melanogaster CTGGATCTTGGTGACTCCA-GTCGA------TGCGGCCAGATGCAAG--AGAGGTGATTAATTGCCACCC----GAATGTC--CCGGCCAACTGGTCG--GA------------------
simulans CTGGATCTTGGTGACTCCC-GTCGA------TGCGGCCAGATGCAAG--CGAGGTGATTAATTGCCACCC----GAATGTC--CCGGCCAACTGGTCG--GA------------------
sechellia CTGGATCTTGGTGACTCCC-GTCGA------TGCGGCCAGATGCAAG--AGAGGTGATTAATTGCCACCC----GAATGTC--CCGGCCAACTGGTCG--GA------------------
yakuba CGGGATC-TGGCGACTCCA-GTCGA------TGCGGCCAGATGCAAG--AGAGGTGATTAATTGCCACCC----GAATGTC--CCGGCCAACTGGTCG--CA------------------
erecta CTGGCTC-TGGTGACTCGA-GTACA------TGCCGCCAGATGCAGG--AGAGGTGATTAATTGCCACCC----GAATGTC--CCGGCCAACTGGTCG--GA------------------
ananassae ---------------------TCCG------TGCGGTCAGATGCAAG--AGTTGTGATTAATTGCCAACA----GAATGTC--CCAGGGAACTGGTTGCCCA------------------
pseudoobscura CTGCTGCCTGTTG----CT-GTCCC------TGCGGTCAGATGCAAG--AGATTTGATTAATTATCGCGCCAGAGAATGTC--CCAGGGAATGGGCTG--CA------------------
persimilis CTGCTGCCTGTTG----CT-GTCCC------TGCGGTCAGATGCAAG--AGATTTGATTAATTATCGCGCCAGAGAATGTC--CCAGGGAATGGGCTG--CA------------------
virilis --------------------GTCCA------TACGG--AGCCGCGGG--AGC--TGATTAATTGCAACT-----GAAAGTCG-TGGGGGAACTGGTTG--ACGTCC--------------
mojavensis CTTTACCTGGCTGACTACCTGGCTGGCGGGCTGCCG--GCCTGCAGGGCAGC--TGATTAATTGCAATT-----GTAAGTC--TTGGGGAACTGGTTG--TTGTTCTTGTTGTTGTTGTT
grimshawi ------------------------------------------------------TGATTAATTGCAACT-----CAAAGGCGAATGGGGAACTGGTTG--GCGG----------------
Summary BBBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMMMMMM
melanogaster ------TTTTACCT----TTTT----T-ACGTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCATTTTG----CCAA-GAC----TCTTGATAATGTTGTTTAT--------
simulans ------TCTTACC-----TTTT----T-ACGTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCATTTTG----CCAA-GAC----TCTTGATAATGTTGTTTAT--------
sechellia ------TCTTACCT----TTTT----T-ACGTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCATTTTG----CCAA-GAC----TCTTGATAATGTTGTTTAT--------
yakuba ------TCTTGCCT----GTTC----T-GCGTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCATTTTG----CCAA-GAC----TCTTGATAATGTTGTTTAT--------
erecta ------TTTTACCT----TTTC------GCGTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCATTTTG----CC-A-GAC----TCTTGATAATGTTGTTTAT--------
ananassae ------GTTCGACTCCGATTTC----T-ACCTTTACCTGTCGCCGG---TTAATGTTGCCAACTTAATCGCGTTTTG----CCAA-GAC----TCTTGATAATGTTGTTTAT--------
pseudoobscura ------ACT--CCT----TTTCCAGCT-ACAGCTACCTGCTGCTGGGATCGTATGTTGCCGACTTAATCGCCTTTCAGCCCCCGA-GACTCTTTCTTGATAATGTTGTTTATGATATTTC
persimilis ------ACT--CCT----TTTCCAGCT-ACAGCTACCTGCTGCTGGGATCGTATGTTGCCGACTTAATCGCCTTTCAGCCCCCGA-GACTCTTTCTTGATAATGTTGTTTATGATATTTC
virilis ------GTTTGGC-----TCTT----G-G--TTAG-CTGTCGCCAG---TTAATGTTGCCAACTTAATCGCATTTGG----ACGG-GTC----GCTTGATAATGTTGTTTACGAGTCT--
mojavensis GTTGTTGTTCGTCT----TCTT----G-GGTTTTG-CTGTCGCCAG---TTAATGTTGCCAACTTAATCGCATTTGG----ACGG-GCC----CCTTGATAATGTTGTTTACGAGTAT--
grimshawi ------AGCTGTCT----TCTT----GTGGAGAAG-CTGTCGCCAG---TTAATGTTGCCAACTTAATCGCATTTGG----ACGGTGTC----TCTTGATAATGTTGTTTACGACTCG--
Summary MMMMBBBBBRRRRRRRRRBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMM
melanogaster --GTGCAAAACGATTTG-----------GCTGACCGG-------------------GCGAT--GGGCA----------A-----TG----GGCGATGC------GG--------------
simulans --GTGCAAAACGATTTG-----------GCTGACCGG-------------------GCGAT--GGGCA----------A-----TG----GGCGACGC------GG--------------
sechellia --GTGCAAAACGATTTG-----------GCTGACCGG-------------------GCGAT--GGGCA----------A-----TG----GGCGATGC------GG--------------
yakuba --GTGCAAAACGATTTG-----------GCTGACCGG-------------------GCGAT--GGGCA----------A-----TG----GGTGATGC------GG--------------
erecta --GTGCAAAACGATTTG-----------GCTGACCGG-------------------GCGAT--GGGCG----------A-----TG----GAAGATGC------GG--------------
ananassae --GTGCAAAACGATTTG-----------G-----CGG-------------------ACACT--GGGAG----------A-----------GCTGATGC------AG--------------
pseudoobscura AAGTGCAAAACGATTTA-----------GTTGCCCGGAAAAAAAGGGCCACGACACACGGC--TGACA----------AAGAGCTT----GATGCAGC------AG--------------
persimilis AAGTGCAAAACGATTTA-----------GTTGCCCGGAAAAAAAGGGCCACGACACACGGC--TGACA----------AAGAGCTT----GATGCAGC------AG--------------
virilis --GTGCAAAACGATTTGGCTGCAAC-TCAGAGCCCGG-------------------CAACT--GGACGCGCT------G-----GG----GTAGAGAC------AGAAGTCCAGACCCCA
mojavensis --GTGCAAAACGATTTG----------------CCGG-------------------ACACTGGGGAGACGCC------G-----GGTCCAGCAGAGAC------AG---------CCTCA
grimshawi --GTGCAAAACGATTCC----CAACATTGCCAACTGG-------------------ACATT--GGACACTCCTTGGAGG-----GG----GGAGAGACTGGGAGAG---------CGACA
Summary BBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMRRRRRRRRRBBRRRRRRRRRRRRRRRRRRRRRRRRRR
melanogaster ---------------ATCTGC--------------------------GGATAATTAATGAGACAGAC-TTGTGTAATTAATAAAAAACTTTTAATTACTGAGGGCA-----------GCA
simulans ---------------ATCTGC--------------------------GGATAATTAATGAGACGGAC-TTGTGTAATTAATAAAAAACTTTTAATTACTAAGGG-------------GAA
sechellia ---------------ATCTGC--------------------------GGATAATTAATGAGACGGAC-TTGTGTAATTAATAAAAAACTTTTAATTACTAAGGG-------------GAA
yakuba ---------------ATCTGCG---------AATCTGGGGATCT-GCGGATAATTAATGAGACAGAT-TTGTGTAATTAATAAAAAACTTTTAATTACTGAGG--------------GCA
erecta ---------------ATCTGCG---------GATCTGGGGATCT-GGGGATAATTAATGAGACAGAC-TTGTGTAATTAATAAAAAACTTTTAATTACTGAGG--------------GCA
ananassae ---------------ATCGTC-------------------TTCT-TTGGATAATTAATGAGACAGAC-TTGTGTAATTAATAAAAAACTTTTAATTACCATGG--------------GCA
pseudoobscura ---------------ATCCTC--------------------------CGATAATTAATGAGAATG---------------AAAAAAACTTTTAATTACTTCAGGCAGGAGGCAGGAGGCA
persimilis ---------------ATCCTC--------------------------CGATAATTAATGAGAATG--------------AAAAAAAACTTTTAATTACTTCGGGCAGGAGGCAGCAGGCA
virilis GACTCCA--------GACTCG----------------CGGCTCT-GACTGTAATTAATGAGGCTCAG-TTGTGTTATTATTAAAAA-CTTTTAATTACAGCGC--------------GCC
mojavensis GCTTTCGATTGGGGCGACTCTT-------ACTCTCGCCGACTCTGGACAATAATTAATGATGC--------TGTTATTATTAAAAA-CTTTTAATTACTTGGC-----------------
grimshawi TGTT-----------GACTCGCAGGGCAGACTGACTGCGACTCT-GACGATAATTAATGAGGCTGGGTTTGTGTTATTATTAAAAA-CTTTTAATTACAGCGT--------------GCT
Summary RRRRRRRRRRBBBBBBBBRRRRRRRRRMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRRRRR
melanogaster G-------G-CCTGTCCTTGAGCCACTGCTGCT-----------------------GCTGCTGCTGAAATC--------CTAATGAGTGGCGAAGGAA---GAAAAAAAAATGTTACATG
simulans G-------G-CCTGTCCTTGA------GCTGAT-----------------------GCTGCTGCTGAAATC--------CTAATGAGTGGCGAAGGAA---G-AAAAAAAATGTTACATG
sechellia G-------G-CCTGTCCTTGA------GCTGAT-----------------------GCTGCTGCTGAAATC--------CTAATGAGTGGCGAAGGAA---G--AAAAAAATGTTACATG
yakuba G-------G-TCTGTCCTTGA-----------------------------------GCTGCTGCTGAAATC--------CTAATGAGTGGCGAAGGCA---G-AAAAAAAATGTTACAAG
erecta G-------G-TCTGTCCTTGA-----------------------------------GCTGCTGCTGAAATC--------CTAATGAGTGGCGAGGGCA---G---AAAAAATGTTACAAG
ananassae G-------GTCCTGTCCTTGA-----------------------------------GC--CTGCTGGCATC--------CTAATGAGTCGCGAA---------AAAATAAATATTACAGA
pseudoobscura GCAGGCTAC-AGTGTCCTTGA------GAGCCT-----------------------GCT-CTGCTG--ATC--------CTAATGATCCGCTCAAACC---A-AAAAAAAAGAAAGAAAG
persimilis G-------C-AGTGTCCTTGA------GAGCCT-----------------------GCT-CGGCTG--ATC--------CTAATGATCCGCTCAAACCAAAA-AAAAAAAAGAGAGAAAG
virilis --------G-TGTGTCCTTGG------GCCGAG-----------CAATAAGGTGA---GGCTGCAAAAATCCATGTGCTCTAATGAGCCC----AAAT---A-AAGCCAAACAA------
mojavensis -----------ATGTCCTTGA------GTTCTT-----------CTTTTG-----------CACAAAAATCCGTCTGCTCTAATGAGCCC--AAAAAT---A-AAACCAAAGAAAACAAA
grimshawi G-------G-CGTGTCCTTGA------GCCTTGACAAGCCCGGACAAAAAGGTAATGCGACTGCAAAAATCCATGTCGTCTAATGAACCC----AAAT---A-AAACCAAACAA------
Summary RRRRRBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBB
melanogaster --TCCTGGATGATCC----ATAGATGGGC-GGG--AAAAAG----TCCGATATGCGACG-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
simulans --TCCTGGATGATCC----ATAGATGGGC-GGG--AAAAAG----TCCGATATGCGACG-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
sechellia --TCCTGGATGATCC----ATAGATGGGC-GGG--AAAAAG----TCCGATATGCGACG-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
yakuba TCTCCTGGATGATCC----ATAGATAGGC-GGG--AAAAAA----TCCGATGTGCCACG-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
erecta --TCCTGGATGATCC----ATAGATAGGCGGGG--AAAAAA----TCCAATGTCTCGCG-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
ananassae --AC--GCATGGC---------GATGTGA-TGG--AAAAAA----TCCATGGTCCTGCT-----------AGATTTTTGCGTAATTTCTCAAGGC-------------------------
pseudoobscura --ACCTAGATAC----------GAAAATC-GGG--AAAAAAGATCGCCCGTAAATCTAT-----------AGATTTTTGCGTAAATTCTCAAGGA-------------------------
persimilis --ACCTAGATAC----------GAAAATC-GGG--AAAAAAGATCGCCCGTAAATCTAT-----------AGATTTTTGCGTAAATTCTCAAGGA-------------------------
virilis ---------------------AAAAAGTC-AGC--TAAAACTATTTCAGAACATATACG----GCCAGG-CGATTTTTGCGTAAACTCTCAAGGT-------------------------
mojavensis --ACC-AAAAAAGAAGAAAAGAAAAAGTG-AGTCGCAAAACTATTTCAAAATTTTTGCGCACAGTCAGGCCGATTTTTGCGTAAGGTCTCAAGGCCTCAGACACACTCACACAGAGTCAG
grimshawi -------------ACAAACAAAAAAAGTC-AGC--CAAAACTATTTCAGA--------------------CGATTTTTGCGTAAACTCTCAAGGT-------------------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
melanogaster -----------------CAGA-C-------AGGG--ACA-ACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGACCG-------AAAT-ATGT-----------TTTTATG
simulans -----------------CAGA-C-------AGGG--ACA-ACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGACCG-------AAAT-ATGT-----------TTTTATG
sechellia -----------------CAGA-C-------AGGG--ACA-ACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGACCG-------AAAT-ATGT-----------TTTTATG
yakuba -----------------CAGA-C-------AGGAGGACA-ACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGACCG-------AAAT-ATGT-----------TTTTATG
erecta -----------------CAGA-C-------AGGC--ACA-ACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGCCCG------AAAAT-GTGT-----------TTTTATG
ananassae -----------------CGAATC-------ATGA--AGATACA-TAAAAAGGA----------CGAATTTCTTACGTAAGTGTCCG------AAAAT-ATGT-----------TTTTATG
pseudoobscura -----------------TAAG-CGACGCGGAGGC--GAG-ACA-TAAAAAGGA-ACAAGGATAGATATTTCTTACGTAAGTGCCTGGCAGCAAAAAT-ATGT-----------TTTTATG
persimilis -----------------TAAG-CGACGCGGAGGC--GAG-ACA-TAAAAAGGA-ACAAG----GATATTTCTTACGTAAGTGCCTGGCAGCAAAAAT-ATGT-----------TTTTATG
virilis ----------------------A-------ATCT--ACA--CA-TAAAAAGGACACG------CAAAATTCTTACGTAAGTGGGCA-------GAAA-ATAT----------CTTTTATG
mojavensis AGTCGCACGCACACACACACA-C-------ACTT--ACA--CACTAAAAAGGACACGCA----CAAAATTCTTACGTAAGTGGGCA-------GAAATATAT----------GTTTTATG
grimshawi ----------------------G-------ATGC---CA--CA-TAAAAAGGACACGCA----CAAAATTCTTACGTAAGTCGGCA-------ATAT-GTATAAGATTTCTATTTTTATG
Summary RRRRRRRRRRRRRRRBBBBRRRRRRRRRBRRRRRRRRRBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMBBBRRRRRRRRRMMMMMMMMMBBBBB
melanogaster AGAGG--ATCATAAAT---TTTTTTTCCCC--T---------------------AAGAATGGGAACGCGTTCTCGTTCTCTGATCTCAATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
simulans AGCGG--ATCATAAA----TTTTTTTCCCC--T---------------------AAGAATGGGAACGCGTTCTCGTTCTCTGATCTCAATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
sechellia AGAGG--ATCATAAA----TTTTTTTCCCC--T---------------------AAGAATGGGAACGCGTTCTCGTTCTCTGATCTCAATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
yakuba AGAGG--ATCATAAA----TTTTTTTCCCT--T---------------------AAGAATGGGAACGCGTTCCCGTTTTCTGATCTCAATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
erecta AGAGG--ATCATAAA----TTTTTTTCCC---T---------------------AAGAATGGGAACGCGTTCCCGTTTTCTGATCTCAATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
ananassae AGAGG--ATCATAAA----TTTTTTTCCCC--T---------------------AAGAATGGGAACGCGCTCTCG-------------ATGTTCTGATCTCGTTCCATTTTTAGCGAAAC
pseudoobscura AGAGG--ATCATAAACATATTTTTTCCCCCGTC---------------------AAGAATGGGAACGCGCTCTCA-------------ATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
persimilis AGAGG--ATCATAAACATATTTTTTCCCCCGTC---------------------AAGAATGGGAACGCGCTCTCA-------------ATGTTCTGATCTCGTTCCATTTTTAGCGGAAC
virilis AGCGGGCATCATAAA----TATATTTTTTC--TCGCTCGACCCGAACGACAGACAAGAATGAAAACGCGCTCTCA-------------ATGTTCTGATCTCGTTCCA---------GAAT
mojavensis AGCGGCAGTCATAAA----ATTGTGACTTG--TTTTTTG---------------AAGAATGAGAACACGCTCTCA-------------ATGTTCTGATCTCGTTCCA---------GAAT
grimshawi AGCGG-CATCATAAA----TTTATTTTTTG--------GACAC-----------AAGAATGAAAACGCGCTCTCA-------------ATGTTCTGATCTCGTTCCA---------GAGC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster T--G------TCCGCCA----------------GTCCGA-TGTCCT-TTTTCGACCGCCTCACGGCATGACATAATTTCGCATAATTTGCA-ACA---------ATC-------CTCGAA
simulans T--G------TCCGCCA----------------GTCCGA-AGTCCT-TTTTCGACCGCCTCACGGCATGACATAATTTCGCATAATTTGCA-ACA---------ATC-------CTCGAA
sechellia T--G------TCCGCCA----------------GTCCGA-TGTCCT-TTTTCGACCGCCTCACGGCATGACATAATTTCGCATAATTTGCA-ACA---------ATC-------CTCGAA
yakuba T--G------TCCGCCA-------------TCCGTCCGA-TGTCCTTTTCTTGACCGCCTCACGGCATGACATAATTTCGCATAATTTGCA-ACA---------ATC-------CTCGAA
erecta T--G------TCC----------------------------------TTTTCGACCGCCTCACGGCATGACATAATTTCGCATAATTTTCA-ACA---------ATC-------CTCGAA
ananassae TCCG------TCCGTCC-------------GACGTCCGT-TGTCCT-TTT---------TCACGGCATGACATAATTTCGCATAATTTGCA-ACA---------ATCAACTATTTTGAAA
pseudoobscura G--GAACGGAACCGCCT----------------GTCCGTCCGTCCG-TCT--GTCCGCCTCACGGCATGACATAATTTCGCATAATTTGCACACAGGATTCAGCACC-------CTCGAA
persimilis G--GAACGGAACCGCCTGTCCGTCCGTCTGTCCGTCCGTCCGTCCG-TCT--GTCCGCCTCACGGCATGACATAATTTCGCATAATTTGCACACAGGATTCAGCACC-------CTCGAA
virilis C--G-------------------------------------------CCT----------CGCGGCATGACATAATTTTGCCTAATTTACC-AGC---------GTA-------TTCCAA
mojavensis C--G-------------------------------------------TCG----------CGCGGCGTGACATAATTTTGCCTAATTTACC-AAA---------ACA-------TTCCAA
grimshawi C--G-------------------------------------------TCT----------CGCGGCATGACATAATTTTGCCTAATTTAAC-AGC---------G---------TTCCAA
Summary RRRRRRRRRBBBBRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMRRRRRRRRRBBBBBBBBBB
melanogaster GGACTTTTCGCCCCGA------------------ACAC----------CAGGACACCCACCAGCACGTGACA--AAAAAGAT----------------------GAAC------------
simulans GGACCTTTCGCCCCGA------------------ACAC----------CAGGACACCCACCAGCACGTGACA--AAAAAGAT----------------------GAAC------------
sechellia GGACCTTTCGCCCCGA------------------ACAC----------CAGGACACCCACCAGCACGTGACA--AAAAAGAT----------------------GAAC------------
yakuba GGACTTTTCGCCCATA------------------GCACCCAGGACACGCAGAACAC---CCAGCACGTGACA--AAAAAGAT----------------------GAAC------------
erecta GGACTTTTCGCCCATA------------------GCAC----------CAGGACAC---CCAGCACGTGACA--AAAAAGAT----------------------GAAC------------
ananassae GGACCCTCGGCCCAGG------------------ACGA----------CA----------CTGCACGTGACA--AAAAAGGA----------------------GGAC------------
pseudoobscura GGACTCT-----------------------------------------------------CAGCACGTGACA--AAAAAG------------------------GAGC------------
persimilis GGACTCT-----------------------------------------------------CAGCACGTGACA--AAAAAG------------------------GAGC------------
virilis GGACCCA--GCCAGGACAACGGCA--CACAGGC-ACAG----------CG--------CGCAGCACGTGACA--AACAAAAAATAGAAGAAATGCAACAAACACAAACAAATAAAC----
mojavensis GGACCTC--GCCAGGAT-------------------------------CA--------CGCAGCACGTGACAGCGACAAGAAGAAGAAGAAGCACTGAACAATCGAACAAAAAAATTGCA
grimshawi GGACCAT--GCCACAACTGCAACAACAACAGGCAACAG----------CGGCAACGGTCGCAGCACGTGACA--AACAAAAAA-ATAGTCAAAATTGCACAGA-AAACAAAACA------
Summary BBBBBBBBBBBBBBMMMMMMMMMRRRRRRRRRRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBMMMMMMMMMBRRRRRRRRRMMMMMMMM
melanogaster ------------AAAC-A--AAAAAGAGA-----------GCGACCTGC--T-CGCAGATTTTTAGTGCGAATTCCGCAGGTCAT-CGCC----------G-A-AATTT---GGCCAACA
simulans ------------AAACAA--AAAAAGAGA-----------GCGACCTGC--T-CGCAGATTTTTAGTGCGAATTCCGCAGGTCAT-CGCC----------G-A-AATTT---GGCCAACA
sechellia ------------AAACAA--AAAAAGAGA-----------GCGACCTGC--T-CGCGAATTTTTAGTGCGAATTCCGCAGGTCAT-CGCC----------G-A-AATTT---GGCCAACA
yakuba ------------AAAC-A--AAAAAGAGG-----------GCGACCTGC--T-CGCAGATTTTTAGCGCGAATTCCGCAGGTCAT-TGCC----------GAA-AATTT---GGCCAACA
erecta ------------AAAC-A--AAAAAGAGG-----------GCGACCTGC--A-CGCAGATTTTTAGTGCGAATTGCGCAGGTCAT-TGCC----------G-A-ATTTT---GGCCAACA
ananassae ------------AAAC-A--AAAAAGAGA-----------GCGACCTGA--C-AGCGAATTTTTAGTGCGAATTCTGCAGGTCAC-CGCCAGGATGGTCGG-T-ATTTT---GGCTA--A
pseudoobscura ------------AAAA-C--AAAAAGAGA-----------ACGACCTGCCGT-AGCAGATTTTTAGTGCGAATTTCGCAGGTCATGAGCC----------C-A-GATATTTCGGCCAAAA
persimilis ------------AAAA-C--AAAAAGAGA-----------ACGACCTGCCGT-GGCAGATTTTTAGTGCGAATTTCGCAGGTCATGAGCC----------C-A-GATTTTTCGGCCAAAA
virilis ------------AAAC-A--AAAAAAAATTTAATCCTCTTTCGACCTGC--G-TGCAGATTTTTAGCTTGAATTTCGCAGGT----CGCC----------G-G-CCGTT---TGCC-AAT
mojavensis GAAAATTCGCAAAAAC-AATAGAAAAAAATAAATATTCTGCTGACCTGC--GCTGAATATTTTTAGCTCGAATTTCGCAAGG----TCCT----------G-C-GCCTT---GGCCTGGC
grimshawi ------------AAAC-AAAAAAAAAAGATCAGT------TCGACCTGC--G-TGCAAATTTTTAGCTTGAATTTCGCAGGT----CGCC----------G-CTGTTTT---TGCAAAAT
Summary MMMMMMMMMMBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMBBBBBBBBBBBBBB
melanogaster ACTTAT----GAATCTGCATAT----TTTGGCAATATGC-------------GCAGTCGTCCT----GCTGCTCGACATGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGAGTTCAGT
simulans ACTTAT----GAATCTGCATAT----TTTGGCAATATGC-------------GCACTCGTCCT----GCTGCTCGACATGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGAGTTCAGT
sechellia ACTTAT----GAATCAGCATAT----TTTGGCAACATGC-------------GCACTCGTCCT----GCTGCTCGACATGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGAGTTCAGT
yakuba ACTTAT----GAATCTGCATATTTGCATTGGTAATATGCG-----------CGAAGTCGTCCT----GCTGCTCGACATGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGGGTTCAGA
erecta ACTTAT----GAATCTGCATAT----ATTGGTAATATGCG------------GGCGTCGTCCT----GCTGCTCGACATGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGGGTTCAGT
ananassae ATTCGTGGCAGGATCTGCATATAATTTTTGCCAGGATGC--------------AAATCG-CCT----GCCAGGCGACGTGTTCCC-ATTTTTTGTTCTAATTATTTTTTATGAGTTCAGT
pseudoobscura GCGAATTG--AATTTTTCGTCTCAA-TCTGGCCATATCCCATATCCCGCCCCGCTCCCGTCCT----GCGA------GTGTTACC-ATTTTTTGTTCTAATTATTTTTTATG------GT
persimilis GCGAATTG--AATTTTTCGTCTCAA-TCTGCCCATATCCCATATCCCGCCCCGCTCCCGTCCT----GCGA------GTGTTACC-ATTTTTTGTTCTAATTATTTTTTATG------GT
virilis TTCCAC----AGATCT-----C----TTTAG---CATTT--------------TTGCCCAAAT----ATTCCCCTAAGTGTTCGC-ATTTTTTGGTCTAATTATTTTTTATGAGTGCAGT
mojavensis CACAAC----AGCGTT-----T----ATTGGCAACATTT--------------TTGCCAGCTTCGTGATTTCCC--AGTTTCTGCTTTTTTTTGGTCTAATTATTTTTTATGAGTGCAAT
grimshawi GCTCAC----AGA--------T----ATTCGCCAAA------------------TGCCAAATT-----TTCCCCTAAGTGTTCGC-ATTTTTTGGTCTAATTATTTTTTATGAGTGCAGT
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster GCACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCACCCGCAAGACGTGTTTTTCTA-----------------------TAGATTTTCGC----ATTG-TTTTGGG------------
simulans ACACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCAGCCGC-AGACGTGTTTTTCTA-----------------------TGGATTTTCGC----ATTG-TTTTGGG------------
sechellia ACACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCAGCCGC-AGACGTGTTTTTCTA-----------------------TGGATTTTCGC----ATTG-TTTTGCG------------
yakuba GCACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCAGCCGC-AGTCGTGTTTTTCTA-----------------------TGGATTTCTGC----ATTGTTTTTGGG------------
erecta GCACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCAGCCGC-AGTCGTGTTTTTCTA-----------------------TAGATTTTCGC----ATTG-TCTTGGG------------
ananassae CCACGCGCAAAAATTGTCG--CACTTCTTTGTGGCCAGCCAC-AG----GTTCTT----------------------------------------------TCTGCCG------------
pseudoobscura GC-----CAAAAATTGTCG--CACTTCTTTGCGGCTGGCCGC-AGTC--GCTCTCCGA---------------GCACACGCTGCTGCTCGAC----ATCT-TTTTG--------------
persimilis GC-----CAAAAATTGTCG--CACTTCTTTGCGGCTGGCCGC-AGTC--GCTCTCCGA---------------GCACACGCTGCTGCTCGAC----ATCT-TTTTG--------------
virilis CCACGTGCAAAAATTGTCG--CACTTCGCTGCGGCCAGCCGC-ATAT--CCAGTTCTT------------------TCCATTGACCGTCGAC----CCGA-ATCTGAG------------
mojavensis CCACGTGCAAAAATTGTCGCACACTTCGCTGCGGCCAGCCGC-AGCT--CTCGCTCCTCTCCCTCTCTCCCATACATCAGTTGCTCATTGACTGATCTAA-ATATGCGTAAACAAGGATA
grimshawi CCACGTGC-AAAATTGTCG--CACTTCTCTGCGGCCAGCCGC-ATTT--TCAGTTCAA------ATTCTCAATGCATCTATTCAGAGTCGAC----CTGA-ATCTGAG------------
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMRRRRRRRRRBBBMMMMMMMMMBBBBBBBBRRRRRRRRRRRRRRRRR
melanogaster ------------GTTTTTGTTTCTATTC-ATGATTTTTTA-----------------------TTTGCCCCGAGCC-CTGCTGTTCT-TTTTG---GCCCTG-T------TT-----TCT
simulans ------------GTTTTTGTTTCTATTC-ATGATTTTTT------------------------TTTGCCCCGAGCC-CTGCTGTTCG-TTTTG---GCCCTG-T------TT-----TCT
sechellia ------------GTTTTTGTTTCTATTC-ATGATTTTTTA-----------------------TTTGCCCCGAGCC-CTGCTGTTCGTTTTTG---GCCCTG-T------TT-----TCT
yakuba ------------GTTTTTGTTTCTATTC-ATGATTTTTTA-----------------------TTTGCCCCGAGCC-CTGCTGTTCT-TTTTG---GCCCTGTT------TT-----CTT
erecta ------------GCTTTTGTTTCTATTC-ATGATTTTTTA-----------------------TTTGCCCCGTGCC-CTGCTGTTCG-TTTGG---GCCCTG-T------TT-----CTT
ananassae ------------GTTTTTG-TTCTATTC-ATGATTTTTTA-----------------------TTTGACAGTAGGC-CTGCTGTTC--TTTTG---GCCAGG-T------TTTCTTCTCT
pseudoobscura --------------TTTATTTTCTATTCTATAATTTTT-----------------------------------AGC-TAGCTGTTCCGTTCGG---GGCGTT-TCTTTCTTT-----TTT
persimilis --------------TTTATTTTCTATTCTATAATTTTT-----------------------------------GGC-TAGCTGTTCCGTTCGG---GCCGTT-TC-----TT-----TTT
virilis -------CCAAATCTTTTTGTTCTCCCG-TTGATTTTTTATATTGTTCGATGCTTTATTTTTTTTTTTCCTCTGCCTCTGCTGTTCTTTTTTT---GTGGTT-T------TCGCAACTTG
mojavensis TATAGGTCTAGATCTTTTTGTTCTGCTC-TTAATTTTTTA------------CTTTGTTTTGGCTTTGGCTTTGGC-CTGCTGTTCTTTTTTTCCCTCGGTT-T------TTGTCACAGA
grimshawi -------CCATATCTTTTTGTTCGCCTG-TTGATTTTTTA------------CTTTGTTCGCTTTTTTTC-CAGAC-CTGCTGTTCTTTTTTC---GTGGTT-T------TCGCCAGTTG
Summary RMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBM
melanogaster TT---------TTTGTGGTTAGAA---------GTG------GACCCAATTTTTAGCTAATAATTGTTGCAATTTTTGTGGTTTTGGGCCTGTTCA--------GAGACCTGT--TCTGA
simulans TT---------TTTGTGGTTAGAA---------GTG------GACCCAA-TTTTAGCTAATAATTGTTGCAATTTTTGTGGTTTTGGG------CA--------GAGACCTGT--TCTGA
sechellia TT---------TTTGTGGTTAGAA---------GCG------GACCCAATTTTTAGCTAATAATTGTTGCAATTTTTGTGGTTTTGGG------CA--------GAGACCTGT--TCTGA
yakuba TT---------TTTGTGGTTAGCA---------GAG------GACCCAATTTTTAGCTAATAATTGTTGCAATTTTTGTGGTTTCGAA------CA--------GAGAGCTGT--TCTGA
erecta TT---------TTTGTGGTTAGCA---------GAG------GGCCCAATTTTTAGCTAATAATTGTTGCAATTTTTGTGGTTCTACA------CA--------GAGACCTGT--TCTGA
ananassae TT---------TTTGTGGTCAGAC--T------GTA------GACCCAATTTTTTGCTAATAAGTGTTGCAGTTTTTGTGGTTTTCTC------TG--------CGGGTTTGC--TCTGG
pseudoobscura TG---------TTTGTGGTTTTACACT------GTG-TTTTTGGCCTAATTTTTAGCTGATAATTTTCGCAATTTTTGTGGGTTTTGC--GGTTTC--------GAGACTT---------
persimilis TG---------TTTGTGGTTTTACACT------GTG-TTTTTGGCCTAATTTTTAGCTGATAATTTTCGCAATTTTTGTGGGTTTTGC--GGTTTT--------GAGACTT---------
virilis TT---TGCCAATTCATTGTTTACA---------ACG-CAGTCGACCCAATTTTTAGCTAATTATTGTTCTAGTTATTGTGGTTT------------------------------------
mojavensis TT---------TTCATTGTTTACG--T------GCGACATGCGACCTAATTTTTAGCTAATAATTGTTCTACTTATTGTGGT--CAGCTTGGCGCA--------GGGCTCTGT--CCGAG
grimshawi TTGTTTGGCTATTCATTGTTTACA--CAACAAAACGGCA-ACGACCCAATTTTTGGCTAATAATTAGTCTAGTTATTGTGGT--TTACTTGGCGCACGTTTTTTGTGTCCTGTGGCCTGT
Summary MMMMMMMMBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBBBBBBB
melanogaster ATTTAGGGCCGAAACC----AGTCAATCTGGA-----------CTAGGTAG-------CAGCTGTTAA--AATTAGAAGTGATAA-------------------------------TGAG
simulans ATTTAGGGCCGA--------AGCCAATCTGTA------------TAGGTAG-------CAGCTGGTAA--AATTAGAAGTGATAA-------------------------------TGAG
sechellia ATCTGAGACC----------AGTCAATCTGTA------------TAGGTAG-------CAGCTGGTAA--AATTAGAAGTGATAA-------------------------------TGAG
yakuba AATCTG-----------------------GAC------------TAGGTAG-------CAGCTGGTAA--AATTTTAAGCTATAA-------------------------------TGAG
erecta ATTCAGGCCTGAAACC----AGTCATTCTGCC------------TAGGTAGAATTGGCAAACTGGTAA--AATTATAAGCTGTAA-------------------------------TGAG
ananassae TTTTTGGTTGGGTTTTTGGGATTTAGGTTAGT------------AAGGTAG-------CTGATGGT---------------TTGT-------------------------------CGAG
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis ----TGCAC-----------ATTTTGCGGGTG------------CAAAACG-------CAGCTTTTAA--AAATAGTATTTACAA-------------------------------TGAT
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis AGTT---------------------------------------------------------------------TTAAATTATTAA-------------------------------AAAA
grimshawi AGTC---------------TAGGTAGAGTGTGCAAGATGTCGTCTAGAGAG-------AAGCAATTAATTAGTTTTAACTACTAATCCTTCAGTTCCTCGCATAAAAGGAAAATGGAAGA
Summary RRRRRRRRRRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMMMBBBRRRRRRRRRBBBBBBBBBRRRRRRRRRBBBBMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMBBBBB
melanogaster GGCTACGCA-----------------------------------------AATCGATAATCTTTT------------TTATTAAATCTTTTTTTTTTTTTGATTC---------------
simulans GGCTACGCA-----------------------------------------AATCGAAAATCTGTT------------TTATTAAATC------TTTTTTAAAGTC---------------
sechellia GGCTACGCA-----------------------------------------AATCGAAAATCTTTT------------TTATTGAATC------TTTTTTTAAGTC---------------
yakuba ACCTACGCA-----------------------------------------GATTAAAACTCTTTT------------TTACT-AACT------CTTTTTTGAGTC---------------
erecta GGC--------------------------------------------------------------------------TTATT--ACA------TTTTTTTGGGTC---------------
ananassae ACTTGCGT--------------------------------------------TTAAAACATTTTT------------CAATTAGATA--------------AAAT---------------
pseudoobscura ------------------------------------------------------------------------------------------------------------------------
persimilis GTTAACATA-----------------------------------------AATAAATGGTTTTTTATAATTAAGCAATTTTTAAGCA------TTTTTTGGGCACAATATTCAGTATCAA
virilis ------------------------------------------------------------------------------------------------------------------------
mojavensis AAATATATATACCGTT-------------------------------ATCAATATACAATTTTTT------------TTTTTTAAT-------TTATATTCTCAC---------------
grimshawi ATGTACACATACTTTTTGAGATATCTTTAAAGCCACTGTCTGAAAAGCTCAGTCTATTGTTTATT------------TTATGTAAT----------TATTCTCTC---------------
Summary BBBBBBMMMMMMMMMMMMMMMMMMRRRRRRRRRMMMMMMMMMMMMMMMMMMMMMMMMMMMBBRRRRRRRRRRRRRRRRRRMMMMMMMMMRRRRRRRRRBBBBBMMMMMMMMMRRRRRRRR
melanogaster -T----ATCAAGATTAAAAGA--TTTTCAGCTGTTTTT-----AGTATTTTTCTTCCGAAAGAGTGTCACTCCTTCTACTTTAACT---CT-CGCTCTC-----------AG------TT
simulans -C----ATCAAGTTTAAAAGA--TTTTCAGCTGTTTTT-----AGTATTTTTCTTCCGAAAGAGTGTCACTCCTTCTACTTTAACT---CT-CGCTCTC-----------AG------TT
sechellia -T----ATCAAGTTTAAAAGA--TTTTCAGCTGTTTTT-----AGTATTTTTCTTACGAAAGAGTGTCACTGCTTCTAATTTAACT---CT-CGCTTTC-----------AG------TT
yakuba -C----ATCAAGTTTTAAAGA--TTTTCAGTTGTTTTT-----AGCA-TATTCTGGCGAAAGAGTATCAC-------ACTTCAACT---TT-CACTCTCG----------CG------CT
erecta -C----ATCAAGTTTTAGAGA--TCTTCAGCAGTTCCT-----AACA-TCTTCTACCGAAAGAGTATCACTCCTTC-ACTTTAACT---TT-CGCTCT------------CA------GT
ananassae -T----ATTAAATTATTTACA--TTTTCAGTTGCTCC-----------TTT---------AAACTCTCACTCCTTTTACTTTCGCT---GGATACTCTC-----------CT------TT
pseudoobscura ----------------------------------------------------------------------TTCCCCTACTTTCCCTGGCTT-CACTCTCA---------CCG------CT
persimilis AC----ATTAATTTTTAGACAATTTTTGAGTCACATTT-----TTCA-TGATTTTGCAAGTGAATTTT--TTCGCCTACTTTCTCTGGCTT-CGCTCTCA---------CCG------CT
virilis -----------------------------------------------------------------------ACTGTAACTTTCACT---CT-CACTTCGC--------CGTT------TT
mojavensis -T-----TCAAAATC---TTA--ACTTAACTCATCTCT-----AGTTCAGTGCT----------GCTCAATTCTTCTACTCTTACT---CT-CATTTCACTCT--CCGCTCT------TT
grimshawi -TACATATCTATATT---ATA--TCTATAGTTGTCTTTTTAAGAATTACGTTCTCATTTCTAAATCTTAA-------ACTTTTACT---CT-CGTTTCGAGCTAGTCGCCTTTTGCCATT
Summary RBMMMMMMMMMBBBBBMMMMMMMMMBBBBBBBMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBB
melanogaster TGCCTTTTA-CCTTTTCG-AC---TAATGATCAACT-TTAACGTTTGCTAATGACAACTGGCCAGA--ATCGGTCCACCTTTAGCCTTGACAAAT--------------CGCCGTGGCTT
simulans TGCCTTTTA-CCTTTTCG-AC---TAATGATCAACT-TTAACCTTTGCTAATGACAACTGGCCAGA--ATCGGTCCACCTTTAACCTTGACAGAT--------------CGCCGTGGCTT
sechellia TGCCTTTTA-CCTTTTCG-AC---TAATGATCAACT-TTAACCTTTGCTAATGACAACTGGCCAGA--ATCGGTCCACCTTTAACCTTGACAGAT--------------CGCCGTGGCTT
yakuba TGCCTTTTA-CCTTTTCG-CC---TAATGATCAACT-TTAACCTTTGGTAATGACAACTGGCCAGA--ATCGGTCTGCCTTCAACCTTGACAAAT--------------CGCCGTGGCTT
erecta TGCCTTTTA-CCTTTTCG-AC---TAATGATCAACT-TTAACCTTTGCTAATGACAACTGGCCAGA--ATCGGTCTACCTTTAGCCTTGACAAAT--------------CGCCGTGGCTT
ananassae TGCCTTTTA-CCCTTTCGCCC---TAATGATCAACT-TTAACCTTTGCTAATGACAACTGGCAAGC--ATCTGAC-------AACCTTGACAGAT--------------CGCCGTTTCTC
pseudoobscura TGCCTTTTA-CCTTTTCG-CCCCTTAATGAGCAACT-TTAACCTTTGCTAATGACAACTGGCCAGAGAACCAACCGATCGAACCCCTTGACGATT--------------GACC-------
persimilis TGCCTTTTA-CCTTTTCG-CCCCTTAATGAGCAACT-TTAACCTTTGCTAATGACAACTGGCCAGAG-ACCAACCGATCGAAACCCTTGACGATT--------------GACC-------
virilis TGTCTTTTAGGCCG--CG-CC---TAATGAGCAATT-TGAACCTTAGCTAATGACAACTCGC-------------------CAGCCTTGACAAAA------------GACAGCAGGCCGT
mojavensis TGCCTTTTA-GCCGAAAG-CC---TAATGAGCTGTTCTTAACCTTAGCTAATGACAATTCGTAA-----------------CAGCCTTGACAAAA-------------------------
grimshawi TGGCTTTTACCCTT--CG-GC---TAATGAGCAGTT-TTAACCTTAGCTAATGACAACTGACCAAC--G------------CATCCTTGACAAAAGACAAGCCAAAAGACAGCGGGACAG
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRBBBBBBBBBBB
melanogaster GGTGACAGATGAGGAGTTTT-AACTCAGCTTGAAACCG----------------AAACCTAA---AAACCTAAA----ACTCACCATCA----TGTCAACACTTTCCCTGCCAACCATAA
simulans GGTGACAGATGAGGAGTTTTCAACTCAGCTTGAAACCG----------------AAACCTAA---AAACCTAAA----ACTCACCATCA----TGTCAACACTTTCCCTGCCAACCATAA
sechellia GGTGACAGATGAGGAGTTTT-AACTCAGCTTGAAACCG----------------AAACCTAA---AAACCTAAA----ACTCACCATCA----TGTCAACACTTTCCCTGCCAACCATAA
yakuba GGTGACAGATGAGTAGTTTC-AACTCAGCTTGAAACCG----------------AAACCCAA---AAACCTAAA----ACACACCATAA----TGTCAACACTTTCCCTGCCAACCATAA
erecta GGTGACAGATGAGGGGTTTT-AACTCAGCTTGAAACCGAAACCTAAAGACCTAAAAACCTAA---AAACCTAAA----ACACACCATAA----TGTCGACACTTTCCCTGCTAACCATAA
ananassae GGTGACAGATGAGTAGTTAT-GTTTTGACCTTAAACCG----------------AAACCCGA---AACCAGCTT----GCCAACCATCAG---TGTCAACACTTTCCCTGTTACCCATAA
pseudoobscura -TTGACAAATG------CCC-------------AACCG----------------AAAAACCG---AAACGTAAC----CCGAGCGACCAGCCATGTCAACACTTTCGCTGAAACCCCT--
persimilis -TTGACAAATG------CCC-------------AACCG----------------AAA--------------AAC----CCGAGCGACCAGCCATGTCAACACTTTCGCTGAAACCCCT--
virilis GTCGAAAAATT---GTACTT-AACTCAGTAT--GGATG----------------AGGCCAATTCCGTGTCTAAC----CCATCCGACCAACAACGTCAACACTTTCGCTTCCA-------
mojavensis ---------------CCCTT-AACGCAATTG--AAGTG----------------AAGCCAATTTGGTGTCTAAC----CCGATCGACCAAAAATGTCAACACTTTCCCTGTCT-------
grimshawi GGTGAAATTT-----CACTT-AACTCAATTT--AACTG----------------AAGCCAATTCCGTGTCTAACCAAGCAAGCAAACCAGCAACGTCAACACTTTCGCTTGCATCC----
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMBBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ATACTCGAAAAACCCA-TAAAATCACTGAAAT-------------TCAGAC--GAGAGCCGGGCGAAACCCTT-------TGCCACAATTAAAATGTTAAACTGGAGT--AAATATCATA
simulans ATACTCGAAAGACCCA-TAAAATCACTGAAAT-------------TCAGAC--GAGAGCAGGGCGAAACCCTT-------TGCCACAATTAAAATGTTAAACTGGAGT--AAATATCATA
sechellia ATACTCGAAAAACCCA-TAAAATCACTGAAAT-------------TCAGAC--GAGAGCAGGGCGAAACCCTT-------TGCCACAATTAAAATGTTAAACTGGAGT--AGATATCATA
yakuba ATACTCGAAAAACCCATTAAAATCACTGAAAT-------------TCAGACGAGAGAGCAGGGCGAAACCCTT-------TGCTACAATTAAAATGTTAAACTGGAGT--AAATATCATA
erecta ATACTCGAAAAACCCA-TAAAATCACCGAAAT-------------TCAGAC--GAGCGCTGGGCGAAACCCTT-------TGCTACAATTAAAATGTTAAACTGGAGT--AAATATCATA
ananassae ATATCCTGCCGCCC---TAAAGTGCCCAGAAC-------------TCGAGC------------TCGAATCCTT-------TGCTACAATTAAAATGTTAAACTGGAGT--AAATATCATA
pseudoobscura --------------------------------------------------------------------CCTTT-------TGCCACAATTAAAATGTTAAACTGGAGTAAAAATGTCGTA
persimilis --------------------------------------------------------TGCCTTGC----CCTTT-------TGACACAATTAAAATGTTAAACTGGAGTAAAAATGTCGTA
virilis ------------------------------------------------------AGAGCCATAAAGAGGCCTTGCGAGGCTGCTACAATTAAAATGTTAAAC---AGT--AAATAACATA
mojavensis TCACTCACTCACTCAC--TCACTCACTGATCTCTCTCGCTCTTTCTGTGA----AGAGCCATAAAATGTGTTCGC---GTTGCTACAATTAAAATGTTAAAC---AGTAAAAATATCATA
grimshawi --------------------------------------------------------------------------------TGCCACAATTAAAATGTTAAAC---AGT--AAATGTCATA
Summary BBBBBBBBBRRRRRRRRRBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBBRRRRRRRRRBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster AAAGCAATAAAAATCC-CCTAGACGCTAAGAGAATTGCTCTACTTAAGCCGAAAAATGCGT----TGCTCAAAACAAA-TTCC--------------------CAAAAAGTTGCCTCAAA
simulans AAAGCAATAAAAATCC-CGTAGACGCTAAGGGAATTGCTCTACTTAAGCCGAAAAACGCGC----TGCTCAAAACAAA-TTCC--------------------CAAAAAGTTGCCTCAAA
sechellia AAAGCAATAAAAACCC-CGGAGACGCTAAGGGAATTGCTCTACTTAAGCCGAAAAACGCGC----TGCTCAAAACAAA-TTCC--------------------CAAAAAGTTGCCTCAAA
yakuba AAAGCAATAAAAACCCTCAGAGACGCTAAGGGAATTGCGCTAGTTAAGCCGAAAAACGCGC----TGCTCAAAAC-AA-TTCC--------------------CAAAAAGTTGCCTCAAA
erecta AAAACAATAAAAACGCGCGGAGACGCTAAGGGAATTGCGCTACTTAAGCCGAAAAACGCGC----TGCTCAAAAC-AA-TTCC--------------------CAAAAAGTTGCCTCAAA
ananassae AAA-----------CC-CGGCAGC-----AGAAATTGCTCTATTTAAGGCGAAAAAGATAAGACGTCCTCAAAAC-AT-TTCC--------------------CAAAAAGTTGCCTCAAA
pseudoobscura AAATATCGTCTAATCC-CAA------------------------------GAAAAACGCGT----TC----GAAT-AT-TTTC--------------------CAAAAAG------AAAT
persimilis AAATATCGTCGAATCC-CAA------------------------------GAAAAACGCGT----TC----GAAT-AT-TTTC--------------------CAAAAAG------AAAT
virilis AAAGCCGCA-----CT-CGA------------AATTGCGTGCCTTAAAGTGAAAATTGTGT--------CTAAAG-AA-TTCCGCGTACGCGACT-----CGGCAAAAAGTTGCCTCAAA
mojavensis AAATTCGAA----------A------------AACAGAAAACATTTTTGGGCAAAAAGAAG--------CTGACG-GATTTCCGCGTA---------------CAAAAAGTGAGTTGA--
grimshawi AAAACGGCA-----CT-CGA------------AATTGGGTTCCTTAAAGTGAAAATTG-GG--------CTAAAG-AA-TTCCGCGTATGCGACTCGCGACGACAAAAAGTTGCCTCAAA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBBBBB
melanogaster GCAAAGCAAGACTAATTTTTAACAAAGC--AGAAAAAAC-----------AC-------AAAAACTCTGAGTCAGTT-CTTCCGGGAACCACGG-AACTATCCGTT-CAAGGGTCACCAA
simulans GCAAAGCAAGACTAATTTTTAACAAAGC--AGAAAAAAC-----------AC-------AAAAACTCTAAGTCAGTT-CTTCCGGGAACCACGG-AACTATCCGCT-CAAGGGTCACCAA
sechellia GCAAAGCAAGACTAATTTTTAACAAAGC--AGAAAAAAC-----------AC-------AAAAACTCTGAGTCAGTT-CTTCCGGGAACCACGG-AACTATCCGCT-CAAGGGTCAGCTA
yakuba GCAAAGCAAGACTAATTTTTAACAAAGC--AGAAAAAAC-----------AGAAAACACAAAAACACTGAGTCAGTT-CTTCCGGGAACCACGG-AACTATTCGCTAAAAGGGTCACCAA
erecta GCAAAGCAAGACTAATTTTTAACAAAGC--GGAAAAAAC-----------AA-------AAAAACTCTGAGTCAGTT-CTTCCGGGAACCACGGAAACCATCCGCT-GAAGGGTCACCAA
ananassae GCAAAGCAAGACGAATTTTTAACAAAGCCAAGAAAAAAC-----------ATAG-----AAAAACTCTGGGTCACTTGATTCTTGGAA----GA-AAAAATA-----CAAGGGTT----A
pseudoobscura GCAGAGCAAAACGAATTTTTAACAAAACAAAAAAAAAAC-----------AC-------AAAAACTCTGAG--AGGG-CTTCCGAGAA----GT-GATCGTG-----CAGGGGTT----A
persimilis GCAGAGCAAAACGAATTTTTAACAAAAC---AAAAAAAT-----------AC-------AAAAACTCTGAG--AGGG-CTTCCGAGAA----GT-GATCGTG-----CAGGGGTT----A
virilis CCAAGGCGCAGCGAATGGAAAAAAAAA---ACAAAGAAT-----------GG-------AACAAATC----CCAGTG-GTTCCGGGAA-----------------T------------AA
mojavensis --GAGAAGAAAAGAAAAGAAGAAGAAA---GAAAAAAAT---------ACAG-------AGCATGGC----CTATTG-GTTCCGAGAA-----------------T------------AA
grimshawi CTGAGGCACAGCGAATGTTGAACACAA---AAAAAAAATAATAATAGAATGG-------AAAAAATC----CCAGTG-CTTCCGGGAA-----------------T-AA-------TAAA
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster A--GGGTTCGTGAGGATC------TGGAACGAACACCCGAACTAGGTCACTGGATCG-TTGG----GCACAAAAAACGCACAATGCCGGCCAA-TAAAAAAGTAGAGC-GCATCGCAGGA
simulans AAGGGGTTTGCGAGGATC------AGGAATGGACACCCGAACTAGGTCACTGGATCG-TCGG----ACACAAAAAACGCACAATGCCGGCTAA-TAAAAAAGTAGAGC-GCATCGCAGGA
sechellia AAGGGGTTTGCGAGGATC------AGGAACGAAAACCCGAACTAGGTCACTGGATCG-ACGG----GCACAAAAAACGCACAATGCTGGCCAA-TAAAAAAGTAGAGC-GCATCGCAGGA
yakuba A--GGGTTGGCGAGGTTC------GGGATCGAACACCCGAACTAGGTCACTGGATCG-TTGG----GCACAAAAAACGCACAATGCGGGCCAA-TAAAAAAGTAGAGC-GCATCCCAGGA
erecta A--GGGTTCGCGAGGATG------AGGATCGAACACCCGAACTAGGTCACTGGATCG-TCGG----GCACAAAAAACGCACAATGCCGGCCAA-TAAAAAAGTAGAGC-GCAGCCCAGGA
ananassae A--GGGTTA--AAGGATCGTTTCTGGGCCAGAACACCCGAACTAGGTCACTAGATCG--CGG----GCACAAAAAACGCACAATGCCGGATCA-TAAAAAAGTAGAGC-GTATCCCACGG
pseudoobscura A--GGGTTA---------------AG----GGACACCCGAACTAGGTCACTGGATCG-CCGC----CAACAAAAAA-----------GGACCA-TAAAAAAGTAGAGC-GCATCCCACAG
persimilis A--GGGTTA---------------AG----GGACACCCGAACTAGGTCACTGGATCG-CCGC----CAACAAAAAA-----------GGACCA-TAAAAAAGTAGAGC-GCATCCCACAG
virilis A--GGGT-----------------ATACA-GAACACCCGAACTAGACCAGTCGATCGGTCGGACACACA-AAAAAACGCACAAAGCGGCATCGTTAAAAAAGGAGAGC-GCTGCGTGCTG
mojavensis A--GGCT-------------------------ACACCCGAACTAGATCGCCCGA------------ACA-AAAAAGTGAACAAAGCGCGATCGTTAAAAAAGGAGAGC-GCTACGTGCTG
grimshawi A--GGGTTT-TACGGATC------GTGCT-GAACACCCGAACTAGACCACTCTGTCGATC------ACACAAAAAACACACAATGCGGCATCGTTAAAAAAGGAGAGCGGATACGTGCTG
Summary BBBBBBBBBBBBRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster CATCATTGTCCTG----ACCGA-AACCCTTTCTCG-GG----------TTTTACGATAC----AGAGC-----------------TGCTT---TTTGTGTCCT------------TTTTT
simulans CATCATTGTCCTG----GCGGA-AACCCTTTCTCG-GG----------TTTTACGATAC----AGAGC-----------------GGCTT---TTTGTGTCC---------------TTT
sechellia CATCATTGTCCTG----GCCGA-AACCCTTTCTCG-GG----------TTTTACGATAC----AGAGC-----------------GGCTT---TTTGTGTCC--------------TTTT
yakuba CATCATTGTCCTG----GCGGACAACCCTTTTTCG-GG----------TTTTACAATGT----CGAGC-----------------GGCTT---TTTGTGTCC-----------------T
erecta CATCATTGTCCTG----GCGG--AAACCCTTTCCG-AA----------ATTTACGATACAGAGCGAAC-----------------GGCTT---TTTGTGTCC-----------------T
ananassae TGATATTGTCCTGTTTTTTGGA-AACCCTTTTTCGAAG----------TTTTACGATGT----CCTTC-----------------TTTTT---TGGGTGTCT------------------
pseudoobscura CGA---------G----GAGGG-AACCCTTTCTGG-AAGCCCTCTGCTCTTTACGATCT----AGAGCATGACGGATCTTCTTTAGGTTTATTTTTGTTTTTCTT----T----CTTTTT
persimilis CGA---------G----GAGGG-AACCCTTTCTGG-AAGCCCTCTGCTCTTTACGATCT----AGAGCATGACGGATCTTCTTTAGGTTTATATTTGTTTCTCTT----------CTTTT
virilis GGACATTGT--------GCGCG------TTTTTCT-GAACC-------CTTTCCGACTT----GC--C-----------------AGTTT---TATGTCATTTTC----TTTGATTTTTT
mojavensis AGACTTTGT--------GCGTG------TTTT-----------------------GTGT----GC-GT-----------------GGCTT---AAAAACCCTTTCGGAATTTGAGTTTCA
grimshawi AGATATTGT--------ATGAG------TTTTTGG-GAACC-------CTTTCGGAATT----G---T-----------------ACTTT---TATGTCAAC-----------ACTCTTG
Summary BBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBMMMMMMMMMBBRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMBBBBB
melanogaster TTTTTGG--------AAACTTCTTCATAATTGTAGCAAAAAATTAGTGCAC--ATC-TTTAGAATTTACATAGAACTCGA--------------------------------------CC
simulans TTTTTGG--------AAACTTCTCCATAATTGTAGCAAAAAATTAGTGCAC--ATC-TTTAGAATTTACATAGAACTCGA--------------------------------------CC
sechellia TTTTTGG--------AAACTTCTCCATAATTGTAGCAAAAAATTAGTGCAC--ATC-TTTAGAATTTACATAGAACTCGA--------------------------------------CC
yakuba TTTTTGG--------AAACTTCTGCATAATTGTAGCAAAAAATTAGTGCAC--ATCTTTTGGAATTTACATAGAACGCGA--------------------------------------CC
erecta TTTTTGG--------AAACTTCCTCATAATTGTAGCAAAAAATTAGTGCAC--ATC-TTTAGAATTTACATAGAACTCGA--------------------------------------CC
ananassae TTTTGAA--------AATCTTCCCGATAATTGTAGCAAAAAATTAGTGCAAGGAAT-TTGGAAATTTACATAGAACTCGA----------------------------------------
pseudoobscura TTTTTCGTTGGGCATAGTATTCCCGATAATTGTGGCAAAAAATTAGTGCAC--GAC------GATTTACATAGAACTCGACAACTGGCGAG-------CTACGACCTACGACCTACGACC
persimilis TTTTCGGTTGGGTATAGTATTCCCGATAATTGTGGCAAAAAATTAGTGCAC--GAC------GATTTACATAGAACTCGACAACTGGCGAGCTACGACCTACGACCTACGACCTACGACC
virilis TTTTCCC--------CGTTTCGGGAAAAATTGTAGCAAAAAATTGGTGCAG--C--------AATTTACATAGAACT-GA--------------------------------------CC
mojavensis TCTC-------------------AAGAAATTGTAACAAAAAATTGGTGC--------------ATTTACGTAGAAGT-GA--------------------------------------CC
grimshawi TTTTTTC--------GGGAACTGGCAAAATTGTAGCAAAAAATTGGTTCAC--TCTTTTTCGAATTTACATAGAAGT-GG--------------------------------------CC
Summary BBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMMMMMMMMMMMMRRRRRRRRRBBBBBB
melanogaster TTCG---------------------------------------------------------------------------------TTGACACTGCGTTTAACTTTTGATTTG---GCATC
simulans TTCG---------------------------------------------------------------------------------TTGACACTGCGTTTAACTTTTGATTTG---GCATC
sechellia TTCG---------------------------------------------------------------------------------TTGACACTGCGTTTAACTTTTGATTTG---GCATC
yakuba TTCG---------------------------------------------------------------------------------TTGACACTGCGTTTAACTTTTGATTTG---GCATC
erecta TTCG---------------------------------------------------------------------------------TTGACACTGCGTTTAACTTTTGATTTG---GCATC
ananassae ----------------------------------------------------------------------------------------GTATGACCTTTAACTTTTGATTTG---GCATA
pseudoobscura TTCGATC------------------------------------------------------------------------CATGGTTTGACATTGCATTTAACTTTTGATTTGACAGCATC
persimilis TTCGATC------------------------------------------------------------------------CATGGGTTGACATTGCATTTAACTTTTGATTTGACAGCATC
virilis TTGGCGG----------GAGCAGCGGAATG-------------------GACATGTACGATAATGATAATGCCGCTGA-CAT------ATATTTCATTTAACTTTTGATTTG---GCATC
mojavensis TTGGCCAAGGGCGACTCGAGTAACTGAGTAGC----------------TGGCCTGTA----------------GCTGGCCAT---TTGACATTTCATTTAACTTTTGATTTG---GCATG
grimshawi TTCGAAA----------GAGCA-CTGAGAGATGATGATGATATTGCCGTGGCCAGCT--AAACTAGCAAGGATACTC--TGT---GTGACAACTCATTTAACTTTTGATTTG---GCATC
Summary RRRRRRRRRRRRRRRRRRMMMMMMMMMMMMMMMMMMMMMMMMMMMRRRRRRRRRMMMMMMMMMMMMMMMMMMMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TTGACTGAGTTCGAAGGAGAAGGGGAAAAAAAATGT------AAAA-TGGTGG--------CGGGAAAG---------------------------------------------------
simulans TTGACTGAGTTCGACGGAGCAGGGG-AAAAAATTGTATTGTAAAAA-TGGTGG--------CGGGAAAG---------------------------------------------------
sechellia TTGACTGAGTTTGACGGAGCAGGAG-AAAAAATTGT------AAAA-TGGTGG--------CGGGAAAG---------------------------------------------------
yakuba TTGACTG-------------AGGGG-CAAAAA-TGT---TGGAAAA-TGGTGGCGGA----CGGGAAGG---------------------------------------------------
erecta TTGACTGAGTACGGC-CACCAGGGG-AATAGA-TGC------AAAA-TGGTGG--------CGGGAAAG---------------------------------------------------
ananassae TTGACTGGCGGAGGGCGAGAGTTGG-CGGAGT-TGG------AAAA-TGGCGGGAAATGTCAGCGAAAG---------------------------------------------------
pseudoobscura TTGACTG-------------AGAGG-GAAAAC-TGA-TGAGGGGAA-GGATGC--------AGGGAAAG---------------------------------------------------
persimilis TTGACTG-------------AGAGG-GAAAAC-TGA-TGAGGGGAA-GGATGC--------AGGGAAAG---------------------------------------------------
virilis TTGACTG---------------TCG-GACTGC-TGT------TGAGCGGATTT--------TTGGGAAAACTG-----------------------------------------------
mojavensis TTGAC---------------------GACG---TGT------TTAA-GGATTT--------TTGGGAAAATCGCTCTATGTGGACGTATGTATGTGTGTATGTATATGTGTATGCATGTA
grimshawi TTGAA---------------------GAGT-----T------TTAA--GGCGT--------TTGGGAAACCAGTCGAATATGG-------------------------------------
Summary BBBBBBBBRRRRRRRRRBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBRRRRRRRRRBBBBBBBBRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMM
melanogaster ------------------G------------C----TGGGT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAACGCAGCA-
simulans ------------------G------------C----TGGGT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAACGCAGCA-
sechellia ------------------G------------C----TGGGT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAACGCAGCA-
yakuba ------------------G------------CTGGATGGGT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAACGCAGCA-
erecta ------------------G------------C----TGGGT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAACGCAGCA-
ananassae ------------------GATGGCGTAGCGAC----TGGTT---------AATGGCTTTACAACTTGTTGTCTATAATTATGGTTAAAATGGGCCGTAATCCTTT-GCTAAATGCAGC--
pseudoobscura ------------------GATGTTGC-----C----TGGTT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTTAAAATGGGCCGTAATCCTTT-GCTAAATGCAGCA-
persimilis ------------------GATGTTGC-----C----TGGTT---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTTAAAATGGGCCGTAATCCTTT-GCTAAATGCAGCA-
virilis ------------------G------------C----TACGA---------AATGGCTTTACAACTTGTTGTCACTAATTATGGTCGAAATGGGCCGTAATCCTTT-GCTAAATGCAGCAA
mojavensis TGTATGCATGTGGCTGTAG------------C----TATAGCTTTGCCTCGGCAACTTTACAACTTGTTGTCTCTAATTATGGTTGAAATGGGCCGTAATCCTTTAGCTAAACGT-GCA-
grimshawi ------------------C------------C----GACCA---------AATGGCTTTACAACTTGTTGTCTCTAATTATGGTTGAAATGGGCCGTAATCCTTT-GCTAAATGCAGCAA
Summary MRRRRRRRRRRRRRRRRRRMMMMMMMMMMMMMMMMMMBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster ACACAG-ACCGCCC------------CGT-TTCGC-CACGAATTCC-------AGTTC------ATCCGAGTG-------------------------------GCC----GAAT-CCAT
simulans ACACAG-ACCGCCC------------CGT-TTCGC-CACGAATTCC-------AGTTC------TTCCGAGTG-------------------------------GCC----GAAT-CCAT
sechellia ACACAG-ACCGCCC------------CGT-TTCGC-CACGAATTCC-------AGTTC------TTCCGAGTG-------------------------------GCC----GAAT-CCAT
yakuba ACACAG-ACCGCCC------------CGT-TTCGCACAGTTCTTCC-------AGTTC------TTCCGAGTG-------------------------------TCCGGCTGAAT--CAT
erecta ACACAG-ACCGCCC------------CGT-TTCGC-CAGTTC--CC-------AGTTC------TTCAGCGTG-------------------------------GCT-GCGGAAT--CAT
ananassae ACACAG-ACCGCCC------------CCTGCTCGCCCAAAAATTCC--GTCCGAATTC----AGTTCCGAGTGAAATGAAACCAAAAGTCCTGCAGTCAGGATTGCA----GGATATCGT
pseudoobscura ACACAGCAACGCCC------------CAG-----C-CGAGCATCCCACGAAAGAGCCCGGAGAGATCCGAGAG-------------------------------ATG----GAAA-----
persimilis ACACAGCAACGCCC------------CAG-----C-CGAGCATCCCACGAAAGAGCCCGGAGAGATCCGAGAG-------------------------------ATG----GAAA-----
virilis ACAGAG-TACGCCC------------CGT-TTCCC---------------------------------------------------------------------ACG----AAAT-----
mojavensis --------ACGCCT------------CGT-TTCGC---------------------------------------------------------------------TAG----AA-------
grimshawi ACAGAG-AACGCCCCGAGGCAGCCAGCGA-TTCGC---------------------------------------------------------------------GGG----AAAT-----
Summary BBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBMMMMMMMMMBBBBBBRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMMMBBBBBBBBBBBBBBB
melanogaster -TGAGTTCCCGCGAAATCCGCGTCATGGTTAAACGCGACTAATCCTTC--------------CCGTAAGCC---------------------------------CTTCGC----------
simulans -TGAGTTCCCGCGAAATCCGCGTCATGGTTAAACGCGACTAATCCTTC--------------CCGTAAGCC---------------------------------CTTCGC----------
sechellia -TGAGTTCCCGCGAAATCCGCGTCATGGTTAAACGCGACTAATCCTTC--------------CCGTAAGCC---------------------------------CTTCGC----------
yakuba -TGAGTTTCCGCGAAATCCGCGTCATGGTTAAACGCGACTAATCCTTC--------------CCGTAAGCC---------------------------------CTTCGC----------
erecta -TGAGTTTCCGCGAAATCCATGTCATGGTTAAACGCGACTAATCCTTC--------------CCGTAAGCC---------------------------------CTTCGC----------
ananassae ATGGATTCCCGCGAAATCCGCGTCATGGTTAAACGCGACTAATCCTTC--------------CAGTAAGCC---------------------------------CTTCGC----------
pseudoobscura -T---TTCACGCGAATTCCGCGTCATGGTTAAACGCGACTAATCCTTCCG------------CAGTAAGCC---------------------------------CTT-------------
persimilis -T---TTCACGCGAATTCCGCGTCATGGTTAAACGCGACTAATCCTTCCG------------CAGTAAGCC---------------------------------CTT-------------
virilis --------------------CGTCATGGTTAAACGCGGCTAATCCTTGC------CCAGGACCAGTACTCAGGCTCAGGAAACAGTTCCAGCCA------AGCCCTTCACTGAACTCCGA
mojavensis ---------------------TTCATGGTTAAATGTGACTAATCCTTTTG-----CCACGAACAGCAATCC--------------TTGCAGCAG------CATCCTTCGC----------
grimshawi --------------------CGTCATGGTTAAATGCGACTAATCCTTCCGAGCAACCAAGCCAACCAAGCC--------------AACCAGCCAGCAATCCCTTCTTCACTGAACT----
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRBBBBBBMMMMMMMMMRRRRRRRRRRRRRRRRRRBBBBBBBBBBBMMMMMMMMMMMM
melanogaster ---------------------AGCGACCTGAACCCGGTTCAGTTCACGGCAGTTCAG-TTCGGTGGGCGTTTTTGTTTAGTTTCGAAATCAAAATATTAGCAAA---CAC----------
simulans ---------------------AGCGACCTGAACCCGGTTCAGTTCACGGCAGTTCAG-TTCGGTGGGCGTTTTTGTTTAGTTTCGAAATCAAAATATTGGCAAA---CAC----------
sechellia ---------------------AGCGACCTGAACCCGGTTCAGTTCACGTCAGTTCAG-TTCGGTGGGCGTTTTTGTTTAGTTTCGAAATCAAAATATTGGCAAA---CAC----------
yakuba ---------------------AGCGACCTGAACCCGGTTCAGTGCACGGCAGTTCAGTTTTGGTGGGCGTTATTGTTTAGTTTCGAAATCAAAATATTGGCAAA---CAC----------
erecta ---------------------AGCGACCTGAACCCGGTTCAGTTCACGGCAGTTCAG-TTTGGTGGGCGTTTTTGTTTAGTTTCGAAATCAAAATATTGGCAAA---CAC----------
ananassae ---------------------TCCGACCTGGACCTGG---------------------TTCGGTGGGCG-TATTGTTTAGTTTCGAAATCAAAATATTAGCAAA---CAC----------
pseudoobscura ---------------------------TCGGACTCGGGCCAGGACTCGG---------T--GGTGGGCG-TATTGTTTTGTTTCGAAATCAAAATATTAGCAAATGTCGG----------
persimilis ---------------------------TCGGACTCGGGCCAGGACTCGG---------T--GGTGGGCG-TATTGTTTTGTTTCGAAATCAAAATATTAGCAAATGTCGT----------
virilis CTGTCCGACTGTCCGACTGTCGGTGACCTGAACCCG--------------------G-TTCGGTGGGCG-TATTGTTTATTTTCGAAATCAAAATATTGGCAAA---CAC----------
mojavensis --------CCGCCCGCCGGCTGCTGACCTGGACTCGCT----AGC-----------G-CTCTGTGGGCG-TATTGTTTATTTTCGAAATCAAAATATTTGCAAA---CACTGCGAATAAC
grimshawi --------TTATGCTCCGGCTGCTGACCTGAACCCGGTTCGGAGC----------AG-TTCGGTGGGCG-TATTGTTTAGTTTCGAAATCAAAATATTAGCAAA---CAC----------
Summary MMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMRRRRRRR
melanogaster ------GCTGAAG-----GCAATACG-------GCT------GAAAGGGAAAATG--TGCAAGGATTAAGCCGA-------------ACACATCCTTTCG--------CAACCTTGGACC
simulans ------GCTGAA------GGAATACG-------CCT------GAAAGGGAAAATG--TGCAAGGATTAAGCCGA-------------ACACATCCTTTCG--------CAACCTTGGACC
sechellia ------GCTGAAG-----GGAATACG-------GCT------GAAAGGGAAAATG--TGCAAGGATTAAGCCGA-------------ACACATCCTTTCG--------CAACCTTGGACC
yakuba ------GCTGAG------GGAATACG-------GCT------GAAAGGGAAAATG--TGCAAGGATTAAGCCGAACCCGA------CACACATCCTTTCG--------CAACCTTGGACC
erecta ------GCTGAG------GGAATACG-------GCT------GAAAGGGAAAATG--TGCAAGGATTAAGCCGAA------------ACACATCCTTTCG--------CAACCTTGGACC
ananassae -----TGACGAAAAGGGCGAAATACG-------G-T------GAAAGGGCAAATG--TGCAAGGATTAAGCCGA-------------GC-CATCCTTTCG--------CAACCTTGAGCC
pseudoobscura ------CCTGAA------AGGGCAAG-------GAT------GTGCCGG--ACTG--TGCAAGGATTAAGCCGCGAACGAGAACACGGCACATCCTTTCG--------CAACCTTGG---
persimilis ------CCTGAA------AGGGCAAG-------GATGTGCCGGTGCCGG--GCTG--TGCAAGGATTAAGCCGCGAACGAGAACACAGCACATCCTTTCG--------CAACCTTGG---
virilis ------ACACGG------CGAATACG-------GGT------AAACG---CGGCG--TGCAAGGATTAAGCCGCCGA----------GCACATCCTTTCG--------CAACCTTGGCA-
mojavensis CTAGAACCGAGG------CGAGGAAGAAGAAGTGGT------AGGCG--TCGTCGATTGCAAGGATTAAGACG-----------------CATCCTTTCGCCTTGACACAACCTTGAC--
grimshawi ---------TGG------CGAATACT-------GGA------GAA-----CTGTG--TGCAAGGATTAGCGCG--------------ATACATCCTTTCG--------CAACCTTGGAAG
Summary RRBBBBBBRRRRRRRRRBBBBBRRRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBB
melanogaster CTTCCACGTTCGCG-CACACGCTCGC--AATTTTACGA-CTT--------------TCTTC----TAACC------CGAA-------------------TGCGAT---------TTCGAT
simulans CTTCCACGTTCGCG-CACACGCTCGC--AATTTTACGA-CTT--------------TTTCC----TAACC------CGAA-------------------TGCGAT---------TTCGAT
sechellia CTTCCACGTTCGTG-CACACGCTCGC--AATTTTACGA-CTT--------------TCTCC----TAACC------CGAA-------------------TGCGAT---------TTTGAT
yakuba CTTCCACGTTCGCG-CACACGCTCGC--AATTTTACGA-CTT--------------TCTCC----TAACCCGAATGCGTT-------------------TGCGAT---------TGCGAT
erecta CTTCCACGTTCGCG-CACACGCTCGC--AATTTTACGA-CTT--------------TCTCC---------------CGAT-------------------TCCGAT---------TCCGAT
ananassae -------------A-GGCACGCTCGC--AATTTTATGA-CTT--------------TCGCC----CAACC------CGCC-------------------GCCGAT---------TCTGAA
pseudoobscura ---CAGCCTTGGGA-CACACGCTCGC--AATTTTACGA-TC---------------------------CC------TGAA-------------------TGC--T---------TGCCTC
persimilis ---CAGCCTTGGGA-CACACGCTCGC--AATTTTACGA-TC---------------------------CC------TGAA-------------------TCC--T---------TGCCTC
virilis ---------------AACACGCTCGC-GACTTTTATGA-CGT--------------TTGCTGCCACATGC------CACAAACTAGCTGCGACTGCGACTGCGACTGCGCCTGCCTCATT
mojavensis ----------------ACACGCTCGC-TGATTTTATGG-CATTTCATTGGCAAAAGTTGTTGCCACATGC------CACA-------------------TGCCAC-ACAGCTAACTATGT
grimshawi C--ACATTTCTGCAGAGCACGCTCGCTTGATTTTATGACCAC--------------TACTTGCCACATGC------CAAA---------------TCATCGCATC-----CTTCTTCGTC
Summary BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMMMRRRRRRRRRMMMMMMMMMMMMMMMMMMBBRRRRRRRRRBBBBBBBBB
melanogaster TCCGA--------------------------------CTTTGGCGAAAACGCATGCCAAGCGCATGTCCTTGCCACGATCCTAAGATCCTCGATTG--------------------TTTC
simulans TTCGA--------------------------------CTTTGGCGAAAACGCATGCCAAGCGCATGTCCTTGCCACGATCCTACGATCCTCAATTG--------------------TTTC
sechellia TTCGA--------------------------------CTTTGGCGAAAACGCATGCCAAGCGCATGTCCTTGCAACGATCCTACGATCCTCAATTG--------------------TTTC
yakuba TCCGA--------------------------------CTTTGGCGAAAACGCATGCCAAGCGCATGTCCTTGCCACGATCCT-------TCGACT-------------------------
erecta TCCGA--------------------------------CTTTGGCGAAAACGCATGCCAAGCGCATGTCCTTGCCACGATCCT-------TCGATTG--------------------TTTC
ananassae TCCGAATCCTCGAATTCCTTCTCTATATTGACTTTGTCTTTGGCGAAAA--CATGGCTCGCGGA--TCCTTGGCCCGTTCACGCGACACACCATTGTCCTGCGATTCGCAGGACCCTTTC
pseudoobscura CTTGC--------------------------------CTCTGCCAC-----TCTGCCA---------CTCTGCCACATGCGCGCGTCTCTCATTTG--------------------T---
persimilis CTTGC--------------------------------CTC------------CTGGC----------CTCTGCCACATGCGCGCGTCTCTCATTTG--------------------T---
virilis CTTGG--------------------------------TCCTGGCTAATA-ATGTGCAAT-TGTTCA-----GCGAAGAGTTGACTTTCGTTTTTTT--------------------CC--
mojavensis TTTCC--------------------------------TCCTGCCTC---------------------------------CTGCCTCCTGTCTCCTG--------------------CC--
grimshawi CGCAG--------------------------------TCCTGGCTAATA-ATGTGCAATGCGCACG-------------CTGCTTTTGTTCAGTTT--------------------TC--
Summary BRRRRRRRRRMMMMMMMMMMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRRRRRRRRRRRRB
melanogaster GTCCTAAGAGTTGACTTTCG--TTTTTTAAC-----------------TCGTCCCGTGCCGAAG--------GACAATC--CTTTGC------CGATTTGCCCAT--TGTTGCGGTTGTC
simulans GCCCTCCGAGTTGACTTTCG--TTTTTTAAC-----------------TCGTCCCG-GCCGAAG--------GACAATC--CTTTGC------CGATTTGCCCAT--TGTTGCGGTTGTC
sechellia GCCCTCCGAGTTGACTTTCG--TTTTTTAAT-----------------TCGTCCCG-GTCGAAG--------GACAATC--CTTTGC------CGATTTGGCCAT--TGTTGCGGTTGTC
yakuba ----------TTGACTTTCG--TTTTTTAAC-----------------TCGTCCCT-GGCGAAG--------GACAATC--CTTTGC------CGATTTGTCCAT--TGTTGCGGTTGTC
erecta GTCCTCCGAGTTGACTTTCG--TTTTTTAAC-----------------TCGTCCCT-GCCGTAG--------GACAATC--CTTTGCCCAATGCGATTGGCCCAT--TGTTGCGGTTGTC
ananassae AGTCGCAGGATTGACTTTCG--TTTTTTAAC-----------------TCGTCCTT-GCCGTGC--------AACAAGC--CTTTGC------CGATTTTTCCAT--TGTTGCGGTTGTC
pseudoobscura ----------TTGACTTTCG--TTTTTTAA---------------------------GC--------------GTAGCC--CTTCGA------TGGCATATCCTT--TGTTGCGGTTCTT
persimilis ----------TTGACTTTCG--TTTTTTAA---------------------------GC--------------GTAGCC--CTTCGA------TGGCATATCCTT--TGTTGCGGTTCTT
virilis -------------GCTTTTTACTTTTTTAACC----------CGCGCGTTGTCCTT-GCCCAA---------GCCTTTC--CCCTGC------AGCCCTTT------TGTTGCGGT----
mojavensis -------------ACCTTCGTCCTGGCTAATAATGTGCAATGCGCACGCTGCCTTT-GTTGCACTTCTAGTTGACTTTCGTTTTTTC------AGCCTTTTTTATCCTTTTTTCCT----
grimshawi ---AGCAATGTTGACTTTCAGTTTTTTTAACC-----CGACCCACGGCATGTCCTT-GCCAAGCCTTTTTCCGGCTGCC--TTTGGC------AAGCCTTT------TGTTGCGGT----
Summary MMMMMMMMMBBBBBBBBBBBBBBBBBBBMMMMMMMMMRRRRRRRRRBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBB
melanogaster TCGACTCC--TTT------TTTTGCCAGAGGG---TTACG---GTCC-ATTGTGGTGGCGATTGTCGCGTCCCCTTTGTGGCGAATTTCG------ACCCGG-----GATC-----GCAG
simulans TCGACTCC---TT------TTTTGCCAGAGGG---TTACG---GTCC-ATTGTGGTGGCGATTGTCGCGT--CCTTTGTGGCGAATTTCG------ACCCGG-----GATC-----GCTG
sechellia TCGACTCC---TT------TTTTGCCAGAGGG---TTACG---GTCC-ATTGTGGTGGCGATTGTCGCGT--CCTTTGTGGCGAATTTCG------ACCCGG-----GATC-----GCTG
yakuba TCAACTCC---TT------TTTTGCCAGAGGG---TTACG---GTCC-ATTGTGGTGGCGATTGTCGTGT--CCTTTGTGGCAAATTTCG------ACCCGG-----GATC-----GCTG
erecta TCAACTCC--TTT------TTTTGCCAGAGGG---TTACG---GCCC-TTTGTGGTGGCGATTGTCGAGT--CCTTTGTGGCGAATTTCG------ACCCGG-----GATC-----GCCG
ananassae ACAACTCCTTTTT------TTGTGCCAGAGGG---TTGCA---TCCT-TTTGTGGTGGCGATTGTT-TAT--CCTTTGTGGCCATCCTC--------CCGGG-----GTTC-----GCTG
pseudoobscura TCTACTCT--TTTTTTTTCTTTTTAGAGAGGG---TTGCA---ATCCTTTTGTGGTGACAATTGTGTC----CCTGTGTGTCGTGCTCC--------TCGGG-----GTTCCCTCAGCCT
persimilis TCTACTCT--TTT------TTTTTAGAGAGGG---TTGCA---ATCCTTTTGTGGTGACAATTGTGTC----CCTGTGTGTCGTGCTCC--------TCGGG-----GTTCCCTCAGCGT
virilis ----CGCA--TTT------TTTA-----CGGG---TTGCACACGGCA-----------CAATTGCCAC----CTTTTGTGGCAATTGTCG----TCATTGTGCTGCCGGCT-----GC--
mojavensis ----CACA--TTT------TTTAGCC--CGCGTCCTTGCCCGAAGCC-TTT-------CGCCTGCAGC----CTTTTGTTGCGGTCGCAT----TTTTTATG-----GGTT-----GCAA
grimshawi ----CGCA--TTT------TTTA-----CGGG---TTGCAC--GGCA-----------CAATTGCCGC----CTTTTGTGGCAATTGTCGGCAATTGTAGTA-----GCTC-----GT--
Summary BBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBRRRRRRRRRBBBBBB
melanogaster TTTTTTACGATCCTCAACGG----G----------------TTTTACG------ACC--------TCCGTCCGTTTTTTAAGCCTTTCTGCTCTGCCATCCTCTGACCCGTTCAGTTCAA
simulans TTTTTTACGATCCTCAACGG----G----------------TTTTACG------ACC--------TCCGTCCGTTTTTTAAGCCTTTCTGCTCTGCCATCCTCTGACCCGTCCAGTTCTG
sechellia TTTTTTACGATCCTCAACGG----G----------------TTTTACG------ACC--------TCCGTCCGTTTTTTAAGCCTTTCTGCTCTGCCATCCTCTGACCCGTCCAGTTCAG
yakuba TTTTTTACGATCCTCAACGG----C----------------TTTTACG------ACC--------TCCGCCCGTTTTTTAAGCCTTTCTGCTCTGCTCTGCTCTGACCCGTTCAGTTCAG
erecta TTTTTTACGATCCTCAGCGG----C----------------TTTTACG------ACC--------TCCGTCCGTTTTTTAAGCCTTTCTGCTCTGCTCTCCTCTGACCCGTTCAGT----
ananassae TTTTT-----TTCTCAATAC----G----------------TTTATGG---TGCATC--------CGCGTCCGTTTTTTAAGCCTTTTTGCTCTGCTCTCCTCTGACCCGTTCAGT----
pseudoobscura TTTTTTACGAACCTCAAAGGATGCG----------------TTTTATG------GCCGTCCGCCGTCCGCTCGTTTTTTAAGCCTTTCTGCTCTGCTCTGCTCTCTCC---TCAGATCAG
persimilis TTTTTTACAAACCTCAAAGGATGCG----------------TTTTATG------GCCGTCCGCCGCCCGCTCGTTTTTTAAGCCTTTCTGCTCTGCTCTGCTCTCTCC---TCAGATCAG
virilis -----------TCGCAGTGC----G------AAGGTCCTTTTTTTGCA--------------------GCGTTTTTTTTAAGCCTTTTTGCTCTGCTC----------------------
mojavensis TCCTTT----GTGGCAAATC----GGTTGACATGGTCGATGTCCTGCAG----GACC--------TTCGCTTGTTTTTTAAGCCTTTCTGCTCTGCTCTGCT------------------
grimshawi -----------CCTCGATCC----G------CACGTCTTTTTTTTATGGCGAAGGTC--------CTTCCTTTTTTGTCAAGCCTTTCTGCTCTGCTC----------------------
Summary BBBBBBBBBBBBBBBRRRRRRRRRMMMMMMMMMMMMMMMMMMBBRRRRRRRRRBBBBMMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRR
melanogaster A-----TCAGTTCGGTG-TCAA---CTCTTTCGG------GTTCTCATAGCGGGTTGT--------AAAATCC----GGCTGGA
simulans ATCAGTTCAGTTCGGTG-TCAA---CTCTTTCGG------GTCCTCTTCGCGGGTTGT--------AAAATCC----GGCTGGA
sechellia ATCAGTTCAGTTCGGTG-TCAA---CTCTTTCGG------GTCCTCTTCGCGGGTTGT--------AAAATCC----GGCTGGA
yakuba A-----TCAGTTCGGGG-TCAA---CTCTTTCGG------GTTCTCTTCGCGGGTTGT--------AAAATCC----CTCTGGA
erecta ------TCAGTTCGATG-TCAA---CTCTTTCTG------GTCCTCTTCGCGGGTTGT--------AAAATCC----GTCAGGA
ananassae ------TCAGTTCGGGG-TCAA---CTCTTTAGG------ACTTTCT----GGGCTGT--------AAAATCCT---TTCCCAA
pseudoobscura A-----GCTCTCCGAAGATCAG---TTTTTTGGG------CTGCT------GGGTTGT--------AAAATCTCTCGCGCTGGA
persimilis A-----GCTCTCTGAAGATCAGTTTTTTTTTGGG------CTGCT------GGGTTGT--------AAAATCTCTCGCGCTGGA
virilis ------------------TCAA---CTCTTTCTG-CCAGAGTTCAGGTCGAGAGTTGTCTGTATCGTAAATAT----TAATGGA
mojavensis ----------------G-TCAA---CTCTTTTTGCCCAGAGTTCAGTTCGAGCCGTGTTTTT----------------------
grimshawi ------------------TCAA---CTCTTTTTG-CCAGAGTTCAGGTCAGGAGTTGT---------AAATAT----CACTAGA
Summary RRRRBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBBBBBBBBBRRRRRRRRRBBBBBBBBBRRRRRRRRRBB
kr