAGCCTTACTTTTGGGTAGGATTTTCCT-------TGCTGTTGGGTAAAGTGATTTCCCTGGAAGTGTTAG-AATCCTCTT-GTTTCG
persimilis ---------------------------CTTTTGAGCCTTCCTTTTGGGTAGGATTTTCCT-------TGCTGTTGGGTAAAGTGATTTCCCTGGAAGTGTTAG-AATCCTCTT-GTTTCG
virilis ---------------------------CTTTTAA------TATTT-----------------------------TTGTCAAGTGATTTCCTGGAATGTGTTAG-AAACTTCTC-TTTTCG
mojavensis GTCTTCTCCTCCTCTTTTTTTTTTTTTTTTTTGA------TATTT-----------------------------TTGTCAAGTGATTTCCAGGAATGTGTTAGAAAACTTCTTGTTTTCG
grimshawi ------------------------GTTTTTGGGA------GATGT-----------------------------TTGTCAAGTGATTTCCTGGAATGTGTTAG-AAACCTCTT-GTTTCG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GCACTCTTTC-T---------------TCACCCCTCCCCACCCCCCCCCCACACACACACACACACATACACACGCACACACAATTTTTGCCCCTATTTAGGGG--CTGTAAATTGAGGC
simulans GCACTCTTTC-T---------------TCACCACCCCCCCACCCCC----------GCACACACACACACACACACACACACAATTTCTGCCCCTATTTAGGGG--CTGTAAATTGAGGC
sechellia GCACTCTTTC-T---------------TCACCACCCCCCCCCCCCC-------------CACCACCGCACACACACACACACATTTTCTGCCCCTATTTAGGGG--CTGTAAATTGAGGC
yakuba GCACTCTTTCGT---------------GCGCCCCCTCCCCCCTCTC--------------------------------------TTTCTGCCCCTATTTAGGGG--CTGTAAATTGAGGC
erecta GCACTCTTTC-T---------------GCGCCCCCTCTC------T--------------------------------------TTCCTACCCCTATTTAGGGG--CTGTAAATTGAGGC
ananassae GCACTCTTTT-A---------------GAACTACCACTCGGCTTTT-----------------------------------TGTCTTGTAGGGCTCTTTAGGGG--CTGTAAATTGATGC
pseudoobscura GCACTCTCCC-TCTCTG----------TCTCTCTCTCTCTCTCACT-------------------------------CTGCTGTCTCTTTCTCTTTTTTCGGGGTCTTGTAAATTGATGC
persimilis GCACTCTCCC-TCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCT-------------------------------CTGCTGTCTCTTTCTCTTTTTTCGGGGTCTTGTAAATTGATGC
virilis GCACTTTTTG-----------------GCGGC------------AT--------------------------------------------------------AG--TTGTAAATTATTGT
mojavensis GCACTCGCAG-C----A-------GCAGCAGCATGAGCAGGCATAT--------------------------------------------------------GG--CTGTAAATTAATGC
grimshawi GCACTCTTTC-T----GCTGTTTTGCGGCAGCAGCCGCATCCA-TC--------------------------------------------------------GG--CTGTAAATTGATGC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBRRRRRRRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TGTTGACATTTTTAGTGCAAA---ATGGTTTCCG----------------------------------------AGGAGATCTCTAATATCTTGTTCGCGGTTGTAACCCC---------
simulans TGTTGACATTTTTAGTGCAAA---ATGGTTTCCG----------------------------------------AGGAGATCTCTAATATCTTGTTCGCGGTTGTAACCCC---------
sechellia TGTTGACATTTTTAGTGCAAA---ATGGTTTCCG----------------------------------------AGGAGATCTCTAATATCTTGTTCGCGGTTGTAACCCC---------
yakuba TGTTGACATTTTTAGTGCAAA---ACGGTCTCCG----------------------------------------AGGAGTTCTCTAATATCTTGTTCGCGGTTCTAACCCC---------
erecta TGTTGACATTTTTAGTGCAAA---ACGGTCTCCG----------------------------------------AGGAGATCTCTAATATCTTGTTCGCGGTTCTAACCCC---------
ananassae TGTTGACATTTTTAGTGCAAAACGACGGTGTCGGTGTACCCTCGGGGATCGGGGATCG----GGGATCGGGGATAGGGGATCTCTAATATCTTGTTCGCGGTTCCCCCCCT-------GC
pseudoobscura TGTTGACATTTTTAGTGCAAA---ATGGTCTCCT----------------------------------------AGGAGATCTCTAATATCTTGTTCGCGGTTCGGCCCCTGCCTGTGGC
persimilis TGTTGACATTTTTAGTGCAAA---ATGGTCTCCT----------------------------------------AGGGGATCTCTAATATCTTGTTCGCGGTTGGGCCCCTGCC--TGGC
virilis TGTTGACATTTTTAGTGTAAA---ATGTGCTCCG------------AATCTGAAACCGAACAGTGAGCAACCACAGCAGTTGTCTTATATCTTGTACGCGGTT-----------------
mojavensis TGTTGACATTTTTAGTGTAAA---AT----------------------------------------------------------------------------------------------
grimshawi TGTTGACATTTTTAGTGCAAA---ATG---------------------------------------------------------------------------------------------
Summary BBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -----------TCTGCGACACACGCTTCATA-AAGGAGC------ACAC---AAAAA---ACACGA-AGAGTAGAAAAGGAACACCA------CACACACACACACGCACACACACA-GG
simulans -----------TCTGCGACACACGCTTCTTA-AAAGAGC------ACAC---AAAAA---ACACGA-AGAGTAGAAAAGGAACACCA--------------------CACACACACA-GG
sechellia -----------TCTGCGACACACGCTTCATA-AAAGAGC------ACAC---AAAAA---ACACGA-AGAGTTTCAAAGGAACACCA--------------------CACACACACA-GG
yakuba -----------TCTGCGACACACGCTTCATA-AAGGAAC------ACACACAAAAAA---ACACGGCCGAGTCGAAAAGGAACA-CACACTCGCACACACACAAACTCACACACACACAG
erecta -----------TCTGCGACACACGCTTCATA-AAAGAAC------ACAC---AAAGA---ACACGG-TGAGTAG-AAAGGAACA-CA--------------------CACACACACACAT
ananassae ACTTCCAACAATCTCCGACACACGCTCCGAA-AATAAAA------ACAA---AAAAA---AAAAAA--------AAAAGAAAAGAAA--------------------AACACACACA-TG
pseudoobscura AGTGCCAGTGCCCCTTGTCACTTGCCCCTTGCCCCTAACACACGGACAC---GGACACGGACACGG---------ACAGGCGCA-CG--------------------CACACGCACA---
persimilis AGTGCCAGTGCCCATTGTCACTTGCCCCTTGCCACTAAC------ACAC---GGACACGGACACGG---------ACAGGCGCA-CG--------------------CACACGCACA---
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBB
melanogaster GGAGGGTAATATTTATTATTGAAATTAAAATTTATTGTTTGCTGCTATTGTTTTTCTCTCAG-TTCGACTGTGTGTG--------------TGTGTTTTTTT-----TTTTTGCATCATT
simulans GGAGGGAAATATTTATTATTGAAATTAAAATTTATTGTTTGGTGCTATTGTTTTT-TCTCAG-TTCGACTGTGTGTG----------------------TTT-----TTTTTGCATCGTT
sechellia GGAGGGAAATATTTATTATTGAAATTAAAATTTATTGTTTGGTGCTATTGTTTTTCTCTCAG-TTCGACTGTGTGTG--------------------TTTTT-----TTTTTGCATCGTT
yakuba GCAGGGTAATATTTATTATTGAAATTAAAATTTATTGTTCGATGCTATTGTTTTTCTCT------------TGTGTG------------------------T-----TTTTTGCATCGTT
erecta GGAGGGTAATATTTATTATTGAAATTAAAATTTATAGTTTGATGCCATTGTTTTTCCCTTGG-TTCCACTGTGTGTG-----------------------TT-----TTTTTGCATCGTT
ananassae GAGGGGTAATATTTATTATTGAAATTGAAATTTATTGTTTAATGCCATTGTTTCTGTTTCAGTTTCAGTTGTGTGTTTTTTCTGTTCTTTTTTTGTTTTTTTTGGTGTTTTTGCATCGTT
pseudoobscura --CGAGAAATATTTATTATTGAAATTAAAATTTATTGTTTGATTCTATTGTTT-----------------GTGTGTG------------------TTTGGTT-----TTTTTGCATCGGA
persimilis --CGAGAAATATTTATTATTGAAATTAAAATTTATTGTTTGATTCTATTGTTT-----------------GTGTGTG------------------TTTGG-T-----TTTTTGCATCGGA
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBMMMMMMMMBBMMMMMMMMBBBBBBB
melanogaster GCCGCTTGATTAGAGAATTCAGTGGAAGTCGTCCAGAGATCTCGAGATCCCGAGAGAT-GACTACAAGTGCGC----------------CGCGTAAAGGTCAAAGGGGGCGTGGTACGAC
simulans GCCGCTTGATTAGAGAATTCAGTGGAAGTCGTCCAGAGATCTCGAGATCCCGAGAGAT-GGCTACAAGTGCGC----------------CGCGTAAAGGTCAAAGGGGGCGTGGCACGAC
sechellia GCCGCTTGATTAGAGAATTCAGTGGAAGTCGTCCAGAGATCTCGAGATCCCGAGAGAT-GGCTACAAGTGCGC----------------CGCGCAAAGGTCAAAGGGGGCGTGGCACGAC
yakuba GCCGCTTGATTAGAGAATTCAGTGGAA---GTCCAGGG-ATCTGAGATCCCGAGAGAT-GGCTACAAGTGCGC----------------CCCGTAAAGGTCAAAGGGGGCGTGGCACGAC
erecta GCCGCTTGATTAGAGAATTCAGTGGAA---GTGCAGGGTGCCCGAGATGCCGAGAGAT-GGCTACAAGTGCGC----------------CCCATACAGGTCAAAGGGGGCGTGGCACGAC
ananassae GCCGCTTGATTAGAAATTTCCATGGAA---GTCCAATGGTTCTGAAATATGACGTTATGGGCCGCAAGTGCCC----------------ACCGAAAAGGTCAAA-GGGGCGGGTCGCGAC
pseudoobscura GCCGCTTGATTAGAGAATTCCCTGGAA---GT------------AGATG--AAGATTC-GGTTGCAAGTGCGCGCCCCCGCCCCCAGCGTCCGAAAAGGTCAAAGGAGGCGCGCCCTGGC
persimilis GCCGCTTGATTAGAGAATTCCCTGGAA---GT------------AGATG--AAGATTC-GGTTGCAAGTGCGCGCCCCCGCCCCCAGCGTCCGAAAAGGTCAAAGGAGGCGCGCCCTGGC
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CTTGCAATGTGACCTGAGTATTGCGCAATCTGTCG-----------TTCGATTCAGTTG--------GTTAT-AAATT----------------------TGGATATGTGTGGATGAGAA
simulans CTTGCAATGTGACCTGAGTATTGCGCAATCTGTCG-----------ATCGATTCAGTTG--------GTTAT-AAATT----------------------TGGATATGTGTGGATGAGAA
sechellia CTTGCAATGTGACCTGAGTATTGCGCAATCTGTCG-----------ATCGATTCAGTTG--------GTTAT-AAATT----------------------CGGATATGTGTGGATGAGAA
yakuba CTTGCGATGTGGCCTGAGTATTGCGCAATCTGTCGTCAAACA-------------------------GATAT-ACATATGTATGTA--------------TAGGTATATATCGGT-AGAA
erecta CTTGCGATGTGGTCTGAGCATTGCGCAATCTGTCGTCAAACAGCCGATCGATCCAGTTGGTGAAATCGATATGAGATGTGCATGCACTATAAGTTATAGCTGGATATGTGTGGATGAGAA
ananassae CTTGCCA-GCAAC---AAGATTGCGCAATCTGTCC----------------------TG--------GGCAT----------------------------TG---------------GAA
pseudoobscura CTTGGGCCAAAATCGAGGCATTGCGCAATCTGTCG-----------CTC-----------------------------------------------------------------------
persimilis CTTGGGCCAAAATCGAGGCATTGCGCAATCTGTCG-----------CTC-----------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi -------------------------------------------------AATTTGTGTA--------AATAT-AAATA----------------------TATACGTATGTATATGAGAG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBB
melanogaster GGGTAAAGAATA-TCGGGGGCGTTTCGTGGATCTGCTCAGATGAATTCCTTCACCATCTG-TTGCATCTCGTGGATAATGC-------------CAGCAAAAATCCAGCAAAAACGA--T
simulans GGGTAAAGAAAA-TCGGGGGCGTTTCGTGGATATGCTCAGATGAATTTCTTCACCATCTG-TTGCATCTCGTGGATAATGC-------------CAGCAAAAA------------GA--T
sechellia GGGTAAAGAAAA-TCGGGGGCGTTTCGTGGATCTGCTCAGATGAATTTCTTCACCATCTG-TTGCATCTCGTGGATAATGC-------------CAGCAAAAA------------GA--T
yakuba GGGTAACGAAAAACGGGGGGCGTTACGTGGATCTGCTCAGATGAATTTCTTCACCATCTG-TTGCATCTTGTGGATGATGC-------------CAGCAAAAC------------TA--T
erecta GGGTAATGAAAA--TGGGGGCGTTTCGTGGATCTGCTCAGATGAAATCCTTCACCATCTG-TTGCATCTAGTGGATAATGC-------------CAGCAAAAG------------GA--T
ananassae GGGTAAAGGACCAAAGGGGGCGTTGCAAGGATCTG--------------GTGGTCAGCTG-TTGCAACATGTTGTTGA--------------------AAAAA------------AA--T
pseudoobscura -----------------------------------------------------------------------------------------------------------------------T
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi GAATTGATAACA-TCTAAG-CAGTTCACCAAGCTACTTTTAGAGATTCCGCTCGTAGCTGAATATGTCTCGTAG----TGCTAGATTTATGTGACAGTTA-----------------TAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRBBBBBBBB
melanogaster ACATATATGGGATATGCAACGGATGGTCAATGACAAT--------TGATTTCACTACATTTGAA--TTTGCAATTCGTGTATTC---------GAAATC---AAACTATTTGTAA-----
simulans ACATATATGGGATATGGAACGGATGGTCAATGAAAAA--------TGATTGCACTGCATTTGAA---TTGCAATTCCTGTATTC---------AAAATC---AAACTATTTTGAA-----
sechellia ACAT-------ATATGGAACGGATGGTCAATGAAAAA--------TGATTTCACTGCATATGAA---TTGCAATTCGTGTATTC---------AAAATC---AAACTATTTTGAA-----
yakuba GTATATACTCGATATGAAATGGATTGTTAATCAA---------------------ACATTT------------TTCTATAGTTTGTTATTAGAGAAATC---AATCCATTTGGAA-----
erecta ATACATATGCCA---AAAATG--TTTTCAGT------------------------ACATGTGAA---TTGCAATTCCGTAATTC---------AAAATC---AATCTATTTGG-------
ananassae ACTTAAA----AAATCAAATT--TAATAAGTCTAAGAATTTGAGGAAATCTTTTTGAGGCTGAA--ACTAAATTTTGAAAATTCATTA-----AAAATTATAATACAATTTTTAT-----
pseudoobscura GCACATTTAAGACATTATAAAGATTTTGCATAACTAA--------GAAT------AAATTTGAACAAGTATAATTTTAGGTTTC---------TAAATC---AGAATATTCAGAGCCCTG
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi AGATATTTTGGATGCCCTAGGAAT-----ATCGAAAA--------TAGCTTTGACTCTGGGGAA--AATAAATTAATTATATTCT--------ATTATA---ATATTATTTGCCA-----
Summary BBBBMMMMMMMMBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBMMMMMMMMBBBBBBBBBBBRRRRRRRRMMMMMMMMBBBBBBBBRRRRRRRRBBBBBBBBBBMMMMMMMMBBBBB
melanogaster --------GACTAAAGGTTAGATCCCAGAAAACAAA--AGCCAGTTCAACTTCTGCCAAAATCTACGATTGTGCAGAAGTCATAGA-------TAGTTAGCGATAGGGT-TCAGGGATTC
simulans --------GACCAAAGGTTAAATGCCATAAAACA-----------------------AAAGTCTGCGATTGTGCAGAAGTCATAGA-------TAGTTAGCGATAGG----TAGGGGTTC
sechellia --------GAGCAAAGGTTAAATGCCATAAAACAAA--AGCCAGTTCAACTTCTGCCAAAGTCTGCGA---TGCAGAAGTCATAGA-------TAGTTAGCGATAGA----TA--GGTTC
yakuba --------GACTAAAGATT--------------AGA--GCCTAGTTTAACT----------TCAGCGATTGTGTAGAAGTCAAAGATACATAGTAGTTAGCGATAGG----TAGAGGTTC
erecta ----------TTAGATATCCTACTCATATATAGAAA--ACCCAGTTCAGCTTATGCCAAAGTCAGCGATTGTGCCGAAGTCAAAGA-------TAGTTAGCGATAGG----TAGAGGTTC
ananassae --------GGTTAAAAATAAACTATAAACTAATAAATTGCATAATTTAAAACCTG--AAAATTAA-GATTATTTAAAA---AAAAA-------TAGGGGGGAATAAAGTCTTA---GTTA
pseudoobscura ACAAAAACGTTTCGATTTTGAATGCCATTTAATGAGCGGCACTTTCTGGTTCATT------TCTGAGACAGATCAGACGGATTAGA-------CTTTGACT---------------GAAG
persimilis --------------------------------------------------------------------------------------------------------------------GAAG
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi --------GAAAATGGTGTGGAT-------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRBBBMMMMMMMMBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AGATACAAGCA----AAGATATACAAAGTCAATTGGC---GAAAAAA--CCCCGAAGATTA---------ATCTAATCTGCGACGAAGAAC-GGACCGAAGACGCTAGAAAGGCCAAAAT
simulans AGATACAAGAA----GAGATATACAAAGTCAATTGGC---GAAAAAA--CCCCGGAGATTA---------ATCTAATCTGCGACGAAGAAC-GGGCCGAAGACGCTAGAAAGGCCAAAAT
sechellia AGATACAAGAA----GAGATATACAAAGTCAATTGGC---AAAAAAA--CCCCGGAGATTA---------ATCTAATCTGCGACGAAGAAC-GGGCCGAAGACGCTAGAAAGGCCAAAAT
yakuba AGATACAAGAA----GAGATATACAAAGTCAATTGGC---GAAAAAA--CCCCGGAGATTA---------ATCTAATCTGCGACGAAGAAC-GGGCCGAAGACGCTAGAGAGCCCAAAAT
erecta AGATACAAGAA----GAGATATACAAAGTCAATTGGC---GAAAAAA--CCCCGGAGATTA---------ATCTAATCTGCGACGAAGAAC-GGGCCGAAGACGCTAGAGG--CCAAAAT
ananassae AAATAAAATAAAGTTAAAATAAATAAAGTCAATTGA----GAAAAAA--CCCGAGAGATTT---------ATTTAATCTGAGTTGTAGAAC-AGACCG------------GGCCCAAAAT
pseudoobscura AGATATAGGAA----TAAGTATACAAAGTCAATTGGC---GAGAAAAACCCCGGGAGATTAGGGTTTCGTGGCTAATCTCTGGGCAAGAGCAGGGGCAAAGACGATAGAAAGGCCAAAAT
persimilis AGATATAGGAA----TAAGTATACAAAGTCAATTGGC---GAGAAAAACCCCGGGAGATTAGGGTTTCGTGGCTAATCTCTGGGCAAGAGCAGGGGCAAAGACGATAGAAAGGCCAAAAT
virilis ------------------------AAAGGCAATTGCC---GAAAAAA--CCACAAGATTTA-------CCGTGTAATCTT------------GGAAAGTCTACAGCAGAGCGGGCAAAAT
mojavensis ------------------------AAAGGCAATTGCTGTAGAAAAAA--CCACTAGATTTA-------CGCTGTAATCTT------------GGAAAGTCTACAGCAGAGCGGGCAAAAT
grimshawi ------------------------AACGGCAATTGGC---GAAAAAA--ACCCTAGATTTA-------CCCGGTAATCTT------------GGAAAGCCTACGGCAGAACGGCCAAAAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ATTTGCAGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-T-----------------------TTAGG---
simulans ATTTGCAGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-T-----------------------TTAGG---
sechellia ATTTGCAGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-T-----------------------TTAGG---
yakuba ATTTGCTGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-T-----------------------TTACG---
erecta ATTTGCAGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-T-----------------------TTACG---
ananassae ATTTGCAGACAGTGAAAGGATTTAGATGCGAAAATCCCCATAAATCCAATTAACACAAATCTGCATAACGGGTT---------AAGG-G-----------------------TTAAGGGT
pseudoobscura ATTTGCAGACAGTGAAAGGATTTAAATGCGAAAATCCCCATAAATCCAATTAACATAAATCTGCATAACGGGTT---------GAGG-G-------------------------AAG---
persimilis ATTTGCAGACAGTGAAAGGATTTAAATACGAAAATCCCCATAAATCCAATTAACATAAATCTGCATAACGGGTT---------GAGG-G-------------------------AAG---
virilis ATTTGCAGACAGTGAAAGGATTTAAATGTG-AAAT-CCCATATATCCAATTTACAGAAAGCTGCATATCGGGCATTGCCTTTCAGTG-G-----------------------GAACG---
mojavensis ATTTGCAGACAGTGAAAGGATTTAAATGTG-AAAT-CCCGTAAATCCAATTTACAGAAAGCTGCATATCGGCCAATGCTTGGGAATG-GCTAAAGGGTAGAGGCTAGAGGGTAAAGG---
grimshawi ATTTGCAGACAGTGAAAGGATTTAAATGTGAAAAT-CCCATAAATCCAATTAACACAAAGCTGCATATCGGGGA-TGCTATACGATACGGTAAACGGTAAATGGTAACGG--CAACG---
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---------------------CT-------------------AAAGGATTACGAGGCTCATGCC---------------------------------------GTGC-------------
simulans ---------------------CT-------------------AAAGGATTACGAGGCCCATGCC---------------------------------------GTGC-------------
sechellia ---------------------CT-------------------AAAGGATTACGAGGCCCATGCC---------------------------------------GTGC-------------
yakuba ---------------------CC-------------------AAAGGATTACGAGGCCCATGCC---------------------------------------GAGC-------------
erecta ---------------------CT-------------------AAAGGATTATGAGGCCCATGCCGT-------------------------------------GCGC-------------
ananassae TAACCAACCAAGCCCTAACAACTACAATTTTAAAGCAAAGGGAAAGGATTACG-TTTCTATCTT---------------------------------------TTTC-------------
pseudoobscura -----------------GCAATC-------------------GAAGGATTCCGAATCGTGAGGCAGTAGGCAGGAGCGCAAGAGCGCAGGAGCGCAAGGGTTAGGGT-------------
persimilis -----------------GCAATC-------------------GAAGGATTCCGAATCGTGAGGCAGTAGGCAGGAGCGCAGGAGCGCAGGAGCGCAAGGGTTAGGGT-------------
virilis ---------------------GT-------------------AACGGGTTAGGGATTTTATG-C---------------------------------------TGCC-------------
mojavensis ---------------------GT-------------------AACGGGTTAGGGTTTCCAGG-A---------------------------------------GACTAACCCAAGAGCGT
grimshawi ---------------------GT-------------------AACGGGTTAGGGTT-------A---------------------------------------GGGT-------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBB
melanogaster ---------AACCAGC------------------AAATTTCAATTGAA--TA--------------------CTTCTCGATCG----------CACTACCTGG-----------------
simulans ---------ACCCAGC-------------------AATTTCAATTGAA--TA--------------------CTTCTCGATCGC--------TCACTACCTGG-----------------
sechellia ---------ACCCAGC-------------------AATTTCAATTGAA--TA--------------------CTTCTCGATCGC--------TCACTACCTGG-----------------
yakuba ---------AGCCAAC-------------------CAATTCAATTGAA--TA--------------------CTTTTCGCTAG----------CGCTACCTGA-----------------
erecta ---------ACCCAAC-------------------AATTTCAATTGAA--TA--------------------CTTTTCGCTCG----------CACTACCTG------------------
ananassae ---------GCACAAA-------------------AATTTCAATTGAA--TG--------------------TTTCTGAGGAATA------ATTTCTACCTGA-----------------
pseudoobscura ---------ACCGAAAGGATTAGAACGGAATGCGAAATTTCAATTGAA--TAAGATTCCCATATACCTGTGACTCCTAGAGGGGAGGCTCGACTTCTATCTGT-----------------
persimilis ---------ACCGAAAGGATTAGAACGGAATGCGAAATTTCAATTGAA--TAAGATTTCCATATACCTGTGGCTCCTAGAGGGGAGGCTCGACTTCTATCTGT-----------------
virilis ---------ATATAAT-----------------GAAATTTCAATTGAA--GGTGACC---------------ATTTGTAGCCG----------AGTAGCATGTCTGATCTATCTTT----
mojavensis GCAATGCAAATTTAAT-----------------GAAATCTCAATTGAA--GGCGAACTA-------------AGTTGCTCCTG----------TCCTACCTGG-----------------
grimshawi ---------CTTCAAT-----------------AGATTATCCTGTGAACCGGCG------------------ATGTG--------------------------TTGATAAAAATTTGAGG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster --------CCAACGCCGA-----TTTGCATATATG--------------------------------------TAGATAT--ATATATATATGTACA-------------------TATA
simulans --------CCAACGCCGA-----TTTGCAT----------------------------------------------ATAG--ATATATGTATGTACA-------------------TATA
sechellia --------CCAACGCCGA-----TTTGCAT----------------------------------------------ATAG--ATATATGTATGTAAA-------------------TATA
yakuba -------------GTACA-----TATGCAAATAT------------------------------------------ATAT--ATATATATGTACATA-------------------TAGA
erecta --------------------------GCA----------------------------------------------------------------------------------------ATA
ananassae -----------------A-----CTTGAATATACTTTACTCTTTCTAACCCTATCTTTCTGTTCTTTTCTTACTAAAGGA--ATATATGATTGCGAA-------------------TATA
pseudoobscura --------CTCTCGCTCACACTCTCTGGCT----------------------------------------------GTTG--TTCTACATGTAC----------------------TGTA
persimilis --------CTCTCGCTCACACTCTCTGGCT----------------------------------------------GTTG--TTCTACATGTAC----------------------TGTA
virilis --CTTTAGCTGTTACTGC--------------------------------------------------------------TGATACACAGCC------------------------AAGA
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi CGACTTGTGAGTTGTTGG--------------------------------------------------------------CCATATATAGCTACCTGATCGATCGTGGTTCAGCCAAAAA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBB
melanogaster TTCATATATCTGACATTC-------TCGCTT--TCGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCA
simulans TTCATATATCTGACTTTCTC-----TCTCCT--TCGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCA
sechellia TTCATATATCTGACTTTCT------TCTCCT--TCGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCA
yakuba TGGATATATCTGGCC----------TCTCTT--TCGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCA
erecta TGGATATATCTAGCC----------TCTCTT--TCGGATTACCGCAG-------------ACGATCCCTTTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCA
ananassae TTTTCTGGTTTGACATTTT------CTGGTT--GTGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCC
pseudoobscura TATCTGTCTCCTTCCCTCT------CTGGTT--GCGGATTACCGCAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGGCC
persimilis TATCTGTCTCCTTCCCTCT------CTGGTT--GCGGATTACCACAG-------------ACGATCCC-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGATTATGCATTTATGG-C
virilis GGGGTG-------------AGAGCCTTGCTT--GCGGATTACCTCAGATTCT--------TTAATCCT-TTGACTTTTCCTGCTAAGCGATCATAAAACGTGGGTTATGCATTTATGGCC
mojavensis -------------------ACAACCTTGCTT--GCGGATTACCGCAGATCCT--------TTAAGCCT-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGGTTATGTATTTATGGCC
grimshawi GGGGTG-------------ACGTTGTTGCTTTGTTGGATTACCGCAGATCCTGTGATGCATTGATCCT-TTGACTTTTCCTGCTAAGCGATCGTAAAACGTGGGTTATGCATTTATGGCC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBB
melanogaster CCCCGC---------------------GGCAGCGT--------------CGAAACCAC--CCAGCCA--------CCCAC-----------T---CAACCACCG--------GCCAACCG
simulans CCCCGC---------------------GGCAGCGT--------------GGAAACCAC--CCAGCCA--------CCCAC-----------T---CAACCACCG--------GCCAACCG
sechellia CCCCGC---------------------GGCAGCGT--------------GGAAACCAC--CCAGCCA--------CCCAC-----------T---CAACCACCG--------GACAACCG
yakuba CCCCGC---------------------GGCAGCGT--------------CGAAACCAC--CCAGCCA--------CCCACC--GCCC---AT---CGCCCATCG--------CCAAACCG
erecta CCCCGC---------------------GGCAGCGT--------------CGAAACCAC--CCAGCCACCCACTCGCCCACC--GCCC---AC---CGCCCACCGCACACCGACCAAACCG
ananassae CCCCCT---------------------GGCAGGAG--------------CACAACCATAGACAGTCG--------TCCTGCATGTCCTGTTT---CACCCACAA--------GCCCACTC
pseudoobscura CCACACACACAGGCACACAGGCACACGGGCACACT--------GACCCACCGACCCAC--ACACTCA--------CCCAC-----------T---CAGCCACTC--------GCCCAC--
persimilis CCACACACACAGGCACACAGGCACACGGGCACACTGACCCACCGACCCACCGACCCAC--ACACTCA--------CCCAC-----------T---CAGCCACTC--------GCCCAC--
virilis CCA-GC----------------------------T--------------CCCACCCATCTCCAGTAC--------CCTTC-----------G---CTTTTCCCG--------TTCG-GAA
mojavensis CCC-GC----------------------------A--------------TCCACCCATCCATGGC-T--------GCTGC-----------C---CGGTCACAG--------TCTGAGCA
grimshawi CCCAGC----------------------------T--------------CCCACCCACTGCCACCAC--------CCATC-----------GGCATGGTCAACG--------CACCAACA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBB
melanogaster AAAGCCTAACCCACAGG--------ACCTTTGGTC-AGAGGGTGCGGTTTAATCTGAGACCACCAAAAA---CCGATGGGATGGCCATATAGCTGCACTGCGAGAAAGTAGCAGTGATAA
simulans AAGGCCTAACCCACAGG--------ACCTTTGGTC-AGAGGGTGCGGTTTAATCCGAGACCACCAAAAA---CCGATGGGATGGCCATATAGCTGCACTGCGAGAAAGTAGCAGTGGGTT
sechellia AAGGCCTAACCCACAGG--------ACCTTTGGTC-AGAGGGTGCGGTTTAATCCGAGACCACCAAAAA---CCGATGGGATGGCCATATAGCTGCACTGCGAGAAAGTAGCAGTGGGTT
yakuba AAGAAGCAACCCACAGG--------ACCTTTGGTC-AGAGGGTGCGGTTTAATCCGAGACCACCAAAAA---CCGCTGGAATAGCCATATAGCTGCACTGCGAGAAAGTAACAGTGCGTT
erecta AAAACCCAACCCACAGG--------ACCTTTGGTC-AGAGGGTGCGGTTTAATCCGAGACCACCAAAAA---CCGATGGTATGGCAATATAGCTGCACTGCGAGAAAGTAACAGGGGGTT
ananassae A-----CCACCCAC-----------ATCCTTGACCAAAAGGGTGCGGTTTAATCCCAGACCACCAAAAA---------------CGAGGTAGCTACACTCAAAGAAA-------------
pseudoobscura ------TCGCCCACAGGGGCGACTCACCACCGACC-AG-GGGTGCGGTTTAATCCGAGACCAGGAAGAT---TTGAT-------------------------------------------
persimilis ------TCGCCCACAGGGGCGACTGACCACCGACC-AG-GGGTGCGGTTTAATCCGAGACCAGGAAGAT---ATGAT-------------------------------------------
virilis A---CCTTTCCAACTTG--------G-------TT----GGGTGCGGTTTAATCCGAGACCACCAAAGACACCGGATAATATGGTCGCAAGCCCGATTCGTAGGCAA--GCCGACCCGAT
mojavensis A---CTTCACCAACCTG--------G-------CT----GGGTGCGGTTTAATCCGAGACCACCAAAGA---------------------------------------------------
grimshawi A-----TATCGAACCGG--------GC------CT----GGGTGCGGTTTAATCCGAGACCACCAAAGA---------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRR
melanogaster TCAAATGATGATGATGATGATCATAAATAATGATAATCAAATAGAAAGAGCAACTCTT----------TTATTCAAAATATATATA----ATTCAACTA--------------------T
simulans CGGCATTGCAAGAATG-----------TAATGATAATCAAATAGGAAGGGAAACTCTT-------------------ATATATTTA----ATTCAACTA--------------------T
sechellia CGGCATTGCAAGAATG-----------TAATGATAATCAAATAGGAAGGGGAACTCTT-------------------ATATATTTA----ATTCAACTA--------------------T
yakuba CGCCATGCCAAGAATGGCAAATGTCAAGAAATATAACTATTTATAAACTCATAGTTATATTTTCAATATAATGCAAATTATGCAAA----ATTTGGCAA--------------------T
erecta TGGCCT-----GATTATTTTTCTTCAATTAAATGAACTATTTATTAAGTGATACATTTATTTCCTATGTAATGCAAGGTATGCAAA----GTTTGAGGA--------------------A
ananassae --------------------------------------AAATATAAAGAAAATGTATT-------TTATTAAAAAAAATATATAAATATTATTCCAACA--------------------A
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis TGACAATATTCCGGTATTTAT---AAATAAATATACAAAAGTAAGCAAGGGAACGCCT-------AAC---GTTAATGTATGTATA----TGCTAGATA--------------------T
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------AAATAAAGATAATTAAATAGAAAAAGAAA--ACA-------AACTTGATTAAAATCTTCATA----TTCTAGAAAGTTCTTTGATTTATTTTGATT
Summary RRRBBBBBBBBBBBMMMMMMMMBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TTATTAACAT-TATTAAAAGCACA-------TCTATTACGTTTCAATT--A--------------AAAATTTTATAATTATGTTTGATGATT----------------TCGAATAGATTA
simulans TTATTAACAC-TTT----------------------------------------------------AAA---------------------------------------TAGAATAGATTA
sechellia TTATTAACAC-TAT----------------------------------------------------AAACTTTATAATTATGTTTGATGATT----------------TCGAATAGATTA
yakuba TTGAATAAATCTAT-----------------------------TAACT--A--------------ATAACTTCCCAATTATGTTAAAAAAATTAAC----------TATTAACTACCCAA
erecta ATATATACATATAT----------------------------GTAAAT--A-----------TATATAAAATTCAGAT----TTGAAACATCTTGC----------TAAGGTATAATGCA
ananassae CTAAATATTT-TAT--AAAAAAGA-------TAAACTATTAAATAAAT--AAATGTTTAAAGTAAAAAATATTTCCATTTTGACGGACAAACGGACACGCGGACAGTTTCAAGTAGCTCT
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis GCAGTCGCAT-TGT---GGACAAC-------ACAACAGATGTGGAATT------------------AGAAGT------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ATTATTAAAA-TGG---AAACACCCATTTCTATAATTAAGATACAATTTTA--------------ATGAAGTTGAAATTATATTTATTTATC----------------TAAAATCAGTTA
Summary BBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBMMMMMMMMBBBMMMMMMMMMMMMMMMMRRRRRRRRBBBMMMMMMMMBBBBBBBBBBBBBBBBB
melanogaster CATT-AAAAACAATGCTAATACAAATTAAGTAAAAAAAT---------TAATAGA--AAC----------CAAAATCCACTCTGGTTTCTCTCAGTG--------CAGCGAAGAGATGTC
simulans CTTTAAAAAACATTGCTAATACAAATTAAGT--AAAAAT---------TTATAGA--AAC----------CAAAAGCCACTCTGGCTTCTCTCAGTG--------CAGCGAAGAGATGTC
sechellia CTTTAAAAAACATTGCTAATACAAATTAAGT--AAAAAT---------TTATAGA--AAC----------CAAAAGCCACTCTGGCTTCTCTCACTG--------CAACGAAGAGATGTC
yakuba TTTTAAAA-TGATTTCTTATACGAAAGAAGT--ACGAA----------TGATAAG--AAG----------CGAAAGCCAAGCTGGTTTCTCTCAGTGCAGCCAGCCAGCCAAGAGATGTC
erecta TGGAATGA-TCATCTCTAGTACGAAAGAAGT--ACAAG----------TGCTGAA--GAG----------CGAAGGCCAGTCTGGTTTCTCTCAGTG----CAGCCAGCCAAGAGCTGCC
ananassae GATCCAAA--AAATACCTATCCTTTAAGACT--AAAAATATCTCTACCTCATAGCCTAACATATTTTTCACCAAAATCACTATCATTTCTCTCAGTGCCCGAGAAAAGAAAAGGAAAATT
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi AATAAAAA-ACAATTTTAAGCAAAAAATAGAAAACGAAT---------TAA---------------------------------------------------------------------
Summary RRRRRRRRBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GC--ATTAATCCGCCAAAGGACCGCGATCAGGATCAAGAATCAATAATTACGATTCAGGCGTAACCGAGTC-GGGGGCTAGGTAGCAAAACA---AAACGGGGTAATCCTGA----CTCC
simulans GC--ATTAATCCGCCAAAGGACCGCGATCAGGATCAAGAATCAATAATTACGATTCAGGCGTAACCGAGTC-GGGGGCTAGGTAGCAAAACA---AAACGGTGTAATCCTGA----CTCC
sechellia GC--ATTAATCCGCCAAAGGACCGCGATCAGGCTTAAGAATCAATAATTACGATTCAGGCGTAACCGAGTC-GGGGGCTAGGTAGCAAAACA---AAACGGTGTAATCCTGA----CTCC
yakuba GC--ATTAATCCGCCAAAGGACTGCGATCGGGATCAGGAATCAATAATTACGATTCAGGCGTAACCGAGTC-GGGGGCTAGGTAGCAAAACA---AAACGGGGTAATCCGGA----CTT-
erecta GC--ATTAATCCGCCAAAGAACTGCGATCAGGATCAAGAATCAATAATTACAATTCAGGCGTAACCGAGTC-GGGGGCTAGGTAGCAAAACA---AAACGGGGTAATCCTGA----CTTC
ananassae GCAAATTAATCTCACAGAAGGCAGTCATCAG------GAATCAATAATTACAATTCAGGCGTAACCGAGTCAGAGGGCTAGGTAGCAAAAC----ATACTTGGTAATCCT------CGAC
pseudoobscura -----------------AGATCAGGGATCAGG-----GAATCAATAATTACGATTCAGGCGTAGCCGAGTC-AGGGGCTAGGTAGCACAACATTCCCTCCCGGTAATCCTCACCAGCTCC
persimilis -----------------AGATCAGGGATCAGG-----GAATCAATAATTACGATTCAGGCGTAGCCGAGTC-AGGGGCTAGGTAGCACAACATTCCCTCCCGGTAATCCTCACCAGCTCC
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CAGCCCTTCTTCGTCCGCCCTT-CG-GGATTAGTGGCGATCCA-GCG-AGAAATCCC-----------GCAGATGAGAAGCTTTG-----------ATGCGACGAAGTCAAAACTTTTCC
simulans GAGCCCTTCTTCGTCCGCCCTT-CG-GGATTAGTGGCGATCCA-GCG-AGAAATCCC-----------GCGGATGAGGAGCTTTG-----------ATGCGGCGAAGTCAAAACTTTTCC
sechellia GAGCCCTTTTTCGTCCGCCCTT-CG-GGATTAGTGGCGATCCA-GCG-AGAAATCCC-----------GCGGATGAGGAGCTTTG-----------ATGCGGCGAAGTCAAAACTTTTCC
yakuba -----------------------CG-GGATTAGTGGCGATCCA-GCG-AGAAATCCC-----------GCGGATGAGGAGCTTTG-----------ATGCGGCGAAGTCAAAACTTTTCC
erecta G------CCCTCGTCCGCCTATCCG-GGATTAGTGGCGATCCA-GCG-AGAAATCCC-----------GCGGATGAGGAGCTTTG-----------ATGCGGCGAAGTCAAAACTTTTCC
ananassae GGATCGTATCCTGGCGATTC---CA-GGATTACCGTCGATCCACCCG-AGAAATCCC-----------ATGGATAAGGAGCTTTG-----------ATGCGTCGAAGTCAAAACTTTTCC
pseudoobscura GCTCCGCTACGCTTCGCTCCTGGCGTGGATTAGCGGCGATCTA-GTGCAGAAATCCCCAGGCGCGGGTGAGGATGAGGAGCTTTGGGTGTCGCTAAATGCACAGAAGTCAAAACTTTTGT
persimilis GCTCCGCTACGCTTCGCTCCTGGCGTGGATTAGCGGCGATCTA-GTGCAGAAATCCCCAGGCGCGGGTGAGGATGAGGAGCTTTGGTTGTCGCTAAATGCATAGAAGTCAAAACTTTTGT
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AGCTTAAGCCCAGCTTAGTTGCTA----------------------------------CTCCACAA--------------TCTACCTGACATCG-------CTGATCTGCAGATTCGCTG
simulans AGCTTAAGCCCAGCTTAGTTGCTA----------------------------------CTCCATGA--------------TCTACCTGACATCG-------CTGATCTGCAGATCCGCTG
sechellia AGCTTAAGCCTAGCTTAGTTGCTA----------------------------------CTCCATGA--------------TCTACCTGACATCG-------CTGATCTGCAGATCCGCTG
yakuba AGCTTAAGCCCAGCTTAGTTACTCA--------------------------------TCTCTGTGGATAGAGTATTGATCACTACCTGACATCG-------CTGATCTGGTGATCTGCTG
erecta AGCTTAAGCCCAGCTTAGCTGCTC----------------------------------CTCCATGG--------------CCTACCTGACATCG-------CTGATCTGCAGATCAGCTG
ananassae AGCTTAA-CCCAGCTTAGGCATCTAGCCGAGAGTCCCCCTCTGAATCCTTCAGAATCCTTCCATGC--------------CCATCCTTACCTTATCCTTACCTGGCCTGGA------CTG
pseudoobscura GATCTCTACCTGAATTGTCTGAAT----------------------------------CGTCTGAA--------------TCCCCGTGATCCTGCTC----CTGATC--CTGATCCGCGC
persimilis GATCTCTACCTGAATTGTCTGAAT----------------------------------CGTCTGAA--------------TCCCCGTGATCCTGCTC----CTGATC--CTGACCCGCGC
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ATCCCACGCCT-------------------TGTTTGGTGG--GCTCGTCGCGGCTAATCAATTGATTATCGCCACGGATCGG---TT--GAGAATGGATC-AAGTTGGTT-------GAG
simulans ATCCCACGCCT-------------------TGTTTGGTGG--GCTCGTCGCGGCTAATCAATTGATTATCGCCACGGATCGG---TT--GGGAATGGATC-GAGTTGGTT-------GAG
sechellia ATCCCACGCCT-------------------TGTTTGGTGGCTAATCGTCGCGGCTAATCAATTGATTATCGCCACGGTTCGG---TT--GAGAATGGATC-GAGTTGGTT-------GAG
yakuba ATCCCACGCCT-------------------TGTTTGGTGG--GCTCGTCGCGGCTAATCAATTGATTATCGCAACGGATCGGTTTTT--GGGAATAGATC-GCGTTGCTT-------GAG
erecta ATCCCACGCCT-------------------TGTTTGGTGG--GCTCGTCGCGGCTAATCAATTGATTATCGCA------------TT--GAGA------------TGGCT-------GAG
ananassae ATCAC-CTTTT-------------------TGTTTGGTGG--GCTCGTCTCGGCTAATCAATTGATTATCGCCACGGATCCG---AT--CGGATCGCATC-GGATTATAT-------CAG
pseudoobscura AAGACACTTCGACCGACAGTTGTTTGTGTCTGTTTGGTGG--GCTCGTCCTGGCTAATCAATTGATTATCGCCATGGATTGA---ATCGGGGATTGAATCAGGATTGGGTGGGGTAAGGG
persimilis AAGACACTTCTAACGACAGTTGTTTGTGTCTGTTTGGTGG--GCTCGTCCTGGCTAATCAATTGATTATCGCCATGGATTGA---ATCGGGGATTGAATCAGGATTGGGT-------GGG
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------TGTTTGGTGG--GCATGTTGCTGCTAATCAATTGATTA-----ACAAAGCAT---TT--GGGGATCGAAA-GAGGTG--T-------AAC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AT-------------------------------------CTCTTAGCTGGAGT-------CACTTCCTCAAAATAGATTAGTCA-ACAATTTTCACAATATTTTGAG-------------
simulans AT-------------------------------------CTCTTAGCTGGAGT-------CACTTCCTCAAAATAGATTAGTCT-TCAATTTTCACAATATTTGGAG-------------
sechellia AT-------------------------------------CTCTTAGCTGGAGT-------CACTTCCTCAAAATAGATTAGTCT-TCAATTTTCACAATATTTGGAG-------------
yakuba AT-------------------------------------CGCTTAGCTGGAGT-------CACTTCCTCAAAATAGATTAGCCA-TCAATTTGCACAATATTTTGAG-------------
erecta TA-------------------------------------CTCCTAGCTAAAGT-------CACTTCCTCAAAATAGATTAGCAATTCAATTTGCACAATATTTGGAG-------------
ananassae AT-------------------------------------TGGATGGGTGGGAT-------------------------------------------------------------------
pseudoobscura GTAAGGGGAAGGACAGGAAAGGTTGACTGTTTGTGTAGGCTTGAGACTGGATTTGGATTCAAATCCCACCGAAAAGATTAGCAT-------TGCACAATGTTTGTGG-------------
persimilis GTAAGGGGAAGGACAGGAAAGGTTGACTGTTTGTGTAGGCTTGAGACTGGATTTGGATTCAAATCCCACCGAAAAGATTAGCAT-------TGCACAATGTTTGTGG-------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis -------------------------------------------------------------------CT------------------TTAATATATATTTATTCGAAATTAATTTTTTAA
grimshawi GC-------------------------------------CTAATTCCTGAGGC-------AGTTGCCAT------------------AGATTGTGCACTTTT---ACATTGATTT-----
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -AGATTTG---CAAACATCCAGGCGACACTCAG-TTCACTGCTTCCGATTTATTGG---------AATGTGCATATATCATTAAAAAGCGGT-------------AAA--ATCT------
simulans -AGATTTG---CAAACATCCAGGCGACATTCAG-TTCACTGCTTCCGATTTATTGG---------AATGTGCATATATCATTAAAAAGCGGC--TTTG------GTAA--ATCT------
sechellia -AGATTTG---CAAACATCCAGGCGACATTCAG-TTCACTGCTTCCGATTTATTGG---------AATGTGCATATATCATAAAAAAGCGGC--TTTG------GTAA--ATCT------
yakuba -AGATTTAC--CAAACATGCCGGCGACTTGCAG-ATCACTGCTTCCGTTTTAGTGGCGACTAAGTAAGGGGTATGCGTT----AAATGCATC-------------TAT--CACTAAGAGG
erecta -AGATTTA---CAAACATCCAGGCGACATTCAG-AACACTGCTTCCGTTTTAGTGGCGACTAATTAATGGGTATGGGTT----AAAATCAT--------------------ACT------
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura -AGATTTGTGACGAGAACCCA----ACCTTTCT-CTGAAAGTTCTTCCTTTTCTGG---------ATGTTCTTCATATC----AGAGACTTTCCCTTGATGTGTACAA--ATAT------
persimilis -AGATTTGTGGCGAGAACCCA----ACCTTCCT-CTGAAAGTTCTTCCTTTTCTGG---------ATGTTCTTCATATC----AGAGACTTTCCCTTGATGTGTACAA--ATAT------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis AAGATCAT---AAATAATCTAA---TTTTTAAATGTTATTATTTGCGAAGTAATTG---------AAAACGCATACATCATA-AAGAACGGT------------TGGA--ATTC------
grimshawi -AAACTTC---AAATTTTCCGA---GGAATCAA-GTCAATAATTCC-----AGTTG---------CAGTTGCCACTTTCATG-TCAAGCATT------------CAAATGATGA------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBB
melanogaster TATAATTGGTAACATTTTAATTG---------AATTTCTTA---------GTTATATATCCAGGCATATATTGGGCTCCA-TTACTTTACATCAAAACCTTAT--GT----GGCCCATAA
simulans TATAATTGGTAACATTTTTATTG---------AATGTCTTT------TTGTTTATATATCTAGACATATTTTGGGCTCCATTTACTTTACATCAAAACCTTAT--GT----GGCCCATAA
sechellia TATAATTGGTAACATTTTTATTG---------AATGTCTTT---------TTTATATATATAGACATATTTTGGGCTCCATTTACTTTACATCAAAACCTTAT--GT---GGGCCCATAA
yakuba GTTTTTTTTTGGCAATTTGATTG---------AATATTTTA---------ATTTGTTTTCCAGA---AGTCTGTGCTCCA-TTACTTCACATCACAGCCCTAC--GT----GGCCCATAA
erecta GCTTGTTTAT----ATTTGGGTG---------CATA---TA---------ATTTGGGTTCCCGA---AGTTTGTGCTCCA-TTAGTGTGAATCAAAACCTTACATGT----GCCCCATAA
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ACACTTTGCTATGATCTTCTTTG-----------CCTATTT---------CTCAGCTATTTAGC-----TCTGGGCTCCT----CCTTCGGACACTTCTTCAG--AT----CTTTCTTCA
persimilis ACACTTTGCTCTGATCTTCTTTG-----------CCTATTT---------CTCAGCTATTTAGC-----TCTGGGCTCCT----CCTTCTGACACTTCTTCAG--AT----CTTTCTTCA
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis TATTAAAAGCAAAACAATCAATG----AAATG-ATTTCTTA---TATAGAGTTTTATATGTATAGTCA-------------TGACTTCAAA-----------------------------
grimshawi TCTTCGAATTTCCACATTCCACATTGTAATCG-ACTTTTTAATGTATATATTTGAGTATATATATATA-------------TATCTTCTTGTGAAGAGCTCAT--GCTTTGAGCTTAGAA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRR
melanogaster AAACT------GCCGACTTTTCTTCCATTGCGAT------------------------------TT---TCCCAACTTGACATGACCTAGTGGTGCA---AAAAAAGTGGGCGTGACGTT
simulans AAACT------GCCGGCTTTTCTTCCATTGCGAT------------------------------TT---T-CCAACTTGACATGACCTAGTGGTGC----AAAAAAGTGGGCGTGACTTT
sechellia AAAAC------GTCGGCTTTTCTTCCATTGCGAT------------------------------TT---T-CCAACTTGACATGACCTAGTGGTGC-----AAAAAGTGGGCGTGACGTT
yakuba AAA---------------------CCATTGCGCT------------------------------TT---T-CCAACTTCACTTGACCTAGTGGTGC----AATAAAGTGGGCGTGCCGCT
erecta AAA---------------------CCATTGCGAT------------------------------TT---T-CCAACTTCACTTGACCTAGTGGTGC----AAAAAAGTGGGCGTGTCGCT
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura AAGATCTGGCATCTGACTCTCCTCCCACTCAGAGAGACAGACAGACAGACAGACAGACAGACACTC---C-CCCATCTCACTTGACCTACTGGCAGGAATAAAAAAGGGGGC--------
persimilis AAGATTTGGCATCCGATTCTCCTCCCACTCAGAG----------------AGACAGACAGACTCTC---C-CCCATCTCACTTGACCTACTGGCAGGAATAAAAAAGGGGGC--------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi A------AATATCTGAATTCATGCCAAGTACAAA------------------------------TCGTAT-CCCATTAAAAATGG-GGAGTGGC------AAAAAAGTGGGC--------
Summary RRRBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBB
melanogaster GCGTGGGCGTCGAAT----------AGATATGGGTATAGTGGGAAC-TTTCCTTGCT----GTTGCTGTCGAC----TTTTTGCTAATTGATTATGC-GGCGACGTTGTGGCCCAAGGAC
simulans GCGTGGGCGTCGAGT----------AGATATGGGTATAGTGGGAAC-TTTCCTTGCT----GTTGCTGCCGAC----TTTTTGCTAATTGATTATGC-GGCGACGTTGTGGCCCAAGGAC
sechellia GCGTGGGCGTCGTGT----------AGATATGGGTATAGTGGGAACATTCCCTTGCT----GTTGCTGCCGAC-----TTTTGCTAATTGATTATGCGGGCGACGTTGTGGCCCAAGGAC
yakuba GGGTGGGCGTCGAGTCGATGGGAATAGGGATAGGGATAGTGGGAAC-TTTCCTTGCTGTTGGTTGCTGCCGAC----TTTTTGCTAATTGATTATGC-GGCGACGTTGTGGCCCAAGGAC
erecta GTGTGGGCGTCGAGT------------AGATTGGGATTGTGGGAAC-TTTCCTTGCT----GTTGCTGCCGAC----TTTTTGCTAATTGATTATGC-GGCGACGTTGTGGCCCAAGGAC
ananassae -----------------------------------------------------------------------------TTTTTGCTAATTGATTACCC-GGCGTCTTGGTGGCCCAAGGAC
pseudoobscura -----GGCGTAGCGT---------------------GAGGCAGAAC-TTTCCTTGGC----CCGGC--CTGGCTCCTTTTTTGCTAATTGATTATGC-GGCGACGCTGTGGCCCAAGG--
persimilis -----GGCGTAGCGT---------------------GAGGCAGAAC-TTTCCTTGGC----CCGGC--CTGGCTCCTTTTTTGCTAATTGATTATGC-GGCGACGCTGTGGCCCAAGGAC
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AAGAACC-------AGAACAAGAGCAAGGACACGGAC---------------------TCGAAGAGCCAGGAGGCGCAAGGGGATTGTTTCTGCAAAGGAGGCTAGTTTGGC-GATGGGT
simulans AAGAACC-------AGAACAAGAGCAAGGACACGGAC---------------------TCTAAGGGCCAGGAGGCGCAAGGGGATTGTTTCTGCAAAGGAGGCTAGTTCGGC-GATGGGA
sechellia AAGAAAC-------AGAACAAGAGCAAGGACACGGAC---------------------TCTAAGGGCCAGGAGGCGCAGGGGGATTGTTTCTGCAAAGGAGGCTAGTTCGGC-GATGGGA
yakuba AAGAGCC-------AGAACAAGAGCAAGGACAAGGACTCGAGGAGCAAGGA-------GCCAGGAGCCAGAAGGCGCAATCGGATGGCTCCTGCAAAGGAGACTAGTTCGGT-GATGGCA
erecta AAGAACCAGAGTCAAGAACAAGAGCAGGAGCAAGAGCAGAAGGAGCAAGGACAAGGACTCGAGGAGCCAGGAGGCGCAAGGGTATTGTTCCTGCAAAGGAGCCTGGTTCGGC-GAGGGAA
ananassae AACGGGA-------AGGACTAG-GCGGGGGCA--------------------------GTAGGGAGCCGGGAATCCCACAGGAA------------------------------------
pseudoobscura ----ACA-------AGAACAAGAACAAGGACAAAAGC---------------------TGCAAA---CAGGAGACC------------------------GGCCAGACCGGTAGACAGGG
persimilis AAGAACA-------AGAACAAGAACAAGGACAAAAGC---------------------TGCAAA---CAGGAGACC------------------------GGCCAGACCGGTAGGCAGGG
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ACGGGGCAGGGTGGAACAGCAAGGGGAGGGACTGGGCT-----GGGCAGACGGTCTTCGAGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------CGGTAGCCAAAAGAGCCAAA
simulans ACGGGGGAGGGTGGGACAGCAAGGGGAGGGTCTGGGCT-----GGGCAGACGGTCTTCGAGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------CGGTAGCCAAAAGGGGCAGA
sechellia ACGGGGGAGGGTGGGACAGCAAGGGGAGGGACTGGGCT-----GGGCATACGGTCTTCGAGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------CGGTAGCCAAAAGGGGCAGA
yakuba GCGGAG-AGGGTGGGCCAGCAAGGGGAGGGACTGGGCTGGGTAGGGCAGACGGTCTTCGAGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------CGGTAGCCAAAAGGGCCAGA
erecta AC-----------GGCAAGCAAGGGGAGGGACTGGGCT-----GGGCAGACGGTCTTCCAGTCTAGTTGACTTCAGCGTTGTCATAAATCTT--------CGGTAGCCACAAGGGCCAGA
ananassae -------------GGAAGGAAGGTGGAG---CCGG--------GGGCAGACAGTCTTCAAGTCTAGTTGACTTCAGCGATGTCATAAATCTTGGCCAGACCAAGAGCCTCAAGGAGCAGA
pseudoobscura GCAG--------------GGAAGGGCAGTGGCAGGGAA-----GGGCAGACAGTCTTCAGGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------C----GCCAA------CGGA
persimilis GCAGGGCAGT--------GGCAGGGCAGTGGCAGGGAA-----GGGCAGACAGTCTTCAGGTCTAGTTGACTTCAGCATTGTCATAAATCTT--------C----GCCAA------CGGA
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GGGGCGGA----------GGGAGGAGG---GAGGAGG--------------------GTATCGG----------GACAAGGAGG-----AGACTGCCAGTACGAGACAG-GCTCCT----
simulans GGAGCCAAA---------GGGCGGAGG---GAGGAGG--------------------GAATCGG----------GACAAGGAGG-----AGACTGCCAGTACGAGACAG-GCTCCT----
sechellia GGAGCCAAAG--------GGGCGGAGG---GAGGAGG--------------------GAATCGG----------GACAAGGAGG-----AGACTGCCAGTACGAGACAG-GCTCCT----
yakuba GAAGCCAGAGGAGCCACAAGGGGCAGA---AGGTAGGATGAAGGATGAAGGATGAAGGAGGGGG----------GACAAGGAGGAGGGGGGACTGCCAGCACGAGACAG-GCTCCT----
erecta GGAGCCGCAG--------AGGGGCAGA---GCGAAGG--------TGCCAGGCGGGTGAGGTGG----------G-TGAGGAGG-GAGGAGACTGCCAGCACGAGACAG-GCTCCT----
ananassae GAGGAGGACGGCA-----AGGCGGAGAAACGGAAAGG--------------------GAGGTGGCCATAAGGGCGGCAAGGAAG-GCGGGGCGGGGCAGCACGAGGCCG-GCTCCTTGTT
pseudoobscura GGAGCTACCCG-------AAGGGCGGG---GAAAAGG--------------------------G----------CAGAAGAGAG-TGCTCCTCTGGCAGCACGAGACAGTGCTCCTCCTT
persimilis GGAGCTACCCG-------AGGGGCGGG---GAAAAGG--------------------------G----------CAGAAGAGAG-TGCTCCTCTGGCAGCACGAGACAGTGCTCCTCCTT
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRR
melanogaster ---------------------------------------------CGTTGTTGCCCTGCTTGCCTCAATATAATTGTATCTTCCGTTTCATTACATGTTGCCCAGAAGT-----------
simulans ---------------------------------------------CGTTGTTGCCCTGCTTGCCTCAATATAATTGTATCTTCCGTTTCATTACATGTTGCCCAGAAGT-----------
sechellia ---------------------------------------------CGTTGTTGCCCTGCTTGCCTCAATATAATTGTATCTTCCGTTTCATTACATGTTGCCCAGAAGT-----------
yakuba ---------------------------------------------CGTTGTTGCCCTGCTTGCCTCGATATAATTGTATCTTCCGTTTCATTACATGTTGCCCAGAAGTC----------
erecta ---------------------------------------------TGTTGTTGCCCTGCTCGCCTCAATATAATTGTATCTTCCGTTTCATTACATGTTGCCCAGAAGTC----------
ananassae ---------------GGGCTTCCACTTAGCCAGTGTTGTTGCTTCTGTTGCTGGTCTGGTTGCCTCAATATAATTGTATCTTCCGTTTCATTACATGTTGCCCCAAAGTT----------
pseudoobscura CTCCTTCTCCTTCTACTCCTTCTACT-------------------CCTTGGTGTTGTTGTTGCTTCAATATAATTGTATCTTCCGTTTCATTACATGTTACCCCAGAGAGCCAGAGAGTC
persimilis ---------------CTCCTTCTACT-------------------CCTTGGTGTTGTTGTTGCTTCAATATAATTGTATCTTCCGTTTCATTACATGTTACCCCAGAGAGCCAGAGAGTC
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi -------------------------------------------------------------------ACATAATTGAATCTTCCGTTTCTTCAAATGTGACACA----------------
Summary RRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ----------GCGGCTG--GTACCCTGTAA---------AGCCCAA----CTTGGGCATACTCGATTTTGATGTATTCTAAAATATTTA-------ATAGT----TA-------------
simulans ----------GCGGCTG--GTACCCTGTAA---------AGCCCAA----GTTGGGCATAATCGACTTTTATGTATTCTAAAATATT----------TAGT----TA-------------
sechellia ----------GCGGCTG--GTACCCTGTAA---------AGCCCAA----GTTGGGCATAATCGATTTTTATGTATTCTAAAATATT----------TAGT----TA-------------
yakuba ----------CCAGCCG-CATACCCTGCAA---------GGCCCAA----GTGGGGCATATGCGATTGGTATGTATTTTGAAGTAAT----------TTCT----TA-------------
erecta ----------CCAGCCG-CATACCCTGTGT---------GGCCCGA----GTGGGGCGTATACGATTGCTGTGCATTTTAAAATATT----------TATC----CA-------------
ananassae ---------ACCATTTGCCATACCCTCTAA----------------------------------------------TATAAAATATT---------AGGTT----TA-------------
pseudoobscura CCGGTCCCAGTCAGATG--ATACCCAGTGC--------CAGCCAGGGAGTGTCGGGCATAGGGGATGCGTTTGCTTATCAAAATAATCAATGGGATACAGT----TGGATGAACTTGAAG
persimilis CCGGTCCCAGTCAGAGG--ATACCCAGTGCCAGAGAAGCAGCCAGGGAGTGTCGGGCATAGGGGATGCGTTTGCTTATCAAAATAATCAATGGGATACAGT----TGGATGAGCTTGAAG
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ---------------------------------------------A----ATTAAACCTAGCTTATTTTAGTATATTAGAAAATATA----------TGTTATTATA-------------
grimshawi -----------------------------------------------------------------------------CCAAAACAAA----------TATT----TA-------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -ATATTCC-AATT---GTTTGTA---TT-GTAACAAACTACTTGTTCACTTA-----CGAATAATACTG-ACAAA-------TCAGGAACAAC-------AACTTTTT------------
simulans -ATATTCC-AATT---GTTTGTA---TT-GTAACAAGCTACTTATTCACTTA-----CGAATAATACTG-ACAAA-------TCAGGAACAAC-------AACTTTTT------------
sechellia -ATATTCC-AATT---GTTTGTA---TT-GTAACAAGCTACTTATTCACTTA-----CGAACAATACTG-ACAAA-------TCAGGAACAAC-------AACTTTTT------------
yakuba -ATCTTTC-CAAT---ATTTGCT---TT-------AATTTATAATCTACATT------------TAATG-TCAAT---------------------------CTTTAG-----TGCTTAT
erecta -ATCTTCCAAAAT---ACTTGCA---TT-----CAAATTTATAACCCAAACGAA---CAAACAATACTG-ACAAT-------TCAGGAATATT-------TGCTGTAGAAGAATTTGTAA
ananassae -ATTTTCT-AAATAAGGATGGTA---TTTAAAAAAAAAAACATATTCCTTTGAAAGTCGGTTTTTTTTT-TTAATATATTCTTCGTAAAAAAA-------AACTATAT-----------A
pseudoobscura CACTTTAA-AAGT---GTTTGTT---TC------------TTTGTTTCCTTGGCGTTCTACAAGAATTGAATGAA-------TTGGCGGTCGA-------CACTCCAT----GTCTACAG
persimilis CACTTTAA-AAGT---GTTTGTT---TC------------TTTGTTTCCTAGGCGTTCTACAAGAATTGAATGAA-------TTGGCGGTCGA-------CACTCCAT----ATCTACAG
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis -TTATTTT-AATT---ATTAAATTGATT-GTAACAAA------------TTA---------TAAAATGT-GAGAG-------TCG---------------AAAATTAT----ATATATAT
grimshawi -CAATTTT-GTCT---ATTAGTT---TT-GTAA-----------------TG---------CAGAACTT-AAGAT-------TTATCGACAAACCCTGACAAACTCGA----ATTTCCAA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CTTTTATTTAAGCCCATAACAAATTGTATGTTTATTTGAACAATATTAAAAAAAGTCTT-----AACAATT----TT-TGACACATAGTAAAATATATCTGAAACTCAGAAA
simulans CTTTTATTTAAAC--------------------------------------------------------------------CACTTAGTAGTA-ATATCTGAAACTCAGAAA
sechellia CTTTTATTAAAACCCATACCAAATTGTATGTTTATTTGAAC-----------AAGTCTT-----AAATATC----TT-TTACACATAGTAGTA-ATATCTGAAACTCAGAAA
yakuba CTTTAATTTAATGCTATACCAAATTTCATATTTATTTGAAGATATCTAGAATAAATATTATAGTAACAATA----TT-TTGAACATAGAAGCA-ATATGTGAAATTCCGAAA
erecta CTTCAATTTAAAGGCATGCCGAATTTCATATTTATTTG--------------------------AACAACA-------TTACACATAGTAGCA-ATTTGTGCACTTCCGAAA
ananassae AATTTGTTTGAAAATCTTTTATATTTTAGATTT-TTAGAATATTTTTCAAAAATATTTTA----AACAATAAAGTTT-GTAAAAATAAAAAAATAAATTTTAAATT---AAA
pseudoobscura ATCTCTTTGGAATGTGTATCAAAAT---------TTCCAGGGATTTTCATGATTATATT-----AACACTG----TTAGCAGAGATACAACTA-GTCCCCTAATCTGATTAA
persimilis ATCTCTTTGGAATGTGTATCAAAAT---------TTCCAGGGATTTTCATGATTATATT-----AACACTG----TTAGCAGAGATACAACTA-GTCCCCTAATCTGATTAA
virilis ----------------TAACAATCTGCAAGTTTACTTAAGATATCTTGAAAAAA--A-------AACT------------------------A-ATTTTATA---CAAAAAG
mojavensis ATTTTTTTT---TTTATAATTAAATGC--GCTAAATAAACAAATAGTAATAAAACTC-------AGCT------------------------A-CTCTTGTAAATCAATAAT
grimshawi ATCTTATTTTCCTTTGTAACTAATTTTAAACTAACTGGA---ATTTTGATAATAATT-------GACG--------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRR
hb