melanogaster CTGCAAAACCAGAAA---GGAGGCTCACATTCACTGGCAATATAGCAATCACAGGACATCG-GAGAGATGCGAAC---TGC----AGT-------CT----------CTTCTGTCAAACT
simulans CTCCAAAACCAGAAA---GGAGGCTAACACTCACTGGCAATATAGCAATCAGAGGACATCG-TAGAGATGCGAAC---TGC----AGT-------CT----------CTTCTGTCAAACT
sechellia CTCCAAAACCAGAAA---GGAGGCTAACACTCACTGGCAATATAGCAATCAGAGGACATCG-TAGAGATGCGAAC---TGC----AGT-------CT----------CTTCTGTCAAACT
yakuba CTCTAAAACCGGAAG---GGAGGCTTACATTGACTGGCAATATAGCAATCACAGGACATCG-GAGAGATGCGAGC---TGC----AGT-------AT----------CTTCCTTCAAACT
erecta CTCTAAAACCAGAAA---GGAGGCCCACACTCACTGGCAATATAGCAATCACATT-CATCG-GAGCGATGCGAAC---TGC----AGT-------CT----------CTTCTGTCAAACT
ananassae CTCTAAAACCAGAAACCCGCTGAAATACATCCACTGGCAATGGAA-AATCAAAGGACCTCG-GGGGGAAGAGGACTGTTGC----AGT-------CTGGCGGACTCGCGTCTGTCAAACT
pseudoobscura CTCTAAAACCAGAAA---CCAAGCTCATATCCGTTACCAATAGAGCAATCACAGAACAGTGCGAGGAGAGTGGGC---TGCTCGGGGTCCGATTCCT----------CTACTGTCAAACT
persimilis CTCTAAAACCAGAAA---CCAAGCTCATATCCGTTACCAATAGAGCAATCACAGAACAGTGCGAGGAGAGTGGGC---TGCTCGGGGTCCGATTCCT----------CTACTGTCAAACT
virilis TTTTAAA-----AAA---TTAATAATATATT--TTCCC--CAAGACA----------TGCT-TAGGGATTCAAA-----GC----AGT-------CT----------TGTCAGTCAAACT
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ---------------------------------CTCCCGGTAGGGCAGAAAGTGGGTTGCC-GTGGGTCATGAAT---CGC----AGT-------CG----------CCT--GTCAAACT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GAAAAACGCCATAAATTTTGT-----------------------------GGAACAATGGAATCTGCCA----GAGTAT------------------------------GCGGAT----G
simulans GAAAAACGCCATAAATTTTGT-----------------------------GGAACAATGGAATCTGCCA----GAGGAT------------------------------GCGGAT----G
sechellia GAAAAACGCCATAAATTTTGT-----------------------------GGAACAATGGAATCTGCCA----GAGGAT------------------------------GCGGAT----G
yakuba GAAAAACGCCATAAATTTTGT-----------------------------AGAACAATGGAATC---------------------TTCC-------------------AGTGGAT----G
erecta GAAAAACGCCATAAATTTTGT-----------------------------GGAACAATGGAATCTGCCA----GCGGAT-GCGGATGCC-------------------AGTGGAT----G
ananassae GAAAAACGCCATAAATTTCAA-----------------------------GGAACAATGGATGCTGGCA----GGACATGGGGGATGG---------------------GTTGCT----G
pseudoobscura GAAAAACGCCATAAATTTTGT-----------------------------CCAACAATGGAAGCTGTCGCAATGCACATGGGGGATGGG-------------ATACAGAGCGAATACGAG
persimilis GAAAAACGCCATAAATTTTGT-----------------------------CCAACAATGGAAGCTGTCGCAATGCACATGGGGGATGGGATACA-GAACAGAATACAGAGCGAATACGAG
virilis GAAAAACGCCATAAATTTTGGCCCGGCTGTCACCGAACGTGCGCTCTGCAGCAACAATAACAATGGGAG----AGGTAAAGCAAATGCCGAAGGCGAGCGGAGCTGAGCGTAGCT----T
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi GAAAAACGCCATAAATTCTGGCTCGGCTGTCACCGAACGTGCGCAATGCAACAACAATAGCAATGGCAG----AGGTAAGGCAAA-------------------CTATTGCAGTT----G
Summary BBBBBBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GGGT-AAGG--------------------------------------------------------------------GTAGAATTCGCACAT-----------GCACACATATGTCAGGA
simulans GGGT-AAGG--------------------------------------------------------------------GTAGAATTCGCACAT-----------GCACACATATGTCAGGA
sechellia GGGT-AAGG--------------------------------------------------------------------GTAGAATTCGCACAT-----------GCACACATATGTCAGGA
yakuba GGGT-AAGG--------------------------------------------------------------------GTAGAATTCGCACAT-----------GCACACATATGTCAGGA
erecta GGGT-AAGG--------------------------------------------------------------------GTAGCATTCGCACAT-----------GCACACATATGTCAGGA
ananassae GGGC-AGGG--------------------------------------------------------------------GTAGAATTGGCACATGCAC--AAACGGCACACATATGCCAGG-
pseudoobscura TGGTGGGGG--------------------------------------------------------------------GTTCTATTCGCACATGCACCAAAACTGCACACATATGTCAGGA
persimilis TGGT-GGGG--------------------------------------------------------------------GTTCTATTCGCACATGCACCAAAACTGCACACATATGTCAGGA
virilis GGGC-AGGG------------------------------------------GCATGGGCAG-GGGCCGGGGGTAGCCGCACAATTCGCACATGCAC--AAACTGCACACATATGCCAGTC
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi GGGC-AGGGAGAGAGGAACAGCGAACAGGGTACAGTGAACAGGGACTGGCAACAGAGGCAGAAGGCAGGAGGCAGCCGCACAATTCGCACATGCAC--AAACTGCACACATATGGCAGAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---GTAT---------CGATAT----GT------------TAGGGGT--GTTCAA--------------------CGGGGGTGG------CTAAT-------AAAATTTA----------
simulans ---GTAT---------CGATAT----GT------------TAGGGGT--GTTCAA--------------------CGGGGGTGG------CAAAT-------AAAATTTA----------
sechellia ---GTAT---------CGATAT----GT------------TAGGGGT--GTTAAA--------------------CGGGGGTGG------CTAAT-------AAAATTTA----------
yakuba ---GAAT---------CGATAT----GT------------TAGGGGT--GTTCAA--------------------CGGGGGTGG------CTGAT-------AAAAATTA----------
erecta ---CTAT---------CGATAT----GT------------TAGGGGT--GTTCAA--------------------CGGGGGTGG------CTGAT-------AAAATTTA----------
ananassae ---CTAT---------CGATATGCGAGC------------TAGGGGTGAGCTGAA--------------------CGGGGGTGG------CTGATGCCAAAGAAGCATTT----------
pseudoobscura ---CTACTACTATCGGCGATAT----ATCCAGTCCCGTCCTAGGGGTT-GGAGAA--------------------CGGGGGTGG------CTGCC-------------------------
persimilis ---CTACTACTATCGGCGATAT----ATCCAGTCCCGTCCTAGGGGTT-GGAGAA--------------------CGGGGGTGG------CTGCC-------------------------
virilis ----AAT---------TTATAG----AT---ATCGGTTGATAAGGGT--GCGGAGGGTGGGCCTTAGATCAGAGTCGGGGGTGG------CTGTA-------GCTGCCCCGGCCACTGCC
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi CCAGAAT---------CTATAG----AC---ATCAGTCGATAAGGGT--GCAGAGGGTGGACTTTAGATCAATGTCGGGGGTGGTGGCTTCTGCT-------GATGCTGAGGCTGAGGCT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster --------------TCCAGGCCGCGTAAGCCGATCAG-AAAGTCATGTAAACAC-AAAAGTGGCTGA----------GAGATGATTG-----------------------TTTTTTACCA
simulans --------------TCGAGGCCGCGTAAGCCGATCAG-AAAGTCATGTAAACAC-AAAAGTGGCTGC----------GAAGTGATTG----------------------TTTTTTTACCA
sechellia --------------TCGAGGCCGCGTAAGCCGATCAG-AATGTCATGTAAACAC-AAAAGTGGCTGC----------GAAGTGATTG----------------------TTTTTTTACCA
yakuba --------------TCCAGGCCGCGTAAGCCGATCAG-AAAGTCATGTAATCACCAAAAGTGGCTCA----------GAAGTCATTG-----------------------TTTTTTAGCA
erecta --------------TCCAGGCCGCGTAAGCCGATCAG-AAAGTCATGTAAACACAAAAAGTGGCTTA----------GAAGTGATTG-----------------------TTTTTTAGCA
ananassae --------------TCCA-GCCGCGTAAGCCGATCAG-AAAGTCGTGTAAACACAAAAAGTGGGCGA--------GCGGGACGATTG----------------------CTTTTTTAGCA
pseudoobscura ------------------TGCCACGTAAGCCGATCAG-AAAGTCGTGTAAACACAAAAAGTAGGCGA----------GAATTGCTTGCTGGATATCTATGGGTTATTGTTTTTTTTAGCA
persimilis ------------------TGCCACGTAAGCCGATCAG-AAAGTCGTGTAAACACAAAAAGTAGGCGA----------GAATCGCTTGCTG--TATCTATGGGTTATTGTTTTTTTTAGCA
virilis TGTGCTGGTTGCA-CTGTTGCTGGCTAAGCGGATAAC-AAAGTCGTGTAAA--------------------------------CTCG----------------------CCTTTTGGCCA
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi GCTGCCATCTCCATTTGCTGCTGGGTAAGCGGATAACGAAAGTCGTGTAAACAC-AAAGTTGGCCATTTGGCTGTTAAGTTCGCTCG----------------------CCTTTTGGCCA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GTCAATTTAGCTGAGCTGATTTCA-----GGTTA--TACGCGAACCTAAGATGGAAGTAGATTTTTAGATTACCAGAAATAACCTTCAGTTTCTAAAAGAATGAGAAATAGTAAATCGTG
simulans GTCAATTTAGCTGAGTTAAACCTGAAATCGGTTC--TACGCAAATCTAAGATGGGAGTAGAATTGTAGATTACCAGAAATAACCTTCAGTTTCTAAAAGAATGACGAATAGTATATCGTA
sechellia GTCAATTTAGCTGAGTTAAACCTGAAATCGGTTC--TACGCAAATATAAGATGGGAGTAGAATTGTAGATTACCAGAAATAATA----------------------------ATATCGTA
yakuba GTCAATTATGCTGTGCT------G-----GGTTC--TAAGCAAATTTGATATAGGAATAGATGATTCGAGAACAAGAAAATACCATC-ACTTTTAAAAGAATA-----------------
erecta GTCAATTTAGCTGAGCTGATTTCG-----GGCTC--TACGCAACTCTGAGATAGAAATAGATGTCTAGATTACAAGAAAACAGCTTCTGTTTCTAAGGAAATGAAAAATATGAAATCGTG
ananassae GTCAATTTAGCTGAGCGGCTTTCG-----GGTGC--TGGGCAAACAGAAG----------------------------------------------------------------------
pseudoobscura GTCAATTTAGTTGAGCGGCTTTTG-----GGT----------------------------------------------------------------------------------------
persimilis GTCAATTTAGTTGAGCGGCTTTTG-----GGT----------------------------------------------------------------------------------------
virilis GTCAATTTAGCAGAGCGGCTTACG-----GGTCA--------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi GTCAATTTACTTGAGCGGCTTACG-----GGTCAGCTATGCAAA----------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AAGCCTGTGGCAT-TCTTACCCCTTACTGAAATGAATGTAACAGGTAGAAGGCAGCAATTGCAGTGCTACAAAGTATATATATTCTTGA-------------------------------
simulans AAGTCTGTGGTAT-TTTTACCCGTTAATGAAATGAATGTAACAGGTA-CAGAAAACGATTCCTACGCTACAAAGTATATATATTCTTGA-------------------------------
sechellia AAACCTGTGGTAT-TTTTACCCCTTACT--------------------------------------------------------------------------------------------
yakuba ------------------------------------------------------------------------------------------------------------------------
erecta AAATCCATGGTATATATTAGGCGTTACTGAAATGAATGTAACAGGTAGTAGGAGGCGTTTCCAACGGTATAAACTATATTTATTCTTCATCAGGAGCGCTAGGGTCCGTCTTTTTATGTC
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ----------TCCATATAAGTAT------------AAGTATAAGAGCTATAATGTTATAATTAAACATGAAG--ATCCT----------ACGCTGTGCAAGTTTTGTGCCACAAATTTAA
simulans ----------TCC------------------------GTATAAGAGATATAATGTTGAAATTAAGCTTGCTGCTATGCT----------GTGCTGTGCAAGTTTTGTGCCACACTCTCAC
sechellia --------------------------------------------------------------------------------------------------------------ACACTTTAAG
yakuba ------------------------------------------------------------------------------------------------------------------------
erecta CGTCTGTCTGTCCGTATAAGCGCTGTGATCTCAGGAACTATAAAAGCTAAGGAGTTGAGATAAAGCATGCAG--ATCCTATTGATGCCAACGCTGTGCGAGTTTTTTGCCCCAGTCGAAC
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis -----------------------------------------------------------------------------------------------------------------------A
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBRRRRRRRRRRBBBBBBBBBBBBBBBBRRRRRRRRRRMMMMMMMMMMRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMBBBBBBBBBBB
melanogaster CTCAAGATTACCAC-----TCACAAA-----GGATACATT----------------ACCATTTGGCCATTAAA---AATTA-----CAGCATCC----ATAGA----CAACCTACTT---
simulans GACCGCCTAACCATCTCGCCCACACATTTATAAATGTTTC--GATATATTATTTGTATCATATCGCCATTAAA---AATTA-----TAGCTTCC----CTAGTAAGAAAACGTACTT---
sechellia TAATTGATAACTAG---------ACA-----AGATTTTTC------TTTCTTTTGTACTTTAT---AATTAAG---A--TA-----CCACTT---------------GGTCTCATTT---
yakuba -------------------------------------------------------------------TTTAAA---AATTA-----TAGCTTCT----CTACTTCGACAAGCTACTTCCG
erecta GCCCAAAAAAACAG----TTTACAAA-----ATGTGTTTTCTAAAAAAATATTTAAAA---------ATTAAATATAATTAATAATTAATTTTTAATATTATATCGACAGGCTACTTCCG
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis CCCTTGCCTACAGC----TCAGCACA-----AGGCGGCTC----------------ATCAGGCGGCCATTGAA---CGTTG-----CGCTTGCA-------------------CCTT---
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary RRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -----------AAAATTTATA-AAAACTTGAGGGTTATATCACAGAGTTACCGAAAAAAAGCGTAAAAGCTTTATATTCTCAACAATATTA-----------------------------
simulans -----------AAAATCTATA-AAAACGTGAGGGTTATATCATAAAACTACCGAAAAAAATCATACAAGTTTTATATTCTTAACAATGTTA-----------------------------
sechellia --------------ATCTTTATCACACATTA-GGTTATGTT-------------CAGATGTTTTGCTATTTTTTTTTATT------TGTTC-----------------------------
yakuba AAATACGATTTAAAAGTTATA-AAGATAGGGGGGCTATATCCACCAGCTACCATGAAAAATTGTACAAGTTTTATATTCATAATCATGTTATAATAGGGTTTACGAAAACTTCGGTCTGC
erecta AACTACGATTTAAAATTTATG-AAAACAATAGAGTTTTATCATACAGCTACCATAGAATATAGTACAAGTTTTATATTCATAACAATGTTATAATAAGGTTTACTTAAACTTCGGTCTG-
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis -----------AAAATTGCCA-AAAACATTAAAAAAATACTAAAATATAAACAAAAAAATGCGTGA------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRR
melanogaster --------------------------TGCTATTAAAATATTGCTGGTTTTCTGCTGTTATAGAATCATTTTTAAAAGTATAACGTAAAAAAT-----------------AAAATAAAACT
simulans --------------------------TGCTTTTAAAATG---------TTTTGCTATTATAGAATCATTTTTAAAAGTATAACTCGAAAAAT-----------------AAAATAAAATT
sechellia --------------------------TGGTT-----------------TTTTGCTATTATTGAATCATTTTTAAAAGTATAACTCGAAAAAT-----------------AAAATAAAACT
yakuba CAATCCAAAGATGGACTCCGTTCTTCTACTTTTAAAATGTTGCTGTTTTTTGGCTATTATA-AACTGTTTTTGAAAATATAACGTTAAAAATTATTTGATCAATGTATCAAAGTAAAA-T
erecta ----CAAAAGATGGTTTTAATACTAGTACTTTTAAAATGTTGCTGGTTTTTTGCTATTACG---------TCGATAGATCAGAGTTTAAAGTAA---------------AAAATAAAA-G
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis ------------------------------------------------------------------------------------------------------------------------
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AGTATTCAT---------TTGAAAA--ATC-----AGCGGGCATATAATTTATATCATATTTTTAAAATTTAGGCAAAGGATGTTTGCATAAAGTTTTTACTGTTTACTAGTCATTTTGG
simulans AGTATTAAT---------TTGAAAA--ATC-----AGCGGGCATATAATTTATATAGTATTTTTTAAATTTAGGCAAAGGATGTTTGC-------TGTTACTGTTAACTAGTCAGTTTGG
sechellia AGTATTAAT---------TTGAAAA--ATC-----GGCGGGCATATAATTTATATAATATTTTTTAAATTTAGGCAAAGGATGTTTGC-------TGTTACTGTTAACTAGTCAGTTTGG
yakuba AATATAAGTTAAGTTAAGTTATAAATGATCAGATCAGCTGGCTTTTAAATTACAATACATTTTTT---TTT---AAATTGGTGTTGGCTTAAAGTCTTGATTGTTTACTAGTCATTTGGG
erecta AACATTCGTAGAGT----TTAAAAATGATCGG---AGCGAGCTTTTAAATTGC---------------------CAAAGGAAGTTGGCATAACGTTTTTACAGTTTACTAGTCATGTTGG
ananassae ------------------------------------------------------------------------------------------------------------------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ------------------------------------------------------------------------------------------------------------------------
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis -----------------------------------------------------------------------------------------------------------CCAGTCAATTTGG
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AAGTGCGTTTGTTGGTTTTTAGGCAAATA---------------CCGGGCACAG-GAGTGAGTTTGGGAAT-----CGGGAGTTGC-GCACTTGCTT-GGCCACG------------AGG
simulans AAGTGCGTTTGTTGGTTTTTAGGCAAATA---------------ACGGGCACAG-GAGTGAGTTTGGGAAT-----CGGGAGTTGC-GCACTTGCTT-GGCCACG------------AGG
sechellia AAGTGCGTTTGTTGGTTTTTAGGCAAATA---------------ACGGGCACAG-GAGTGAGTTTGGGAAT-----CGGGAGTTGC-GCACTTGCTT-GCCCACG------------AGG
yakuba AAGTGCGTCTGTTGGTTTTTAGGCAAATA---------------CCGGGCACAG-GAGTGAGTTTGGAAAC-----CGGGAGTTGC-GCACTTGCTT-GGCCACG------------AGG
erecta AAGTGCGCCTCCTGGTTTTTAGGCAAATA---------------CCAGGCACGG-GAGTGAGTTTGGGACT-----CGGGAGTTGC-GCACTTGCTT-GGCCACG------------AGG
ananassae --------------------------------------------CCGGGAGGAGTGAGTGAGCTGAGGAGCGGGAGCGGGAGTTGC-GCACTTGC-T-GGCCACG------------AGG
pseudoobscura ------------------CTATGCAAATACAAGTGCTTCAAAATGGGAGGAGAG-GAGTGCGATGCGGAGG--GAGAGGCAGTTCCGGCACTTGCTT-GGCCACG------------AGA
persimilis ------------------CTATGCAAATACAAGTGCTTCAAAATGGGAGGAGAG-GAGTGCGATGCGGAGG--GAGAGGCAGTTCCGGCACTTGCTT-GGCCACG------------AGA
virilis ------------------CTATGCAAATA------------------TGCGCAA-GAG--TCCTCGAGG------------------GCACTTGCCCAGGCCGCAAGGAAACCCTCGCGA
mojavensis CTGAGCGGCTTACGGGTCCTATGCAAATA------------------TGCGCAA-GAGTCTCTTTCGGG------------------GCACTTGCCCAGGCCGCAGGAAAACCCTCGCGA
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GCAAACAAAAAGCGCAAACACGCGACCC---------TCGGC-------CACGCGTATTCCTGATCC-----------------------CAGGGATCGGACGTAATGTTATCCTTT---
simulans GCAAACAAAAAGCGCAAACACGCGACCC---------TCGGC-------CACGCGTAGTCCTGGTCC-----------------------CAGGGATCGGACGTAATGTTATCCTTT---
sechellia GCAAACAAAAAGCGCAAACACGCGACCC---------TCGGC-------CACGCGTAGTCCTGGTCC-----------------------CAGGGATCGGACGTAATGTTATCCTTT---
yakuba GCAAACAAAAAGCGCAAACACGCGACCC---------TCGGC-------CACGCGTAGTCCTGGTCC-----------------------CA-GGATCGGACGTAATGTTATCCTTT---
erecta GCAAACAAAAAGCGCAAACACGCGACCC---------TCGGC-------CACGCGTAGTCCTGGTCC-----------------------CAGGGATCGGACGTAATGTTATCCTTT---
ananassae GCAAACAAAAAGCGCAAACACGCGACCC---------TCG---------CACGCGCAATCGCCATCC-----------------------TCGGGATCGGACGCAATGTTATCCTTTTTG
pseudoobscura GCAAACAAAAAGCGCAAACACGCGACCC---------CTGACCAAGAAGCACGCGCAATCCTCATCCG------CAGTCCTGG-----CGTAAGGAT-AAACGTAATGTTATCCTTTT--
persimilis ACAAACAAAAAGCGCAAACACGCGACCC---------CTGGCCAAGGAGCACGCGCAATCCTCATCCG------CAGTCCTGG-----CGTAAGGAT-AAACGTAATGTTATCCTTTT--
virilis GCAAACAAAAAGCGC-AACACGCGACGCAACAAAGGATC-AC-------TGAAGATGGCAACGGGCTGCCAGAATGGGATTGGAAATGGGTAAGGAGCACGCGCAATATTATCCTTT---
mojavensis GCAAACAAAAAGCGC-AACACGCGACGCAACAAAGGATCTGC-------TTCGAATG-----GGTCTG--AGAATGGGAATGG-AATGGGTAAGAAGCACGCGCAATATTATCCTTT---
grimshawi ------------------------------------------------------------------------------------------------------------------------
Summary BBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---GGCCGCCC---------------AGTGCCACGAAATAAATTCGG-----AGGGAAAGGGC---ATCGGGTTCCGGGAACAACTGGCAGCCAGTCTT----------CGGT-----GT
simulans ---GGCCGCCC---------------AGTGCCGCGAAATAAATTCGG-----AGGGAAAGGGC---AGCGGATTCCGGGAACAACTGGCAACCAGTCTT----------CGGT-----GT
sechellia ---GGCCGCCC---------------AGTGCCGCGAAATAAATTCGG-----AGGGAAAGGGC---AGCGGATTCCGGGAACAACTGGCAACCAGTCTT----------CGGT-----GT
yakuba ---GGCCG-CC---------------AGTGCCACGAAATGAATTCGG-----CGGGAAAGGGC---AACGGATTCCGGGAACAACTGCCACCCAGTCCT----------CGGT-----GT
erecta ---GGCCG-CC---------------AGTGCCGCGAAATAAATTCGG-----AGGGAAAGGGC---AGCGGATTCCGGGAACAACTGGCAGCCAGTCCT----------CGGT-----GT
ananassae GGCGGACG-AC---------------GGAGCCGCGAAATAAATTCGT-----AGGGAAAGGGC-----CCGATTCCGGGAACAACTGGCAGCCAGTCCT--------GACAGA-----AT
pseudoobscura ---GGCAGCCCATTCCA----GGACGAGGCCCGAGGAATCGATGCCG-----AATCGATGCG------TGGATTCCGAGAACAACTGGCATCAGCTTCC----------CGGTTCAGAGC
persimilis ---GGCAGCCCATTCCA----GGACGAGGCCCGAGGAATCGATGCCG-----AATCGATGCG------TGGATTCCGAGAACAACTGGCATCAGCTTCC----------CGGTTCAGAGC
virilis ---CACAG-CCTTCCCGCCCTTGCCTTGATACACGTAACCAGTTCCAACTCTACTCTAAGGCTTCTATCAGATTCCTAGAACGAATGGCAGCAGCTTCG----------CTAC-----GT
mojavensis ---CGCAG-CCTTTGCGCCTTCTGCTTGATATACGCAACCAGTTGAA-----AGTCCAGGGCT--AATCAGATTCCTGGAACAACTGGCAGCAGCTTCG-----CTTCCCTTC-----AT
grimshawi ----------------------------------------------------------------------GATTCCTGGAACCTCTGGCAGCAGCTTCGGTACGATTCCCTTC-----AT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TTTGCGCGCTGGCAAAAATCCAGAGAAATTTTTAGG------------GA--------------------ACCATAAA-C--GGGCC--GGGGAAAAAGCCT-CTGCCCCGAAGGAACGT
simulans TTTGCGCGCTGGCAAAAATCCAGAGAAATTTTTAGG------------GA--------------------ACCATAAA-C--GGGCC---GGGAAAAAGCCT-CTGCGCCGAAGGAACGT
sechellia TTTGCGCGCTGGCAAAAATCCAGAGAAATTTTTAGG------------GA--------------------ACCATAAA-C--GGGCC--GGGGAAAAAGCCT-CTGCGCCGAAGGAACGT
yakuba TTTGCGCGCTGGCAAAAATCCAGATAAATTTTTAGG------------GA--------------------ACCATAAA-C--GGGTC--GGGGAAACAGCCT-CTGCGCCGAAGAAACGT
erecta TTTGCGCGCTGGCAAAAATCCAGATAAATTTTTAGG------------GA--------------------ACCATAAA-C--GGGTC--GGGGAAAAAGCCT-CTGCGCCGAAGGAACGT
ananassae CTT-CG-GTTGGCAAAAATCCAGAGAAATTTTTAGG------------GA--------------------ATCATAAA-C--GGGGC--AGGGAAAAAGCCT-TT-TGTCGAAGGATCG-
pseudoobscura TCCGCGCTATGGAAAAAATCCAGAGAAATTTTTACGAAGGGCCAGAACGA--------------------ACCATAAATC--GGGTCTAAGGGAAAAAGCCCATTGTTCGGACAGAG---
persimilis TCCGCGCTATGGAAAAAATCCAGAGAAATTTTTACGAAGGGCCAGAACGA--------------------ACCATAAATC--GGGTCTAAGGGAAAAAGCCCATTGTTCGGACAGAG---
virilis TGCAGG-------------CCGGAGAAATTTTTACG------------AATTTGCTGCTGCCGCGCGGCGACAATAAA-C--GGGCCAAAAGGAAAAGCCTT-TTGTGCCAAC----CGT
mojavensis TGCCGG-------------CCGGAGAAATTTTGACG------------AATTTGCTGCTGCTGC-------TGCTAAA-C--GGG-CAAAAGGAAAAGCCTT-TTGTGCCAAC----CGT
grimshawi TTCGGG-------------CCAGAGAAATTTTTACG------------AATTTGTTGCTGCCGGCCTGTGACAATAAA-CCAGGGCCAGAAGGAAAAGCCTT-TTGTGCCAAA----CCG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRBBRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TTTCAGCAAC------A--GTT---------------------TACAG----------TTTTTATGTCTTTATGATTATTGCAATT----------AGAGGGAGATCGGCTGAG------
simulans TTTCAGCAAC------A--GTT---------------------TACAG----------TTTTTATGTCTTTATGATTATTGCAATT----------AGAGGGAGATCGGCTGAG------
sechellia TTTCAGCAAC------A--GTT---------------------TACAG----------TTTTTATGTCTTTATGATTATTGCAATT----------AGAGGGAGATCGGCTGAG------
yakuba TTTCATCAAC------A--GTTTACAGTTTACAGTTTACAGTATACAG----------TTTTTATGTCTTTATGATTATTGCAATTAGAGAGAGAGAGAGAGAGATCGGCTGAG------
erecta TTTCAGCAAC------A--GTT---------------------TACAG----------TTTTTATGTTTTTATGATTATTGCAATT----------AGAGGGAGATCGGCCGAG------
ananassae TTTCAGCAAC------A--GTTTACCGCTTACCGTTTGCAGTTTACAG------TTCCTTTTTATGTCTTTATGATTATTGCAATT----------AGAGTGGGA------GGG------
pseudoobscura TTTCAGCAAC------ACGGTT---------------------TACAG------TTCCTTTTTATGTCTTTATGATTATTGCAATT----------AGAGAGAGGAATGC-GAA------
persimilis TTTCAGCAAC------ACGGTT---------------------TACAG------TTCCTTTTTATGTCTTTATGATTATTGCAATT----------AGAGAGAGGAATGC-GAAAGCAGC
virilis TTTAGCAAAC---------GTT---------------------TACAGTTTACAGTTCTGTTTATGTCTTTATGATTATTGCAATT----------AGAAGAAAGCAG---CAA------
mojavensis TTTTAGCAACGTTTACA--GTT---------------------TACAGTTTACAGTTCTGTTTATGTCTTTATGATTATTGCAATT----------AGAGGAAAGCAG---CGA------
grimshawi TTTTAGCAAC---------GTT---------------------TACAGTTTACAGTTCTGTTTATGTCTTTATGATTATTGCAATT----------AGAGGAATGCAG---CAA------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---AGTCG-------------CGCCCTCTCGCT---------CTGC-----GCACC----------T----CATAGGTAGGCACCTCAT------------GGCCGTAATTA--------
simulans ---AGTCG-------------CGCCCTCTCGCT---------CTGC-----GCACC----------T----CATAGGTAGGCACCTCAT------------GGCCGTAATTA--------
sechellia ---AGT---------------CGCCCTCTCGCT---------CTGC-----GCACC----------T----CATAGGTAGGCACCTCAT------------GGCCGTAATTA--------
yakuba ---AGTCG-------------CGCCCTCTCGCT---------CTGC-----GCACC----------T----CATAGGTAGGCACCTCAT------------GGCCGTAATTA--------
erecta ---AGTCG-------------CGCCATCTCGCT---------CTGT-----GCACC----------T----CATAGGTAGGCACCTCAT------------GGCCGTAATTA--------
ananassae ---AAGCTC--------CGTCCGCCGTCCCGCTCGCAGCTCGCTGCTCGCAGCACC----------T----CATGGGTAGACATCTCAT------------GGACGTAATTA--------
pseudoobscura ---AGCAGCATCAGCAGCAGCCGCCGTCCCGCT---------C-GC-----CCACCCATCCA---TC----CATCCTCATCTGCCTCATCTACCTATCGACGGCTGTAATTACGAGACAA
persimilis AGCAGCAGCATCAGCAGCAGCCGCCGTCCCGCT---------C-GC-----CCACCCATCCA---TC----CATCCTCATCTGCCTCATCTACCTATCGACGGCTGTAATTACGAGACAA
virilis ---AACATC------------AGCCATCCCGCT---------C-AC-----CCACCTACCCGAGGCT-CGACTTAATTACGCGCCCGTG------------GGACGTC------------
mojavensis ---ACCAGC------------CGCTGTCCCGCT---------C-GC-----CCACCTACCCGAGGCT-CGACTTAATTACGCGCCTGTG------------GGACGTC------------
grimshawi ---AGCAGT------------CGCCATCCCGCT---------C-GC-----GCACCTACAAACGTATGCGACTTAATTACGCGCCTGTG------------GGACGTC------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ----CTGC--------AGCACCGTCTCAAGGTCGCC-----GA----------------------GTAGGAGAAGCG------CGC--------------------------GGG--CGG
simulans ----CTGC--------AGCAGCGTCTCAAGGCCGCC-----GA----------------------GTAGGAGAAGTG------CGC--------------------------GGG--CGG
sechellia ----CTGC--------AGCAGGGTCTCAAGGCCGCC-----GA----------------------GTAGGAGAAGTG------CGC--------------------------GGG--CGG
yakuba ----CTGC--------AGCAGCGTCTCAAGGTCGCC-----GA----------------------GGAGGAGAAGTG------CGC--------------------------GGG--TGG
erecta ----CTGC--------AGCAGCGTCTCAAGGTCGCC-----GA----------------------GGAGGAGAAGTG------CGC--------------------------GGG--TGG
ananassae ----CTGG--------ACCAGCGTCTCAAGGACGC--------------------------------AGGGGAAATTCTCAGCCTC--------------------------GGC--CGG
pseudoobscura GGTCCTGCGCACG---ACAAGCGTCTCAAGGCTCTC-----AAGGCTGGAACCGATCGGATCTCTGGAGGGGAAATG------CTCTCTCGGCTGTCGGCTCTCGTCTCTCGGTC--CGG
persimilis GGTCCTGCGCACG---ACAAGCGTCTCAAGGCTCTC-----AAGGCTGGAACCGATCGGATCTCTGGAGGGGAAATG------CTCTCTCGGCTGTCGGCTCTCGTCGCTCGGTC--CGG
virilis ----CTGCGCACGTCTCAAGGCAACTCAAGGACACGGCCC-GC----------------------GCAGGGGAAATG------CTC--------------------------GAGCACGG
mojavensis ----CAGCGCACGTCTCAAGGCATCTCAAGGACGCGGCTCGGC----------------------GCAGGGGAAATG------CT--------------------------------CGG
grimshawi ----CTGCGCACGTCTCAAGCCGACTCAAGGACACCGTTG-TC----------------------GTAGGAGAAATA------CGC--------------------------CGA--CGG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ATAAA--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-CGCGCAGCAGGTAGGCA---------------------CCG------------TA--------
simulans ATAAA--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-CGCGCAGCAGGTAGGCC---------------------CCG------------TA--------
sechellia ATAAA--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-CGCGCAGCAGGTAGGCT---------------------CCG------------TA--------
yakuba ATAAG--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-CACGCAGCAGGTAGGCT---------------------CCG------------TA--------
erecta ATAAA--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGT-CGCGCAGCAGGTAGGCC---------------------CCG------------TA--------
ananassae ATAAC--------------TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-AGCACAGCAGGTAGGCT---------------------CCG------------AA--------
pseudoobscura ATAAGTTTTTG--AACGCTTCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-AGCACAGCAGGTAGGCT---------------------CCT------------CAG-------
persimilis ATAAGTTTTTG--AACGCTTCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-AGCACAGCAGGTAGGCT---------------------CCT------------CAG-------
virilis ATAACTTGCTGC-AAC---TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-TGCGCAGCAGGTAGGCC---------GGCCATGAGAATTCG-----------CCACTCGGT--
mojavensis ATAACTTGCAGCAAAC---TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGCAGGCGCAGCAGGTAGGCCAA-GGTAGAGACGAATAGCGCTCG------------CACTGTGC--
grimshawi ATAAGTTTCGCC-AAC---TCGCGATGATAATGGGCGCGATGGGTAGGTAATAAGC-AGCGCAGCAGGTAAGCAAGCTATGAGGACGACTCCTGCTCGATGTGACTCTCTCACTCTCTCT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -----------CGGAT-AAA-GTT------GCCAGGACCT-----CGGATAACT---TCC----------------CCTCTCCGT-------------GCC--------TGCAAGGACAT
simulans -----------CGGAT-AAA-GTT------GCCAGGACCT-----CGGATAAGT---TCC----------------CCTCTCCGT-------------GCC--------TGCAAGGACA-
sechellia -----------CGGAT-AAA-GTT------GCCAGGACCT-----CGGATAACT---TCC----------------CCTCTCCGT-------------GCC--------TGCAAGGACAT
yakuba -----------CGGAT-AAA-GTT------GCCAGGACCT-----CGGATAACT---TCC----------------CCTCTCCTT-------------GCC--------TGCAAGGCCAT
erecta -----------CGGAT-AAA-GTG------GCCAGGACCT-----CGGATAATT---TCC----------------CCTCTCCGT-------------GCC--------TGCAAGGACGT
ananassae -----------CGGAT-AAC-TCG------GCGAGTCCTC-----CGGATAACT---TCC----------------CCTCTCGCT-------------GCC--------TGCAAGGACAT
pseudoobscura -----------CGGAT-AA------------CTTGCACTCCCGAACGGATAAAC---TCTGCTCTGTACT--GCTACCCCTCTGTCGCAGCCATAAACGCC--------GGCAAGGACAC
persimilis -----------CGGAT-AA------------CTTGCACTCCCGAACGGATAAAC---TCTGCTCTGTACT--GCTACCCCTCTGTCGCAGCCATAAACGCC--------GGCAAGGACAC
virilis -----------CGGATAAAACGTT------GCCCGGC--------CGGATAAGC---GCT----------GCCCTACCCCTGCCA-------------GCAATAAATCTGGCTAGGTCCT
mojavensis -----------CGGAT-AAACGTTCGTTTGGCCGGGC--------CGGATAAAC---TGC----------GCGCTACCCCTGCGA-------------GCCATAAATCTGGCAAGGTCCT
grimshawi CTCGCTCTGAGCGGAT-AACTG--------GACTGG---------CGGATAAACGTTGCT----------GCACTACCCCTGCAA-------------GCAATAAATCTGGCAAGGTCCT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TTCGCC----------------GGAGGGGTGGCT---GCGAACAGCAGGCGGCAAAGTGTCATGCGCAGGGATATTTATGCGCTATAAC--GGCGAGCGTGTGCCGAGG-----------
simulans TTCGCC----------------GGAGGGGTGGCT---GCGAACAGCAGGCGGCAAAGTGTCATGCGCAGGGATATTTATGCGCTATAAC--GGCGAGCGTGTGCCGAGG-----------
sechellia TTCACC----------------GGAGGGGTGGCT---GCGAACAGCAGGCGGCAAAGTGTCATGCGCAGGGATATTTATGCGCTATAAC--GGCGAGCGTGTGCCGAGG-----------
yakuba TTCCCC----------------AGAGGGGTGGCT---GCGAACAGCAGGCGGCAAAGTGTCATGCGCAGGGATATTTATGCGCTATAAC--GGCGAGCGTGTGCCGAGA-----------
erecta TTCCCC----------------GGAGGGGTGGCT---GCGAACAGCAGGCGGCAAAGTGTCATGCGCAGGGATATTTATGCGCTATAAC--GGCGAGCGTGTGCCGAGA-----------
ananassae TTCGCA---------------GGGAGGGGTGGTT----CGAACAGCAGGCGGCAAAGCGTCATGCGCAGGGATATTTATGCGCTATGAC--GAGCAGCGTGTGCCGTGC-----------
pseudoobscura GGCCCAGTGAGGCCGAGGCCGGGGAGGGGTAGTTCTCGGGCCCAGCATGTGTCAAAGTGTCATGCGCAGGGATATTTATGCGCTATGAC--GACGAGCGTGTGCCGGGC-----------
persimilis GGCCCAGTGAGGCCGAGGCCGGGGAGGGGTAGTTCTCGGGCCCAGCATGTGTCAAAGTGTCATGCGCAGGGATATTTATGCGCTATGAC--GACGAGCGTGTGCCGGGC-----------
virilis GG--CC----------------GGAGGGGTAGTA----CGCGCAGCATGTGTCAAAGTGTCATGCGCAGGGATATTTATGCGCTATGACGAGGAGCGCGTGTGCCGTTCGCAGTCCGCAG
mojavensis GG---C----------------GGAGGGGTAGGG----CGCGCAGCATGTGTCAAAGTGTCATGCGCAGGGATATTTATGCGCTATGAC---GAGCGCGTGTGCCAAAC---ATCAGCA-
grimshawi GG----------------------AGGGGTAGTG----AGCGCAGCATGTGTCAAAGCGTCATGCGCAGGGATATTTATGCGCTATGAC---GAGCGCGTGTGCCGTGC---ATCAGT--
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ------GCTC--TCTG----------------ATTTTG-----CTATA-T--ATGCAGGATCTGCCGCAGGACCAGCTCATTCGCAAACTCACCAGCGTTGCGTGCACATCG--------
simulans ------GCTC--TCTG----------------ATTTTG-----CTATA-T--ATGCAGGATCTGCCTCAGGACCAGCTCATTCGCAAACTCACAAGCGTTGCGTGCACATCG--------
sechellia ------GCTC--TCTG----------------ATTTTG-----CTATA-T--ATGCAGGATCTGCCGCAGGACCAGCTCATTCGCAAACTCACCAGCGTTGCGTGCACATCG--------
yakuba ------GCCC--TCTG----------------ATTTTG-----CTATA-T--ATGCAGGATCTGTCGCAGGACCAGCACATTCGCAAACTCACCAGCGTTGCGTGCACATCG--------
erecta ------GCTC--TGTG----------------ATTTTG-----CTATA-T--ATGCAGGATCTGTCGCAGGACCAGCTCATTCGCAAACTCACCAGCGTTGCGTGCACATCG--------
ananassae ------CTCG--CAGG----------------ACTTTG-----CTATA-T--ATGCAGGATCTGCCGCAGGACCAGCTCATTCGCAAACTCACCAGCGACGCGTTCACATCG--------
pseudoobscura ------ATCA--GTGGAAGCTGAGTTCAGTTCAGTTTG-----CTATATT--AGGCAGGATCTGTGGCAGGAGTAGCTCATTCGCAAACGCATCAGCGTCGCGCACACATCGCAC---TC
persimilis ------ATCA--GTGGAAGCTGAGTTCAGTTCAGTTTG-----CTATATT--AGGCAGGATCTGTGGCAGGAGTAGCTCATTCGCAAACGCATCAGCGTCGCGCACACATCGCAC---TC
virilis TCCGCAGTTC--CACG----------------ACTCTGC----CTATA-TTAAGGCAGGATCAGAGAGCATAGCAGCTCATTCGCAAACGCAGCAGCGCCGCGCAAACATCGTTCATTCC
mojavensis -TCGCAGCTCGACTCG----------------ACTCGGCTCGGCTATA-TTAAGGCAGGATCACGGGGCTGAGCAGCTCATTCGCAAACGCAGCAGCGTCGCGCACACATCGTTCATTTC
grimshawi -TCGCAGTTC--GACG----------------CTTAGG-----CTATA-TTAAGGCAGGATCAGGGGATAGAGCAGCTCATTCGCAAACGCAGCAGCGTCGCGCACACATCGCACACATC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ---CAG--------AG--------TTAGAGAAGAAATCTAGCAATAC--ACAT--CCGATATGGCCACCACAAACAGCCAGAGCCACTACAGCTA---CGCCGACAACATGAACATGTAC
simulans ---CAG--------AG--------TTAGAGAAGAAATCTAGCAATAC--ACAT--CCGATATGGCCACCACAAACAGCCAGAGCCACTACAGCTA---CGCCGACAACATGAACATGTAC
sechellia ---CAG--------AG--------TTAGAGAAGAAATCTAGCAATAC--ACAT--CCGATATGGCCACCACAAACAGCCAGAGCCACTACAGCTA---CGCCGACAACATGAACATGTAC
yakuba ---CAG--------AG--------TTAGAGAAGCAATCTAGCAATAC--ACAT--CCGAGATGGCCACCACAAACAGCCAGAGCCACTACAGCTA---CGCCGACAACATGAACATGTAC
erecta ---CAG--------AG--------TTAGAGAACAATTCTAGCAACAC--ACAT--CCGAGATGGCCACCACAAACAGCCAGAGCCACTACAGCTA---CGCCGACAACATGAACATGTAC
ananassae ---CAG--------AGGTTGCAGTTCAAAGACGAAAAGT-GCATCAT--ACATCACAGACATGGCCGCCA---------ACAGCCACTACAACTACTCCGCCGAGAACATGAACATGTAC
pseudoobscura TCTCAG--------AG--------C---AGAAGAACCAGAACAGAGT--CCAC--CAGCCATGGCCACCACCAACAGTCAGAGCCACTATTA------CGCTGATA------ACATGTAC
persimilis TCTCAG--------AG--------C---AGAAGAACCAGAACAGAGT--CCAC--CAGCCATGGCCACCACATGTCGCCACATCAGCTCCAG------CATCAGCACC---CCCATGCGC
virilis GCTCAG--------AG-----------------------GACATAAGACACAG--ACACAATGGCAGCCACCAATACGCACAGCCACAGCTACTA---TGCTGACA------GCATGTAC
mojavensis GTTCAC--------AG-----------------------GACAACAG--ACAG--ACGCAATGGCAGCCACCAACACACA---------CTACTA---TGCCGACA------GCATGTAC
grimshawi ACTTACGTACAGCAAG-----------------------GACTCGAC--ACAG--ACGCAATGGCAGCCACGAATACGCACAGCCATAGTTACTA---TGCCGACA------GCATGTAC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AACATGTATCACC---------CCCACAGCCTGCCGCC----------CA------CCTACTACGATAATTCAG------GCAGCAATGCCTACTATCAGAA------------------
simulans AACATGTATCACC---------CCCACAGCCTGCCGCC----------CA------CCTACTATGATAATTCAG------GCAGCAACGCCTACTATCAGAA------------------
sechellia AACATGTATCACC---------CCCACAGCCTGCCGCC----------CA------CCTACTATGATAATTCGG------GTAGCAACGCCTACTATCAGAA------------------
yakuba AACATGTATCACC---------CCCACAGTCTGCCGCC----------CACTACGCCTTACTACGAGAACTCAG------GCTGCAACACCTACTATCAGAA------------------
erecta AACATGTATCACC---------CCCACAGTCTGCCACC----------CA------CCTACTACGATAATTCAG------GCAGCAACACCTACTACCAGAA------------------
ananassae AACATGTACCACC---------ACCACAGCCTGCCTCC----------CA------CCTACTACGACAACGCCT------CCGGCAACGGCTACTACCAGGC------------------
pseudoobscura AACATGTATCACCATCACACCGCCCACAGCCTGCCGCC----------CA------CGTACTATGA------------------CAACAGCTACTACCAGAGTGCCACACAGAGTACTGC
persimilis ATCA-GCACCAGCAT--CCTCATCCACA-TCTATCGCCGGCCCAGCAGCA------TGTTCTGCAC------------------CAGCACCTCCT-------------------------
virilis AACATGTACCATC------------ACGCCCTGCCACC----------CA------CATACTACGATAACACCAGCAGCGGCAGCAGCAGCTATTACCAGAG------------------
mojavensis AACATGTACCACC------------ATGCCCTGCCACC----------CA------CATACTACGACAACACGAGCA---GCAGCAGCAGCTACTACCAGAG------------------
grimshawi AACATGTACCACC------------ATGGCCTGCCGCC----------CA------CCTACTACGATAATA---------GCAACAGCTACTACCAGCAGAG------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ----CACCTCC-----------------AAT---------------TATCAG---GGCTACTATC---------------C---------CCAGGAGAGTTACTCGGAGAGCTGCTACTA
simulans ----CAGCTCC-----------------ACTTACCA------GAGCTATCAG---GGCTACTATC---------------C---------CCAGGAGAGTTACTCGGAGAGCTGCTACTA
sechellia ----CAGCTCC-----------------ACTTACCA------GAGCTATCAG---GGCTACTATC---------------C---------CCAGGAGAGTTACTCGGAGAGCTGCTACTA
yakuba ----CAGCTCC-----------------ACTTACCA------GAGCTATCAG---GGCTACTATC---------------C---------CCAGGAGAGTTACTCGGAGAGCTGCTACTA
erecta ----CAGCTCC-----------------ACCTACCA------GAGCTATCAA---GGCTACTATC---------------C---------CCAGGAGAGTTACTCGGAGACATGCTACTA
ananassae ----CAGCTCC-----------------AGCTATCA------GAGCTACCAG---GGCTACTATC---------------C---------CCAGGAGAACTACTCGGAGAACTGCTACTA
pseudoobscura CAGCCAGTGGC-----------------AGCCATCG-CCAGCCAGCTATCAG---AGCAACTACGGAGCAGCCTATGGAGT---------CCAGGAGAGCTACTCGGACAGTTGCTACTA
persimilis CATGCAGCAGC-----------------AGGGCACA-CCCAAGACCCACCAG---GACATCCATG--------------------------------------------ACCTGCTGCAA
virilis ----CAACTCCATGGCTTCC--ACAGCCAGCTGGCAGCCGGCGAACTACCAGGCCGGCAGCTACG---------------TGCAGTACGGCCCGGAGAGCTACAGCGAGAGCTGCTACTA
mojavensis ----CAAC---------------CAG--AGCTGGCAGCCGGCGAGCTATCAGCCCAGCAGCTACG---------------CCCACTACAGCCAGGAGAGCTACAGTGAGAGCTGCTACTA
grimshawi ----CAACTCCACCTCCTCCTGCTCG--AGTTG---GCCGACGAGCTACCAGCCCAGCAGCTATG---------------CACAGTACGGCCAGGAGAGCTACGGCGAGAGTTGCTACTA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster C----------TACAACAATCAG------------GAGC----AGGTG-------ACCAC-----------------------------CCAGACT--------GT---ACC--------
simulans C----------TACAACAACCAG------------GAGC----AGATG-------ACCAC-----------------------------CCATACT--------GT---ACC--------
sechellia C----------TACAACAACCAA------------GAGC----AGGTG-------ACCAC-----------------------------CCAGACT--------GT---ACC--------
yakuba C----------TACAACAACCAG------------GAGC----AGGTGACC----ACCAC-----------------------------CCAGACT--------GTCCCACC--------
erecta C----------TACAACAACCAG------------GAGC----AG----------ACCAC-----------------------------CCAGACC--------GT---GCC--------
ananassae C----------TATGGCCAGCAG------------GAAC----AGGTGCCCCA--AGTGC-----------------------------CCGAGGT--------GC---CCC--------
pseudoobscura CGCC-------CAGAGCAGCTAC------------AGTCCCATAGATGCCACAGTTCCACAG-------------------------ATTCCAGCG--------GT---GCC------AG
persimilis CGCCTGCACCACAACGCGGCCGT------------GGCC-----AGCGGCATGAGTCCGC-----------------------------TCCAGAC--------AC---GTC--------
virilis C----------GCCAACTAC---------------CAGC----AGACTACCCT--GCCACAG---------------------------CCCGAACCCGCTGCAGT---GCCTCAGTACC
mojavensis T----------GCCAACTACCATCATCAGCAGCAACAGC----AGACACAGCA--GCCACAGCAGCAGCAGCCATTGTGCCTACCCGCTCTCGATGCA------GT---GCCTCAGTACC
grimshawi C----------TCCAACTACCAGCACCAG------CACC----AGCTCCAGCA--GCAACAGCAGCAGCAGACAATGACAATGCCTGCTCCAGCTGCA------CT---GCCTCATTACC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ----GCCCGT-------------------------------GCAACC----------CACCACCCCGCCGCCCAA---GGCCACCAAGCGCAAGGCCGAAGATGATGCTGCTTCCATCAT
simulans ----GCCCGT-------------------------------GCAACC----------CACCACCCCGCCGCCCAA---AGCCACCAAGCGTAAGGCCGAAGAAGATGCTGCTTCCATCAT
sechellia ----GCCCCT-------------------------------GCAACC----------CACCACCCCGCCGCCCAA---GGCCACCAAGCGTAAGGCGGAAGAAGATGCTGCCTCCATCAT
yakuba ----GCCCGT-------------------------------GCAAAC----------CACCACCCCGCTGCCCAA---GGCCGCCAAGCGTAAGGCCGAAGAAGACGCCGCCTCCATAAT
erecta ----GCCCGT-------------------------------GCAACC----------CACCACCCCGCCGCCCAA---GACCACCAAGCGTAAGGCCGAAGAGGATGCTGCTTCCATCAT
ananassae AGGTAACCCA-------------------------------ACAGCC----------CGCCACCCCTCCGCCCAA---GGCCGCCAAGCGCAAGGCCGAAGAAGATGCCGCCTCCATCAT
pseudoobscura CGATGCCTGA-------------------------------GCCCAT----------CCTTGCCGCCTCTCCCGTGAAGACGCGGAAGCGCAAGGCCGAAGATGCTGCCGCT---GTCAT
persimilis TCTCTCCCGA-------------------------------GTCGGA----------CGCAGCGCCCGCTCCCGT---TTCCCTCAAGCG------CGAGCGTTCTCCGGCT--------
virilis ATCCGACAGC--------AGTCGCTGAGCCCTTCACCAAAGCCAACT----------CGC--CCGCGCCCGTCAA---GAGCCGCAAGCGCAAGGCGGAGGAATCTGCTGCCGAGATCAT
mojavensis AAGTGCCCAC--------AGTTGCCGAGCCAAGCGTTGAAGCCAGCT----------CGC--CTGCTCCGGCTAA---GAGCCGTAAGCGCAAGGCAGAGGAATCCGCCGCGGACATCAT
grimshawi AAGCACCAGCTCCGGTTTCGGTTCCGGTTCCGGCTCCGGCTGCAGCTACAGTGACCACAC--CCGCCCCACTGAA---GAGCCGCAAGCGGAAGGCAGAGGAGAGCGCTGCGGACATCAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CGCCGCCGTGGA-GGAGCGA-------------CCCAGCACACTGAGGGCTC-----TGCTCACCAATCCCGTGAAGAAGCTGAAGTACACCCCCGACTATTTCTACACAACCGTCGAGC
simulans CGCTGCCGTAGA-GGAGCGA-------------CCCAGCACACTGAGGGCTC-----TACTCACCAACCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACCACCGTCGAGC
sechellia CGCCGCCGTGGA-GGAGCGA-------------CCCAGCACACTGAGGGCTC-----TACTCACCAACCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACCACCGTCGAGC
yakuba CGCTGCCGTGGA-GGAGCGA-------------CCCAGCACCCTGAGGGCCC-----TGCTCACCAACCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACCACAGTCGAGC
erecta CGCCGCCGTGGA-GGAGCGA-------------CCCAGCACGCTGAGGGCGC-----TGCTCACCAATCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACCACAGTCGAGC
ananassae TGCCGCCGTCGA-GGAGCGA-------------CCCAGCACTCTGAGGGCCC-----TGCTCACGAATCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACAACCTTGGAGC
pseudoobscura TGCCGCCGTCGA-GGAGCGA-------------CCCAGCACACTCCGTGCTC-----TGCTGACGAATCCCGTGAAGAAGCTGAAGTACACCCCCGACTACTTCTACACCACCTTCGAGA
persimilis --CCACCGTCCATGGAGCAGGCCGAGAATCCCTCCCAGCGTATTCAGCCGCCACACACGCCTCCGAAATCCGTG----------------------------------------------
virilis TGCTGCCGTGGA-GGAGCGA-------------CCCAGCACACTGCGCGCCC-----TGCTCACCAATCCCGTGAAGAAACTAAAATACACGCCCGATTATTTTTACACGACAATAGAGC
mojavensis CGCCGCCGTGGA-GGAGCGA-------------CCCAGCACACTACGCGCCC-----TGCTCACCAATCCCGTCAAGAAGCTGAAGTACACGCCCGACTACTTCTACACGACGATCGAGC
grimshawi TGCCGCCGTGGA-GGAGCGA-------------CCAAGCACATTGCGTGCCC-----TGCTCACGAATCCCGTCAAGAAACTGAAATACACGCCCGACTATTTCTACACCACGTTCGAGC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AGGTGAAGAAGGCTCCCGCCGTA-----AGC------ACCAAG------GTCACCGCCAGCCCC-----GCTCCCAGCTACGACC------------AAGAGTAC----------GTGAC
simulans AGGTGAAGAAGGCCCCCGCCGTA-----ACC------ACCAAG------GTCGCCGCCAGCCCC-----GCTCCCAGCTACGAGC------------AAGAGTAC----------GTGAC
sechellia AGGTGAAGAAGGCCCCCGCCGTA-----ACC------ACTAAG------GTCGCCGCCAGCCCC-----GCTCCCAGCTACGAAC------------AAGAGTAC----------GTGAC
yakuba AGGTGAAGAAGGCCCCCGCCGTC-----ATC------TCTAAG------GTCGCCGCCAGCCCC-----GCCCCCAGCTACGAGC------------AAGAGTAC----------GTGGC
erecta AGGTGAAGAAGGCCCCCGCCGTA-----ACC------TCCAAG------GTCGCCGCCAGCCCC-----GCCCCCAGCTACGAGC------------AAGAGTAC----------GTGGC
ananassae AGGTCAAGAAGACGCCTGCCCCC-----ACC------ACCAAGGCCACCGCCGCCGCCAGTCCC-----GCCCCCAGCTACGATC------------AAGAGTAC----------GTGAC
pseudoobscura CGGTGAAGAAGAGCCCGGCCACAGTGCCAGC--GCAGATTAAG------GCCAGCTCCAGTCCC-----GCTCCCAGCTACGAGC------------AGGAGTAC----------GTGGC
persimilis --GCACAACACGCCCCCGCAGCAGCAGCAGCCACCAAACTA-------------CCCCAAGCCCGGAATGCATCCGGCCG-GAGCCATGATGATGCAAGGAATGCCGCCAGCCGGCTTGG
virilis CCGTGAAGAAG--CCCAGC---------AAG------AGCAGC------TCCGCCGGCGAGCTG-----TCGCCCTGCTATGAGC------------AGGACTAT-------------GC
mojavensis ACGTGAAGAGG--CCCAGC---------AAG------AGCAGC------TCCGCCGGCGAGCTG-----TCGCCCTGCTACGAGC------------AGGACTAC-------------GC
grimshawi AGGTGAAGAAG--CCCAAC---------AGG------AGCAGC------TCCGCCGGAGAGCTG-----TCACCCTGCTACGAGC------------AGGACTAC-------------GC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TGTGCCCACGCC---------------------------------CAGCGCCTCCGAGGATGTCGACTACTTGGACGTCTACTCGCCCCAGTCG------------CAGACGCAGAAGCT
simulans TGTGCCCACGCC---------------------------------CAGCGCCTCCGAGGATGTCGACTACTTGGACGTCTACTCGCCCCAGTCG------------CAGACGCAGAAGCT
sechellia TGTGCCCACGCC---------------------------------CAGCGCCTCCGAGGATGTCGACTACTTGGACGTCTACTCGCCCCAGTCG------------CAGACGCAGAAGCT
yakuba TGTGCCTACGCC---------------------------------CAGCGCCTCCGAGGATGTTGACTACTTGGACGTCTACTCGCCCCAGTCG------------CAAACGCAGAAACT
erecta CGTGCCCACGCC---------------------------------CAGTGCCTCCGAGGATGTCGACTACTTGGACGTCTACTCGCCCCAGTCGCAGTCCCAGTCCCAGACGCAGAAACT
ananassae TGCCCCCACGCC---------------------------------CAGCACCTCCGAGGACGTAGACTACCTGGATGTCTACTCGCCACAGTCC---GCCCAGTCCCAGTCGCTGAAGCT
pseudoobscura AGCACCCACTCC---------------------------------CAGCGCCTCCGAGGATGTCGACTATCTCGATGTCTACTCGCCACAGTCC------------CAAA---AGAATCA
persimilis TGCGACCCTTCC---------------------------------CCGTGGGCCCA-----GTCGGAC-CCCCGATG-----CCGCCACAGGGA------------CAG----------C
virilis CGTGCCCACGCCCTCCACACAGCAGACGCACATGTCGCCGCAGCGCAGCACCAGCGAGGATGTAGACTATCTGGACGTCTACTCGCCGCACAAG------------CAGGC---------
mojavensis CGTGCCCACGCCCTCCACACAGCAGACGCACATGTCGCCACAGCGCAGCACCGGCGAGGATGTCGACTATCTGGACGTCTACTCGCCCCGCAAG------------CCGGC---------
grimshawi CGTGCCAACGCCCTCCACCCAGCAGACGCACATGTCGCCGCAGCGCAGCAGCAGCGAAGATGTTGACTATCTGGATGTGTACTCGCCACGTAAG------------CAGGC---------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GAAGAATGGCGACTTT------------G---------------------------CCACCCCTCCGCCA------ACCACGCCCAC-------CTCTCTGCCGCC--------------
simulans GAAGAATGGCGACTTT------------G---------------------------CAACCCCTCCACCT------ACCACGCCCAC-------CTCTCTGCCGCC--------------
sechellia GAAGAATGGCGACTTT------------G---------------------------CCACCCCTCCACCA------ACCACGCCCAC-------CTCTTTGTCGCC--------------
yakuba GAAGAATGGCGACTTT------------G---------------------------CCACCCCACCACCA------ACCACGCCCTC-------CACTCTGCCGCC--------------
erecta GAAGAATGGCGACTTT------------G---------------------------CCACCCCTCCACCA------ACCACGCCCAC-------CTCTCTGCCGCC--------------
ananassae GAAGAATGGCGACTTT------------G---------------------------CCACCCCGCCACCA------ACCACGCCCAC-------CTCCCTGCCGCC--------------
pseudoobscura CAAGAATGGCGAATAT-------GTGGCG-GGCACACCACCACCAC----------TAGCCTCTACACCA------GCCACGCCCA----------------CGTC--------------
persimilis CCGGCATGCCGGACATCAAGGCCCTGCCGCCGTACATCAACGCCCCGCCAGAGATGCCGCCCCAGCACAA------TCCTCACCTG--------ATCGCCGCCGCC--------------
virilis CAAGCATGGCGACTTT------------A---------------------------TTACCCCGCCGCCGGCTGCCACCACGCCCG-CG-----ACGCCCGCCTCCCTGGTCGA------
mojavensis CAAACATGGCGACTTT------------G---------------------------TCACCCCACCACCAGCAGCCACCACGCCCGTCG-----ATGGCCTCGGCCTCGGCCT-------
grimshawi CAAGCATGGCGACTTT------------G---------------------------TCACCCCGCCACCGGCAGCCACCACGCCCACCGCCACCACACCCGCCTCCCTTGTCGATGGCAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ------CC----TCGAAGGCATCAGCACGCCACCCCAAT------CGCCGGGGGAGAAAT--------------CCTCGTCAG------C------TGTC-----AGCCAGGAGATCAAT
simulans ------CG----TCGAAGGCATCAGCACGCCACCCCAAT------CGCCGGGGGAGAAAT--------------CCTCGTCAG------C------CGTC-----AGCCAGGAGATCAAT
sechellia ------CG----TCGAAGGCATCAGCACGCCACCCCAAT------CGCCGGGGGAGAAAT--------------CCTCGTCAG------C------TGTC-----AGCCAGGAGATCAAT
yakuba ------CG----TCGAAGGCATCAGCACGCCACCCCAAT------CGCCGGGCGAGAAAT--------------CCTCGCCAG------C------TGTC-----GGCCAGGAGATCAAT
erecta ------CG----TCGAAGGCATCAGCACGCCACCCCAAT------CGCCGGGGGAGAAAT--------------CCCTGTCAG------C------TGTC-----AGCCAGGAGATCAAT
ananassae ------CG----TTGAGGGACTCAGCACACCACCCCAGT------CGCCGGGGGAGAAAT-----CCTCGTCCGCCTCGTCAG------C------TGTC-----AGCCAGGAGATCAAT
pseudoobscura ------CA-TAGTGGAGGGCATCAGCACGCCACCCCAAT------CGCCCGGAGTCAAGT--------------CCGCCACGG------CATCGAATGTC-----AGTCATGAGATCAAT
persimilis ------CAGTTCCAGATGGCTGC----CGCCATTCAAGCGGGACATGTCCTGGGTCCCGCTGCAGCGGCCGCTGCCGCCGCAGGACTGCCACCCCATGCCGCACAATTCATGCCA--AAT
virilis ------TG----GGATTGGCATCAGCACGCCACCCCAGT------CGCCGGCCGAGAAGT--------------C-------G------C-------------------ATGAAATCAAT
mojavensis ------CG----GCATCGGCATCAGCACGCCACCCCAGT------CGCCGGCCGAGAAGT--------------C-------G------A-------------------ATGAAATCAAT
grimshawi TGGTATTG----GCATTGGCATTAGCACGCCACCCCAGT------CGCCGGCCGAGAA------------------------G------A-------------------ATGAAATCAAT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CATCGAAT----TGTGACAGCCCC---------G---AATGGA-------GCCGGCGATTTCAATTGGTCGCA-CATCGAGGAGACTTTGGCATCAGGTAGGCATCACACACGATTAACA
simulans CATCGAAT----TGTGACAGCCCC---------G---AATGGA-------GCCGGCGATTTCAATTGGTCGCA-CATCGAAGAGACTTTGGCATCAGGTAGGCATCACACACGATTAACA
sechellia CATCGAAT----TGTGACAGCCCC---------G---AATGGA-------GCCGGCGATTTCAATTGGTCGCA-CATCGAAGAGACTTTGGCATCAGGTAGGCATCACACACGATTAACA
yakuba CATCGAAT----TGTGACAGCCCC---------G---AATGGA-------GCCGGCGATTTCAATTGGTCGCA-CATCGAGGAGACTTTGGCATCAGGTAGGCATCACACACGATTAGCA
erecta CATCGAAT----TGTGACAGCCCC---------G---AACGGA-------GCCGGCGATTTTAATTGGTCGCA-CATCGAGGAGACTTTGGCATCAGGTAGGCATCACACATGAATAGCA
ananassae CATCGAAT----TGTGACAGGCCC---------G---AGCAAC-------GCAAACGATTTCAATTGGTCGCA-CATCGAGGAGACCTTGGCAGCAGGTAAGGATCATCCCC---CAACA
pseudoobscura CATCGAAT----TGTGACAGCTGC---------CAATAGCGGAGTC----GCCGCCGAATTCAATTGGTCGCA-CATAGAAGAGAGCCTCGCATCAGGTAGGCATCGTTC----------
persimilis CCTGGCATGGCACGGGACAGCTAC---------C---AGCTCTATCCCTGGCTGCTGAGTCGTCACGGACGCATCTTTCCACACCGTTTCCCTGGAAGTAAGTATCTCTCAC--------
virilis CATCGCAT----TGTGACAGCTGC---------C---ACGGGC-------AACAACGAATTTAATTGGTCGCA-CATTGAGGAGACTCTCGCATCAGGTAGGCATCGCACTC--CCACCA
mojavensis CATCGCAT----TGTGACAGCTGC---------C---AATGCC-------AGCAACGAATTCAATTGGTCGCA-CATTGAGGAGACCATCGCATCAGGTAGGCATCGCTTTC--------
grimshawi CATCGCAA----TGTGACAGCTGCCTCCAGTAGC---AGCAGC-------AACAACGAATTCAATTGGTCGCA-CATTGAGGAGACTCTCGCATCAGGTAGGCATCCCACTC--------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ACCCCTAAAAATACACTTTGAAAATATTGAAAATATGTTTTTGTATACATTTTTGATATTTTCAAACAATACGCAGTTATAAAACTCATT--AGCTAACCCAT--TTTT--TC-TTTGCT
simulans ACCCCTAAAAATACATTTCTAAAATATTGAAAATATGTGTTTGTATATATTTTTGATATTTTTAAACACAACACAGTCATAAAAGTCATT--TGCTAACCCAT--TTTT--TC-TTTGCT
sechellia ACCCCTAAAAATACATTTCTAAAATATTGAAAATATGTTTTTGTATATATTTTTCATATTTTTAAACACAACACAGTCATAAATGTCATT--TTCTAACCCAT--TTTT--TC-TTTGCT
yakuba ACCCCTAAAAATACACATATAAAATATTGAAAATATGTTTTCGTATATATTTTTGATATTTTCAAACAACACACAGCTTAAAAAGTCATA--AACTGACCAAT--GTTT--TC-TTTGTT
erecta ACCCCTA-------------AAAATATTGAAAATATGTTTCTGTATATATTTTTGATATTTTCAAACAACACACACTTAAGAAGGTCATA--AACTAACCCAT--GTTT--TC--TTGCT
ananassae AAATATGAGTTTACAAATCAAAACTG--GAACTCAAATTTTGATAGCCTCTTTAGAGTTTGACGAACAA--------------------T--GACTAACCAAT--ACTT--TTATTTTAT
pseudoobscura -----------------------------CAAGCACATTTTAGCACAATCCAT---------CCCCCATTGAATCGTCTAATGAATCGTT--GACTAACCAAA--TTTTCATC-TTTTTT
persimilis ----------------------------TTGGCTGTGCCTCAGCTACCACTCT---------CTCCCACTCCCCAGTCTACAGA-----T--GACTAACCAAA--TGCT--TC-TCTTCT
virilis ACCTCT-----------------------CACTCTCACTCACTCTCACACTCTCTCAGT---CACACACTCTCCCTCATTTTGCAACTCTCGTACTTACTTTC--TGCT--TC-TTATCT
mojavensis -CCTCT-----------------------CGCTCTCTCTCACGCACACA-------------CACACCCTCGCTATTCTAATGTAACTGT--TACTTACTTTC--TGTT-GCC-TTTTCT
grimshawi --------------------------------TCCCTCTCACTCACACACTTC---------CTCTCTCTCTCTCTCAGTTTG-AACTGT--TACTTACTTGCAAAATT--TC-TCTTCT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster -TATGC---TTACAGATTGCAAAGACTCG---------------AAACGCA---CCCGTCAGACGTA---C
simulans -TATGC---TTACAGATTGCAAAGACTCG---------------AAACGCA---CCCGTCAAACGTA---C
sechellia -TATGC---TTACAGATTGCAAAGACTCG---------------AAACGCA---CCCGTCAGACATA---C
yakuba -TATGC---TTACA--------------G---------------AGCCGCA---AGAAGCGGTCGCGTGCC
erecta -TATGC---TTACAGATTGCAAAGACTCC---------------AAACGCA---CCCGCCAGACGTA---C
ananassae -TTTCT---CTTCAGATGGCAAAGACTCG---------------AAGCGCAAGTCCCGCACCGCCTT---C
pseudoobscura -GTATC---CTTCAGATTGCAAAGACTCG---------------AAACGCA---CTCGCCAGACCTA---C
persimilis -GTTGC---TTTAAGGTTTCCTGGTGCCGCCATTCCGCAAGCCCAAGCGCA---TTCGCACCGCCTT---C
virilis -CTGACTTTTTGCAGATTGCAAAGACTC---------------CAAACGCA---CTAGGCAAACCTA---C
mojavensis -TTCGTTTCTTGCAGATTGCAAAGACTC---------------CAAACGCA---CACGACAAACCTA---C
grimshawi GTTTACCTTTTGCAGATTGCAAAGATTC---------------GAAACGCA---CTCGTCAAACCTA---C
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
cau