crm
                 
   melanogaster  ATG---GGGTTTC------TGAAATAGGTTT----GCCAAACAAATTTTAAGTA----TAAATGTATA-----CATATG--TCAA---CTAATAAAT-TTAGCAAATAAAAT---GTACC
       simulans  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
      sechellia  ATGT--GGATTTC------TAAAATAGA-TT----GCCAAACAAATTGTAAGTA----TATATTTATACATATCATATG--TCAA---CTAATAAAT-TTAGCAAATAAAAC---GTACC
         yakuba  AA----GGGGTTT------CAAAATAGA-TT----TAAAAGAAAATTATGAGCA----CATGTGCA----------------CAA---CTAATAAGG-TTCGCATGTAAAAC---TCACC
         erecta  AG----TGCTTTC------CAAAATAGA-TT----GCCAAACAAAT------------------------------------CAA---CTAATAACT-TT--------------------
      ananassae  --------TTTTT------TTACAAATT-TT----ATCATAAAACTTTTATGTATTTTTAAGTGTTGGCCTATT--------TTA---GGAATGATT-TT-----------------ACT
  pseudoobscura  ------------------------------------------------------------------------------------------------------------------------
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  ------------------------------------------------------------------------------------------------------------------------
     mojavensis  ------GAAATTT--GGTGAAAATTATT-TT----GACAGAAATCTTTATAGAA--------TGTTTAAGAAATATTTTATTCAA---ATATAAAAATTTCGTAA----------ATAAC
      grimshawi  ATGCCTGGATTTT--AGATGAAATTGGT-TTCCTAGCCAGAGCACTTCTTTGAG-ACACCATTGTTTGCCGGACAGCTGACCGGATGGGTATGGAGG-ATCGTGAAGTTATCGGCATAGT
        Summary  BBBBBBBBMMMMMMMMRRRRRRRRBBBBBBBBBRRRRRRRRBBBMMMMMMMMBBBBMMMMMMMMBBBBBBBBBBBBBBBRRRRRRRRRRRRRRRRBBRRRRRRRRRRRRRRRRMMMMMMM

                 
   melanogaster  TGCAAGTAT--------------------CTATAAATTTATTGGACCAATTTTGTGTAAAAAACTGAACTG------------------GCAC------------TCTTC----------
       simulans  NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCATT----------
      sechellia  TGCAA-------------------------TATACATTTATTGGATCAA--TTATGTAAAAAACTGAGCTG------------------GCAC------------TCTTC----------
         yakuba  TGCTTAGAT--------------------CTATGAATTTA----AAAAA--CTGTTGTAAATCCTGCGTTG------------------GCAC------------TCTTC----------
         erecta  ----------------------------------AATTTA----AAAAA--CTG--GGCAATCCTGAGTTG------------------GCAG------------TCTTC----------
      ananassae  ACCAA-------------------------TTTGTGTTTTTTGGCCAAA--ATACTTAAATTAATTAACTG------------------A------------------TT----------
  pseudoobscura  -----GTATTTAAAGCCGTTTTGATCCTCTTGTATGTTTG-TGGCTTAA--CTTT-------------TTG------------------GCTC------------GCTTC----TGCA--
     persimilis  -----GTATTTAAAGCCGTTTTGATCCTCTTGTATGTTTG-TGGCTTAA--CTTT-------------TTG------------------GCTC------------GCTTC----TGCA--
        virilis  ------------------------------------------------------------------------------------------------------------------------
     mojavensis  TGAGA--------------------------------------GATAAA--TTCT-CTAAATTAAAGAGTAT--ATATTAAAATAGCTGCACTG--------------------------
      grimshawi  TGCGT--------------------------------------GGCAAA--T-----TGAATTTGGCACTGTCGGCACCCAAATAGCAGGCACCATAGGCGCTACTCTTGGTGATGCACA
        Summary  MBRRRRRRRRBBBBBBBBBBBBBBBBBBMMMMMMMMMMMMMMMMRRRRRRRRBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  --------------CCAAGAATG--GGACTTCGAGGACTCCT----TGCTGAA----TCACTTACTCAACCC-ATTCCAACTCATCCAAT-CCGCGC--AATCATCATAAATT-TTGGCC
       simulans  --------------GTAAAAAAG--GGGCTTCCAAGAGGATGAGATCGGTGGA----TCATT---TCTAACC-ACCC--ACTCATC--AT-CGGC-----ATCATCATAA----TTAGTC
      sechellia  --------------CAAAGAATG--GGACTTCGAGGACTCCG----TGCTGAA----TCACTTACTCAACCC-ATCCCAACTCATCCAAT-CCGCGC--AATCATCATAAATT-TTGGTC
         yakuba  --------------CCAAAAATG--CGTCTGCGAGGACTCCG----CGCTGAA----TCACTTACTCAACCC-ATC----------CCGT-TCGCGC--AATCATCATAAATG-TTGGTC
         erecta  --------------CCAAGAATG--GCTCCTCGAGGATTTCG----GGCTGAA----TCACTTACTCAACCC-GTCG------ATTCCGT-CCGCGC--AATCATCATAAATTCTCGGTC
      ananassae  --------------TAAACAAT------TTGTGAGGC---------TCATGGA----TGACAGA---GACCC-CTTC---------TAATGCCTCAC--AATCATCATAAATTGTTGCCA
  pseudoobscura  --------AGATCGCAAAGAATG--GGAACTGGAAAATGCTT----TGTTCGG----TCTCTCACCCTCCCCGATCC-------------------------------------------
     persimilis  --------AGATCGCAAAGAATG--GGAACTGGAAAATGCTT----TGTTCGG----TCTCTCACCCTCCCCGATCC-------------------------------------------
        virilis  ------------------------------------------------------------------------------------------------------------------------
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  CCAGCTTGAGATTGTAATCGATGCTCATCTTCGAGATCTCCC----TGGTGAAAGCGTCCTTCATCAGATTC-C---------AACTGCT-CCACACGGAGCCAACGCAGA---------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMM

                 
   melanogaster  TTTTTGTTGTAATTGTTTTATGGCAGAAATTACTCAATCATCA-AGCATAATTCCCT----CGTTTTCGCCGTTTTATTGCCAATTTTTGCAC--TGCCT-TTGCCTTT-----TTCCCG
       simulans  TTTGTGTAATGGTTAT---------GAGAATAATC-ATCATCA-AGCATAAT--CCT----CG--TTCGCCGTTT--ATGCCA--TTTTGCAC--TGCCT-TG--CCTC-----TTCCCG
      sechellia  TTTTTGTTGTAATTGTTTTATGGCAGAAATTACTCAATCATCA-AGCATAATTCCCT----CGTTTTCGCCGTTTTATTGCCAATTTTTGCAC--TGCCT-TTGCCTTT-----TTCCCG
         yakuba  TTTTTGCTGTAATTGTTTTATGGCAGAAATTACTCAATCATCA-AGCATAATTCCCT----CGTTTTCGCCGTTTTATTGCCAATTTTTGCAC--CGCCT--CGCCTTT-----TTCCCG
         erecta  TTTTTGCTGTAATTGTTTTATGGCAGAAATTACTCAATCATCA-AGCATAATTCCCT----CGTTTTCGCCGTTTTATTGCCAATTTTTGCAC--TGCCTCCCGCCTTTGCCACTCCCGG
      ananassae  TTTTTGGCGTAATCGTTTTATTACACAAATTACTCAATCATCA-ATCATAATTCCGTTTGCCGTTTTC-CGTTTTTATTGCCAATTTTTGCAC--TGCCT-CTGCCTCT-----TT--GG
  pseudoobscura  -----------ATTATTTTATGGCGGAT--------ATCATGGCAGTACAATTTGCT----CGGCATTTTTATGGCATGGCCAATTTTTGCACAGTGTCT-AGGCCTTT-----CCTTTG
     persimilis  -----------ATTATTTTATGGCGGAT--------ATCATGGCAGTACAATTTGCT----CGGCATTTTTATGGCATGGCCAATTTTTGCACAGTGTCT-AGGCCTTT-----CCTTTG
        virilis  ------------------------------------------------------------------------------------------------------------------------
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  ------------------------------------------------------------------------------------------------------------------------
        Summary  MMMMMMBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CCCT--------------TTCCTCAGCGTTTTGCGAATCTTTGCCG--------GCATTTCTATTGCGCGGACAA------------------------TCCGG-----CCAGTGTGT--
       simulans  CC----------------TCCCTCAGCG-TTTGCGAATC-TCGCCG--------GCA-TTCTA-TGCGC-GACAA------------------------TCCGG------CAGTGTG---
      sechellia  CCCT--------------TCCCTCAGCGTTTTGCGAATCTTCGCCG--------GCATTTCTATTGCGCGGACAA------------------------TTCGG-----CCAGTGTGT--
         yakuba  CCCT--------------TCCCTCATCGTTTTGCGAATCTCCGCCATTTCCCCGGCATTTCTACTGCGCGGACAA------------------------TCCGG-----CCAGTGTGT--
         erecta  CCCT--------------TCCCTCATCGTTTTGCGAATCTCCGACGGATTC---GCATTTCTATTGCGCGGACAA------------------------TCCGG-----CCAGTGTGT--
      ananassae  CCCTTTTTGGCAAGCAAGTCCTTCGGAA------GGACCTATGCTTCGTTTG--GCACTTCTATTGCGCGGACAA------------------------TTCCATTCCATTAGTGTGCGA
  pseudoobscura  CCAATTCTG---------TTACCCGTCTTGTCTCGTCTC---------------CCACTTTC--TGCAAGGGAAGGGAATAAAGATAGAGGCCCAGCCCTCCGT-----CCAGTAT----
     persimilis  CCAATTCTG---------TTACCCGTCTTGTCTCGTCTC---------------CCACTTTC--TGTAAGGGAAGGGAATAAAGATAGAGGCCCAGCCCTCCGT-----CCAGTAT----
        virilis  ----------------------------------------------------------------------------------------------------------------GTGTGTG-
     mojavensis  ----------------------------------------------------------------------------------------------------------------GTGTGTG-
      grimshawi  ----------------------------------------------------------------------------------------------------------------GTGTGTG-
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  TGGCCATTTACTTGCCATGATGACGGG-------CATAATCAGCGA-----GATCGGCGCTTTG--TGAGTGCA-GAATGTGCAATAAAGCGGCAACA--------ATCGGCAGGG-ATT
       simulans  TGGCCA-TTACTTGCCATGATGACGGG-------CATAATCAGCGA-----GATCGGCGCTTTG--TGAGTGCA-GAATGTGCAATAAAGCGGCAACA--------ATCGGCAGGG-ATT
      sechellia  TGGCCATTTACTTGCCATGATGACGAG-------CATAATCAGCGA-----GATCGGCGCTTTG--TGAGTGCA-GAATGTGCAATAAAGCGGCAACA--------ATCGGCAGGG-ATT
         yakuba  TGGCCATTTACTTGCCATGATGACGGG-------CATAATCAGCGA-----GATCGGCGCTTTG--TGAGTGCA-GAATGTGCAATAAAGCGGCAACA-------------------ATT
         erecta  TTGCCATTTACTTGCCATGATGACGGG-------CATAATCAGCGA-----GATCGGCGCTTTG--TGAGTGCA-GAATGTGCAATAAAGCGGCAACA--------ATCGGCTTGGGATT
      ananassae  TCGCCATTTACTTCCCATGATGACGATGACGGACGATAATCAGCGA-----GATCGGCGCTTTG--TAAAGGCA-GTATGTGCAATAAACCG-------------------------A--
  pseudoobscura  TCGCCATTTACTTCCCATGATGACGGA-------CATAATCAGCGAGATCGGATCGGCGCTTTG--TGCGTGCA-AAATGTGCAATAAAGCAGCAACAACGGGAGGATCGCTAGAGGCTT
     persimilis  TCGCCATTTACTTCCCATGATGACGGA-------CATAATCAGCGAGATCGGATCGGCGCTTTG--TGCGTGCA-AAATGTGCAATAAAGCAGCAACAACGGGAGGATCGCTAGAGGCTT
        virilis  TGTGTGTGTACTTCCCATAATCA---G-------CATAATCAGCGA-----GATCGGCGCTTTGTTTGCCAGCACAAATGC-CAATAAAATGGCAAAA-------GAGCAACAA---CAA
     mojavensis  TGTGTGTGTACTTCCCATAATCA---G-------CATAATCAGCGA-----GATCGGCGCTTTG--TGCTAGCA-AAATGC-CAATAAAATGCCAAAA-------GAGCAACA-------
      grimshawi  TGTGTGTGTACTTCCCATAATCA---G-------CATAATCAGCGA-----GATCGGCGCTTTG--TGCGCGCA-AAATGC-CAATAAAAGAGCAAAA-------GAGCAACAA---CAA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CGCCTTC----------CCATATTCCGGGTATT--GCCG----GCCCGG-------------------------------------GAAAATGC--GAAAGTGTTT---GCG-------G
       simulans  CGCCTTC----------CCGTATTCCGGGTATT--GCCG----GCCCGG-------------------------------------GAAAATGC--GAAAGTGTTT---GCG-------G
      sechellia  CGCCTTC----------CCGTATTCCGGGTATT--GCCG----GCCCGG-------------------------------------GAAAATGC--GAAAGTGTTT---GCG-------G
         yakuba  CGCCTTC----------CCCTATTCCGAGTATT--GCCA----ACCCGG-------------------------------------GCAACTGC--GAAAGTGTTT---TCG-------C
         erecta  CGCCTTC----------CCCTATTCCCAGTATT--GCCCGAGTGCCCGG-------------------------------------ACGACTGC--GAAAGTGTTT---GCG-------G
      ananassae  -------------------GTATTCCGGGTATTCGGCCAAGACGAAGGG-------------------------------------AAAAATGC--GAAAGTGTTC---GCG-------G
  pseudoobscura  CGTCTTCGTCTTCGGCTTCGGCTTCCCGGTATT--TATT----TCGCAG-------------------------------------CGAAAGGCCAGAAAGTGTTC---TTG-------G
     persimilis  CGTCTTCGTCTTCGGCTTCGGCTTCCCGGTATT--GATT----CCGCAG-------------------------------------CGAAAGGCCAGAAAGTGTTC---TTG-------G
        virilis  CAACGACAACAACAAAAGCGACTTCCACGTAGT--TAGG----TTTCAGGC------------------------------------------C--GAAAGTGTTCAACTTG-------G
     mojavensis  -------------AAAGGCAACTTCCATGAACT--GAGG----TTTTGGGCCAAGCCAAGCCAAGCCAAGCCAAGCCGAAGCCGAAGCCGCTTC--GAAAGTGTTC-------------G
      grimshawi  CCAATAC------AAAGGGGGCTTCCAAGTATT--GAGG----TTTGGGCC---------------------------AAGCCGATGATGC--C--GAAAGTGTTCAAATCGCGACAATG
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRR

                 
   melanogaster  -------------ATCGAGATGGAA-----GAT------------AGAGGATTGAGTATT---GAAACGA------GGAAGGTAC-------------TTCCGCCGG-CG---GACACTT
       simulans  ATCGCAAACG-GTATCGAGATGGTA-----GAT------------AGAGGA-TGAGTATT---CAACAGA------GGCAGGTAC-------------TTCCGCGGC-CG---GACACTT
      sechellia  ATCGCAAACG-GTATCGAGATGGTA-----GAT------------AGAGGATTGAGTATT---CAACAGA------GGCAGGTAC-------------TTCCGCGGC-CG---GACACTT
         yakuba  ATCGGGATCG-GGATCGGCATCGGCATCGGAATCAGAATCGGGAAAGGAGATTGAGC-TA---TGACAGAGGTACCGGCAGGTAC-------------TCCCGCTGA-CG---GACACTT
         erecta  ATCGGGATCG-GAATCGGAATAGGAATAGGAAT------------ACGAGACTGAG----------CAGA------GGCAGGTACT------------TCCCGCCGGCCG---GACACTT
      ananassae  ATCGC-ATCG-GTCCAGAGACA--------CCT------------AGGGTG-------------------------GTCAGGTAC---------------CCGTACC-CG---TAC----
  pseudoobscura  ATGGA------GTGTTGAGGCCG-------GAC------------AATGGC---------------CAGG------GGCAGGTACTGATCCTCGACAGTGCAACAGC-TC---GACACTT
     persimilis  ATGGA------GTGTTGAGGCCG-------GAC------------AATGGC---------------CAGG------GGCAGGTACTGATCCTCGACAGTGCAACAGC-TC---GACACTT
        virilis  CTTGGACTATGG----TTGATCG-------GTT------------GAGGGT--------------GAGGG------GTCAGGT-------------------AATGC-TG---TTCACTT
     mojavensis  CT---------G----GTGATCG-------GTT------------AGGGGTCAGAG-------GGTAGGG------GTCAGGTAC--------ACTCATCTCAACTC-AG---CTCACTT
      grimshawi  CTCGC------G----GTGATCG-------GGT-------------AGGGTCAGGGCTGGGCAGGACAGG------ATCAGGT-------------------TACCC-AGGAACTCAGTT
        Summary  RRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  TCGCCTA-AC--CAAGCCAATCCAACCCATCCCAA----------TCCAA---TCCAACCCACCCGATCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGAGCC---------------
       simulans  TCGCCTA-AC--CAAGCCAGTCCAACCCATCCCAA----------TCCAA---TCCAACCCACCCGATCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGAGCC---------------
      sechellia  TCGCCTA-AC--CAAGCCAGTCCAACCCATCCCAA----------TCCAA---TCCAACCCACCCGATCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGAGCC---------------
         yakuba  TCGCCTA-AC--CAAGCGAGCCCAACCCAAT--------------CCCAA---T----CCCACCCGATCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGAGCC---------------
         erecta  TCGCCTA-AC--CAAGCGGACTCAACCCAACCCAACCCAACACAACCCAA---TCCAACCCACCCGATCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGAGCC---------------
      ananassae  ---------------------------------------------CCATA---CCCGTCACTTTCGC---CCATAAAGGGTATTTACTGTCG----------------------------
  pseudoobscura  TCGCCTG-GT--GAAAGG---------------------------TC---------------------TGCCATAAAGGGTATTTACTGTCGCTGCCGCAGTGTCGCCCTGAAGCCATGG
     persimilis  TCGCCTG-GT--GAAAGG---------------------------TC---------------------TGCCATAAAGGGTATTTACTGTCGCTGCCGCACTGTCGCCCTGAAGCCATGG
        virilis  TCGCCTG-GCGCGAAGTGAA----------------------AGGTTAGAGAGTTGGCTTGGCCCGACCACCATAAAGGGTATTTACTGTCGATGCCGCAGTGTC---------------
     mojavensis  TCGCCTG-GC---------------------------------------------------------CCGTCATAAAGGGTATTTACTGTCGCTGCCGCAGTGTC---------------
      grimshawi  TCGTCAACGC--TAAGTGAA----------------------AGGTTAAAGGTGCTGACTGGCCTGACCGCCATAAAGGGTATTTACTGTCGCTGCCGCAGTGTC---------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -----TCGCTTGA----------CGACTTAACCCAAGCGGTCGTTTCGCGTC---------CATTCTC--------CGG--------------------------ACGG-AGTCAAA--G
       simulans  -----TCGCTTGA----------CGACTTAACCCAAGCGGTCGTTTCGCGTC---------CATTCTC--------CGG--------------------------ACGG-AGTCAAA--G
      sechellia  -----TCGCTTGA----------TGACTTAACCCAAGAGGTCGTTTCGCGTC---------CATTCTC--------CGG--------------------------ACGG-AGTCAAA--G
         yakuba  -----TCGCTTGA----------CGACTTAACCCAAGCGGTCGTTCCGCGTC---------CATTCTC--------CGG--------------------------ACGG-AGTCAAA--G
         erecta  -----TCGCTTGA----------CGACTTAACCCAAGCGGTCGTTCCACGTC---------CATTCTC--------CGG--------------------------ACGG-AGTCAAA--G
      ananassae  --------------------------CTTAACCCAGCAGCCCATCG------------------------------CGG--------------------------AGAG-AGTCAAA--G
  pseudoobscura  CTGGGCCGGTTGAAGCTGCAACTCAACTCAACTCAA---CTCAACCCAATCCAAAAAGGGACACTCTCGCGGA---CAC--------------------------ACAG-AGTCAAA--G
     persimilis  CTGGGCCGGTTGAAGTTG-----CAACTCAACTCAA---CTCAACCCAATCCAAAAAGGGACACTCTCGCGGA---CAC--------------------------ACAG-AGTCAAA--G
        virilis  -----GCGTTTAT--TTGCACTTGGGCCCA-GGCAAAAGGTTGCT----------------CATTCTG--------CATGGACAACGGACAGAGGACAGAGGATCGCGG-CGGGTGA--A
     mojavensis  -----GCGTTGAT--TTGCTCGTTG------AAAAAAGGTTTGCT----------------CATTCTGCCGTAGAACAAAACCACCGGACAGCGGACACCGGACCGCGGACGGACGATGA
      grimshawi  -----GCGTTTAT--TTGCTTTTGGGCCCAGAAAGAAAGGTTGCT----------------CATTCTG--------CGA--------------------------GCGG-CG--TGA--A
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ACAAAGG--CCGGCGGAGGTGGACAATAGGCAAGGTTGTTGCTTGTGGGTAGGGTTTGAGCT--A--TGAGCTATGAGCTGTGAG--CTGTTAGCCCTGAACCCCGAACCTCGAGA----
       simulans  ACAAAGG--CCGGCGGAGGTGGACAATAGGCAAGGTTGTTGCTTGTGGGTAGGGTT-----------TGAGCTATGAGCTGTGAG--CTGTTAGCCCTGAACCCCGAACCTCGAGA----
      sechellia  ACAAAGG--CCGGCGGAGGTGGACAATAGGCAAGGTTGTTGCTTGTGGGTAGGGTT-----------TGAGCTATGAGCTGTGAG--CTGTTAGCCCTGAACCCCGAACCTCGAGA----
         yakuba  ACAAAGG--CCGGCGGAGGTGGACAATAGGCAAGGTTGTTGCTTGTGGGTAGGGTT-----------CGAGCTCTGAGCCTCGAATCTCGCGAACCTCGAACTTCGAATATTGTAAATTC
         erecta  ACAAAGG--CCGGCGGAGCTGGACAATAGGCAAGGTTGTTGCTTGTGGGTAGAG----------------GGTTTCAATCCCGAA-----------------------------------
      ananassae  ACAATGGCTCCGGAGGTGCTGCACAATAGGCAAGGTTGTTGGTTGCGGCCAGGGT------------AGGGTTCAGGGTTCTGGG-----------------------------------
  pseudoobscura  ACAATGG---TGGC--------ACAATAGGCAAGGTTGT-------GGGTAGGGT------------TCTGTTCT--GTTCTGGA--CGG------------------------------
     persimilis  ACAATGG---TGGC--------ACAATAGGCAAGGTTGT-------GGGTAGGGT------------TCTGTTCT--GTTCTGGA--CGG------------------------------
        virilis  ACAAAAG--CGC--CTGAATGCACAATAGGCAAGGTTGT-------GGGTAGGGTTCGACGG-----TGGGCA---AGGCTTGGG-----------------------------------
     mojavensis  ACAAAAG--CGCAGATGAATGCACAATAGGCAAGGTTGT-------GGCTAGGGTTCGGCAG-----TGGGCA---AGGCTTGGG-----------------------------------
      grimshawi  ACAAAAG--CGCCTCAACATGCACAATAGGCAAGGTTGT-------GGGTAGGGTTCGTCGGGGCTTTGGGCA---AGGCTTGGA-----------------------------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBMMMMMMMMRRRRRRRRRRRRRRRRBBBBBBBBBB

                 
   melanogaster  ---ATTGAACCT-------TTCCCGGGGCAAG-AA-GGCTTGCATGTGGGCCTTTTCCAGGTCG-------------GCCAGTAGGTAGAG-TTGTT-----GC-GATGCGGCTATGCCG
       simulans  ---ATTGAACCT-------TTCCCGGGGCAGG-AA-GGCTTGCATGCGGGCCTTTTCCAGGTCG-------------GCCAGTAGGTAGAG-TAGAT-----GC-GATGCGGCTATTCCG
      sechellia  ---ATTGAACCT-------TTCCCGGGGCAAG-AA-GGCTTGCATGTGGGCCTTTTCCAGGTCG-------------GCCAGTAGGTAGAG-TAGAT-----GC-GATGCGGCTATTCCG
         yakuba  AATATTGAACCT-------TTCCC-GGGCAAG-AA-GGCTTGCATGTGGGCCTTTTCCAGGCCG-------------GGCAGTAGGTAGAT-----------------------------
         erecta  ---ATTGTACCT-------TTCCC-GGGCGAG-AAGGGCTTGCATGTGGGCCTTTTCCAGGTCG------------CAGATGTAGGTAGATGTAGAT-----GTAGATGCGGATGGGCCG
      ananassae  ---TTCGGGCCT-------GGCTT-GGTCAAG-AA-GGCTTGTAGCTGGGCCTTTTCCAGGTCACTGTATATGCCCCAGTGGTAGGTAGGT-GAGGTAGTGAGT-GGCAGGACTCTGCCT
  pseudoobscura  ---GTCGTGTCG-------------GGTCGGG-AA-GGCTTGCAC-TGGGCCTTTTCCAGTGCG-------------GCCAAGAGAGGAGA-TCGCT-----CCAGGTAGAGCC---TCT
     persimilis  ---GTCGGGTCG-------------GGTCGGG-AA-GGCTTGCAC-TGGGCCTTTTCCAGTGCG-------------GCCAAGAGAGGAGA-TCGCT-----CCAGGTAGAGCC---TCT
        virilis  ---CTTGGACAA-------CGAC---AGCAG--CA-GAGACTCTGG----------CCAGGTCG--------------CCGGGCGTTCAGG-TAGAG------C-------GGCATTC--
     mojavensis  ---CTTACACGG-------CGACTCGATCAGGTCA-AACACACAGG----------ACGCGATG---------------CAGGAGCTTAGG-TAGAG-----CC-------GATGTTC--
      grimshawi  ---CTTGGGCTGGGCAGATCGACTTGGCCAGGTCA-G-------------------------CG---------------TAGTTGGTCAGG-TAGTC-----GA-------GGCACTCGA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -GGCGAGTTAATGCCAATGCAAATTGCGGGCGCAATATAACCCAATAATTTGAAGT-----AACTGG------------------------------------C--AGGA----GCGAG-
       simulans  -GGCGAGTTTATGCCAATGCAAATTGC-GGCGCAATATAACCCAATAATTTGAAGT-----AACTCG------------------------------------C--AGGA----GCGAG-
      sechellia  -GGCGAGTTAATGCCAATGCAAATTGC-GGCGCAATATAACCCAATAATTTGAAGT-----AACTCG------------------------------------C--AGGA----GCGAG-
         yakuba  -GGCGAGTTAATGCCAATGCAAATTGC-GGCGCAATATAACCCAATAATTTTAACT-----AGCTCG------------------------------------C--AGGA----GCGAGG
         erecta  -GTCGAGTTAATGCCAATGCAAATTGC-GGCGCAATATAACCCAATAATTTGAACC-----AACTCG------------------------------------CGGAGCA----GCGAGG
      ananassae  CAGCGAGTTAATGCCAATGCAAATTGC-GGCGCAATATAACCCAATAATTTTAACTATGTCAACTCG------------------------------------C--AAGGATATGCAAG-
  pseudoobscura  -GGCGAGTTAATGCTAATGCAAATTGC-GGCGCAATATAACCCAATAATTTTAACT-----AACTCG------------------------------------C--AATG----GACAG-
     persimilis  -GGCGAGTTAATGCTAATGCAAATTGC-GGCGCAATATAACCCAATAATTTTAACT-----AACTCG------------------------------------C--AATG----GACAG-
        virilis  -GGCGAGTT------AATGCAAATTGC-CGCGCAATATAACCCAATAATTTGAACT-----AACT--------------------------------------C--AACG----ACTGG-
     mojavensis  -GGCGAGTT------AATGCAAATTGC-CGCGCAATATAACCCAATAATTTTAACT-----AACTCACAACGACAACAACAACAGCAACAACAACAACAACAAC--AACA----ACTGG-
      grimshawi  -GGCGAGTT------AATGCAAATTGC-CGCGCAATATAACCCAATAATTTGAACT-----AACTCACAGCAA------------------------------C--AACA----ACTGG-
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ---------------G----------------------TATCCTTCCTG------G---------TTACCCG-----GTACTGCATAACAATGGA----------ACCCGAACCGTAACT
       simulans  ---------------G----------------------TATCTTTCCTG------G---------TTACCCG-----GTACTGCATAACAATGGA----------ACCCGAACCGTAACT
      sechellia  ---------------G----------------------TATCCTTCTTG------G---------TTACCCG-----GTACTGCATAACAATGGA----------ACCCGAACCGTAACT
         yakuba  CATCCTTGCATCCTTG----------------------CATCCTTCCCGGTTACAG---------TTACCCG-----GTACTGCATAACAATGAA----------------CCCGAAACT
         erecta  ---------------G----------------------CATCCTACCCG------G---------TTACCCG-----GTACTGCATAACAATGAA-----------------ACGAAACT
      ananassae  ---------------G----------------------A-----TGCAA------G---------TTAGCCG-----TAACCGGACAATGGTGAA-------------------------
  pseudoobscura  ---------------GGCAGTAGAGCAGTAGAGCAGTAGAGCATTGCAG------GAAGGATGCAATACTCGGGAATGGAATGCATAACAATGGG-----------------CAAGGACC
     persimilis  ---------------G--------GCAGTAGAGCAGTAGAGCATTGCAG------GAAGGATGCATTACTCGGGAATGGAATGCATAACAATGGG-----------------CAAGGACC
        virilis  ---------------G----------------------AG--------A------G---------TTACTTA-----GTAATGCATAACAATGAGCGCAGTTGAGGCTGAAACTGAAATT
     mojavensis  ---------------T----------------------TG--------A------G---------TTACTTA-----GTAATGCATAACAATGAGAGCGAGAGACAGTGAAACCGAAATT
      grimshawi  ---------------G----------------------AG--------A------G---------TTACTTA-----GTAATGCATAACAATAAG-----TTGAGGCTGAAATTGAGACT
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  GGGA---------------C----------------------------AGATCGA---AAAGCTGGCCTGGT----------TTCTCG--------CTGTGT------------------
       simulans  GGGA---------------C----------------------------AGATCGA---AAAGCTGGCCTGGT----------TTCTCG--------CTGTGT------------------
      sechellia  GGGA---------------C----------------------------AGATCGA---AAAGCTGGCCTGGT----------TTCTCG--------CTGTGT------------------
         yakuba  GGGA---------------C----------------------------AGATCGG---AGA-------TGGTGTGTGTGTGCTTCTCG--------CTGTGT------------------
         erecta  GGGA---------------C----------------------------AGATCGG---TGA-------TGGT----------TTCTCG--------CTGTGT------------------
      ananassae  --------------------------------------------------------------------AGGT----------TGCTTG--------CTGGGT------------------
  pseudoobscura  AGGG---------------TTCCGTTTCGCGAGATGAGGTTCTTTGACGGTTCTT---TGA-------CGGT----------TCCTTGACGGTTCCCTGTGT--------------GCTC
     persimilis  AGGG---------------TTCCGTTTCGCGAGATGA-----------GGTTCTT---TGA-------CGGT----------TCCTTGACGGTTCCCTGTGT--------------GCTC
        virilis  GAAATGTTTGATGCCAA--G----------------------------GGTTTTGGCATTGACTAGAACTCG----------TCCTGG--------TCTGGT--------------GTCC
     mojavensis  GAAA---TTGAAATTGAGCG----------------------------AGATCTG---TAGGTTGAAGGTTT----------CCTTCA--------TCCAGCCATCCATCCATCCAGCCA
      grimshawi  GAAATGCTGTTTGCCGA--A----------------------------GGTTT-----TCAGCCACAACGTT----------TTTCCA--------AGGGTT--------------CTCA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ---GTGCCGT-------------------GTTAATCCG-TTTGCCATCAGCGAGATTATTAGTCAA--------------------------------------TTGCAGTTG-------
       simulans  ---GTGCCGT-------------------GTTAATCCG-TTTGCCATCAGCCAGATTATTAGTCAA--------------------------------------TTGCAGTTG-------
      sechellia  ---GTGCTGT-------------------GTTAATCCG-TTTGCCATCAGCGAGATTATTAGTCAA--------------------------------------TTGCAGTTG-------
         yakuba  ---GTGCCGT-------------------GTTAATCCG-TTTGCCATCAGCCAGATTATTAGTCAA--------------------------------------TTGCAGTTA-------
         erecta  ---GTGCCGT-------------------GTTAATCCG-TTTGCCATCAGCCAGATTATTAGTCAATTG---------------CAGTCGCAGTCGC-----AGTTGCAGTTG-------
      ananassae  TCCAGGCCAT-------------------GTTAATCCC-TTTTCCATCATCCAGATTATTAGTCAATTTTCAATATGCGCGACCCAGTTTCATTTTC-----ATTTTCAGTTT-------
  pseudoobscura  TCTGCTCTGT-------------------GTTAATCCG-TTTGCCATCAGCAAGATTATTAGTCAA------------------TTTTCATATTTCCAGTCGAGTCGCAGTTT-------
     persimilis  TCTGCTCTGT-------------------GTTAATCCG-TTTGCCATCAGCAAGATTATTAGTCAA------------------TTTTCATATTTCCAGTCGAGTCGCAGTTT-------
        virilis  TGTGTGCTGT---GTCCTGTGTCCTGTGCGTTAATCCG-TTTGCCATCAGCGACATTATTAGTCGA------------------TTTTCTCA----------GTTTGGCTCAG-------
     mojavensis  TGGGTTTGGC---ATTGAGCTGCTTGTGCGTTAATCCG-TTTGCCATCAGCGACATTATTAGTCGA------------------TTTTACAA--------AGATTTTGAGCAA-------
      grimshawi  TCGGCATTGACTGGTTCAGAATCCTGTGCGTTAATCCGTTTTGCCATCAGCGACATTATTACTCTA------------------TTTTCCATTTCTCTCTAAAATTTGAACATTTTCTCA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -------------------------------CA------------------GCGTTTCGCTT---T-----CGTCCTCGTT------------------------------TCACTTT--
       simulans  -------------------------------CA------------------GCGTTTCGCTT---T-----CGTCCTCGTT------------------------------TCACTTT--
      sechellia  -------------------------------CA------------------GCGTTTCGCTT---T-----CGTCCTCGTT------------------------------TCACTTT--
         yakuba  -------------------------------CA------------------GAGTTTCGCTT---T-----CGTCCTCGTT------------------------------TCACTTT--
         erecta  -------------------------------CA------------------GGGTTTCGCTTTCCT-----CGTCCTCGTT------------------------------TCACTTT--
      ananassae  -------------------------------CAGTTTGAGCCTGCCCTTTCGGATTTCACTT---TTGCAGTGTCCTGGTTCCAGTTACCGGTTACCATGTTACCAGGTTACCAGTTT--
  pseudoobscura  -------------------------------TG--------------------GTTTCACTT---T-----CCTCCTT-TG------------------------------CCACTTCTT
     persimilis  -------------------------------TG--------------------GTTTCACTT---T-----CCTCCTT-TG------------------------------CCACTTCTT
        virilis  ------------------------------------------------------TTTCACTT---T-----CGCC----TT------------------------------GCGGATA--
     mojavensis  -------------------------------AC------------------AGTTTTCACTT---T------------------------------------------------------
      grimshawi  ACCGTTTGCATATCCATTTCCATTTTCATTTTC------------------CATTTTCACTT---T-----CGCC-----T------------------------------GCGGATA--
        Summary  BBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ---------------------------------------------------------CGAGTTAGACTTTATTGCAGCATCTTG----AACAATCGTC----------------------
       simulans  ---------------------------------------------------------CGAGTTAGACTTTATTGCAGCATCTTG----AACAATCGTC----------------------
      sechellia  ---------------------------------------------------------CGAGTTAGACTTTATTGCAGCATCTTG----AACAATCGTC----------------------
         yakuba  ---------------------------------------------------------CGAGTTAGCCTTTATTGCAGCATCTTG----AACAATCGGC----------------------
         erecta  ---------------------------------------------------------CGAGTTAGACTTTATTGCAGCATCTTGCAGCAACAATCGGC----------------------
      ananassae  ---------------------------------------------------------CGAGTTAGATTTTATTGCAGCATCTTG----AACAATCGAC----------------------
  pseudoobscura  GCCTTGCCTCATGTGGATGCCGATGCCGATGCCGTTGCCGTTGCCGTTGCCGACCGACGAGTTAGATTTTATTGCAGCATCTTG----AACAATCAAC----------------------
     persimilis  GCCTTGCCTCATGTGGATGCCGATGCCGATGCCGTTGCCGTTGCCGTTGCCGACCGACGAGTTAGATTTTATTGCAGCATCTTG----AACAATCAAC----------------------
        virilis  ---------------------------------------------------------CGAGTTAGATTTTATTGCAGCATCTTG----AACAATCGCT----------------------
     mojavensis  ---------------------------------------------------------CGAGTTAGATTTTATTGCAGCATCTTG----AACAATCGCTGCG--------------TCAGA
      grimshawi  ---------------------------------------------------------CGAGTTAGATTTTATTGCAGCATCTTG----AACAATCGCCTCAACTCGAACTCGAACTCGAA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMM

                 
   melanogaster  ----------------------GCA---------GTTTGGTAACACGCT--G---------TGC---------CAT--------------------ACTTTC------------------
       simulans  ----------------------GCA---------GTTTGGTAACACGCT--G---------TGC---------CCT--------------------ACTTTC------------------
      sechellia  ----------------------ACA---------GTTTGGTAACACGCT--G---------TGC---------CCT--------------------ACTTTC------------------
         yakuba  ----------------------GCA---------GTTTGGTAACACGCT--G---------TGC---------CCTAGCCCT--------------ACTTTCCCCGG-CCGATTCAG-CG
         erecta  ----------------------GCA---------GTTTGGTAACACGCT--G---------TGC---------CCTTCCACTTT----------CCACATTCCACGGCCCAATTCGG-CG
      ananassae  ----------------------TCGAAGTTTGGTATTTGGTAACACGCTGGG---------TGC---------CCTTCTCTCTG------------ACTTTC------------------
  pseudoobscura  ---------------------TGGA---------ATTTGGTAACATGCT--G---------CGCGG-------CCTAACCCTGG--AGATTGCTCTACTTTC---GCCTCAATTGAATCG
     persimilis  ---------------------TGGA---------ATTTGGTAACATGCT--G---------CGCGG-------CCTAACCCTGG--AGATTGCTCTACTTTC---GCCTCAATTGAATCG
        virilis  --CGAACTTGG-AACTGAATATGGA---------TTTTGGACACATGCT--G---------TGCTGCGATTGCTCTAGTTTAAG------------GCCTAT---GGCTAAGGTG-----
     mojavensis  GACAAACTAGGAAATTGGATGTGGA---------TTTTGGACACACGCT--G---------TG------TCTCTCTACTCTCAGTCT---------GCACTC---AGTCGCCGTG-----
      grimshawi  CGCGAACTCGG-AATTGGATGTGCAG--------TTTTGGAACCATGCT--GGGTTTTGTTTGCTGTCATTGCTCTAGTTTTGCTTTCATTTCCTCACTCTT---AGCTGGTGAT-----
        Summary  MMMBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBB

                 
   melanogaster  -ATTTAGACGGAAT-CGAGGGACCCTGGACTAT-----AATCGCACAACGA------------------GACC--GGGTTG------CGAAGTCA----GGGCATTCCG------CCGAT
       simulans  -ATTTAGAGGGAAT-CGAGGGACCCTGGACTCT-----AATCGCACAACGA------------------AACC--GGGTTG------CAAAGTCA----GGGCATTCCG------CCGAT
      sechellia  -ATTTAGACGGAAT-CGAGGGACCCTGGACTCT-----AATCGCAAAACGA------------------AACC--GGGTTG------CCAAGTCA----GGGCATTCCG------CCGAT
         yakuba  GATTTAGACGGAAT-CGAGGGACCCT-GACTGCACTCGGTTCGTTATATGAAACCGAAAACAAAACCTTAACC--GGGTTG------CAAAGTCA----GGGCATTCCGACGATCTCGCC
         erecta  GATTTAGACGGAAT-CGAGGGACCCT-GACTAT-----GTTCGCATAATGAAAGCGAAACCA-------AACC--GGGTTG------CAAAGTCA----GGGCATTCCA------TCGCC
      ananassae  -AATTGAACCGAAT-TAAATG------GAATTC-----CTTGGCCAGACAAACCAGAAAACCAGA----AACG--GGGTTGCAGAGTCAGAGTCA----GGGCTTTCCG-----------
  pseudoobscura  GAGTTAGGCGGAAGACGGCGGACCCT----TGC------------------------------------GACCAAGGGTTGTCTCC-TGGCCTCA----GGAGTTTCCA------CAGTC
     persimilis  GAGTTAGGCGGAAGACGGCGGACCCT----TGC------------------------------------AACCAAGGGTTGTCTCC-TGGCCTCA----GGAGTTTCCA------CAGTC
        virilis  -ATTTAGGCCGAAA-T---------T--TTCAT-----TGTCTTTTACTCAAGCT--------------GACC--GGGTTA------C--CCTCA----GGCAGC-------TTTTCGAC
     mojavensis  -CTCTAG-------------------------------TTTCGCTCGACTAAGGT--------------GATT--TAGTT-------------------GGAATT---------------
      grimshawi  -TTTTAGGCAGAAT-TCCGCTGTCCT--GGCAT-----TGTCATTGAATC--GCC--------------GACC--GGGTTA------C--CCTCAAACTAGGTTT-------TTTTCGAC
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CTA------GCCATCGCCATCTTCTGCGGGC-------GTTTGTTTGTTTGTTT--GC-----------TGGGATTA----------GCC-AAGGGCTTGACTTGGAATCCA--------
       simulans  CTA------GCCATCGCCATCTTCTGCGGGC-------GTTTGTTTGTTTGTTT--GC-----------TGGGATTA----------GCC-AAGGGCTTGACTTGGAACCCA--------
      sechellia  CTA------GCCATCGCCATCTTCTGCGGGC-------GTTTGTTTGTTTGTTT--GC-----------TGGGATTA----------GCC-AAGGGCTTGACTTGGAACCCA--------
         yakuba  ATATCCATCGCCATCGCCATCTTCTGCGGGC-------GTTTGTTTGTTTGTTT--GC-----------TGGGATTA----------GCC-AAGGGCTTGACTTGGAACCCG--------
         erecta  GTCGCCATCGCCACCGCCATCTTCTGCGGGC-------GTTTGTTTGTTTGTTT--GC-----------TGGGATTA----------GCC-AAGGGCTTGACTTGGAACCCA--------
      ananassae  CTA-----------------------------------GCTTGTTTGTTTGTTT--GC-----------TCGGATTA----------GCCTTAAGGCTTGACTTGG--------------
  pseudoobscura  AAC------GCTTTCGCTGGTTTGTTT-----------ATTTGTTTGTTTGTTTTAGC-----------CAGGATTA----------GCCCGAGGGCTTGACTTGGAACCCGACCAAAGC
     persimilis  AAC------GCTTTCGCTGGTTTGTTT-----------ATTTGTTTGTTTGTTTTAGC-----------CAGGATTA----------GCCCGAGGGCTTGACTTGGAACCCGACCAAAGC
        virilis  T----------TGCCG-GACTTTCCACAGGCCACAACATTTTGTTTATTTGTTT--AT--------------------------------------------------------------
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  TTT------GCTGGCG-GAGTTTCCACATGCCTCCGT-TTTTGTTTATTTGTTT--GTTTTGCGGATTTAGAGATTAGAGAAAAGGGGCC-AATGGCTTTAGACTGATGC----------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ----------------------------------ATCCCGATCCCTAGCCCGATCCCA------------------ATCCCAA-TCCCAATCCC--TTGTCCTTTTCATTAGAAAGTCAT
       simulans  ----------------------------------ATCCCGATCCCTAGCCCG------------------------ATCCCAA-TCCCAATCCC--TTGCCCTTTTCATTAGAAAGTCAT
      sechellia  ----------------------------------ATCCCGATCCCTAGCCCG------------------------ATCCCAA-TCCCAATCCC--TTGCCCTTTTCATTAGAAAGTCAT
         yakuba  ----------------------------------ATCGT------------------------------------------------------------CCCTTTTCATTAGAAAGTCAT
         erecta  ----------------------------------ATCCCAATCCCAATCCCAATCCCAAAGCCAATCCCAGTGCCCATCCCGA-TCGCAGTCCC--ATGCCCTTTTCATTAGAAAGTCAT
      ananassae  -----------------------------------TCCTGGCCCAGGTTCCA------------------------ATCCAGAGTCCCAAGCCT--TCGCTGATTTCATTAGAAAGTTAT
  pseudoobscura  CAAGGGCTTTAGGGCATGCTCAAAAGATCCCTATATCCCTATCCCTGTCTCG------------------------ATCCCTA-AACCGATCCCATTTGGCAATTTCATTAGAAAGTCAT
     persimilis  CAAGGGCTTTAGGGCATGCTCAAGAGATCCCTATATCCCTATCCCTGTCGCG------------------------ATCCCTA-AACCGATCCCATTTAGCAATTTCATTAGAAAGTCAT
        virilis  --------------------------------------------------------------------------------------CTGATCCA--CACGCATTTTCATTAGAAAGCCAT
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  --------------------------------------------------------------------------------------CTGATCTG--CTCGCCTTTTCATTAGAAAGTCAC
        Summary  BBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRR

                 
   melanogaster  AAAA-ACACATAATAAT--GATGTCGAAGGGATTAGG-----GGCGCG-----CAGGTC----------CAGGCAACGCAATTAACGGACTA--GC-GAACTGGGTTATTTT--------
       simulans  AAAA-ACACATAATAAT--GATGTCGAAGGGATTAGG-----GGCGCG-----CAGGTT----------AAGGCCGCGCAATTAACGGACTA--GC-GAACTGGGTTATTTT--------
      sechellia  AAAA-ACACATAATAAT--GATGTCGAAGGGATTAGG-----GGCGCG-----CAGGTT----------AGGGCCGCGCAATTAACGGACTA--GC-GAACTGGGTTA-TTT--------
         yakuba  AAAA-ACACATAATAAT--GATGTCGAACGGATTAGG-----GACGCGACTCGCAAGTC----------CAGGCAGCGCAATTAACGGACTA--GC-GAACTGGGTTA-TTT--------
         erecta  AAAA-ACACATAATAAT--GATGTCGAACGGATTAGC-----TGCGCG------CAGTC----------CAGGCAGCGCAATTAACGGACTA--GC-AAACTGGGTTA-TTTCTATTTTT
      ananassae  AAAA-ACACATAATAAT--GACGTCGAA-GGATTACG-----GGC------------------------CAGGCAGGCCAATTAACGGACTACGGC-GGACCGGGTTATTTT--------
  pseudoobscura  AAAACACACATAATAATGAGATGTCGAAGGGATTAAGATTAAGGGACG-----CACACA----------CAGGCAGCAGGATTAACGGACTA--ACGGAATCGGGTTA-TTT--------
     persimilis  AAAACACACATAATAATGAGATGTCGAAGGGATTAAGATTAAGGGACG-----CACACA----------CAGGCAGCAGGAT--------------------------------------
        virilis  AAAA-ACGCATAATTAT--GGCA--ACAGGGATTAGC-----CACACG-----CACATATATGTATATGTATATGACATAATTAGCGGATTC--TG-AAATTGGGTTA-TTT--------
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  ACAA-ACGCATAATGAT--GACA--AGGGGGATTAAG-----CTCACA-----TACCTA----------CACATAACCTAATTAGCGGATTT--AC-AAATTGGTTTA-TTT--------
        Summary  RRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ---TTTGC-------------------------GCCGA-----------CTTAGCCCTGATCCGCGAGCTTAACCCGTTTTGAGCCG----GGC------AGCAGGTAG-----------
       simulans  ---TTTGC-------------------------GCCGA-----------CTTAGCCCTGATCCGCGAGCTTAACCCGTTTTGAGCCG----GAC------AGCAGGTAG-----------
      sechellia  ---TTTGC-------------------------GCCGA-----------CTTAGCCCTGATCCGCGAGCTTAACCCGTTTTGAGCCG----GTC------AGCAGGTAG-----------
         yakuba  ---TTTGC-------------------------GCCGA-----------CTTAGCCCTGATCCGCGAGCTTAACCCG-TTTGAGCCG------CCAGTCGAGCAGGTAG-----------
         erecta  TTATTTTC-------------------------GCCGA-----------CTTAGCCCTGATCCGCGAGCTTAACCCG-TTTGAGCCG------C------AGCAGGTAG-----------
      ananassae  ---TTTGC-------------------------GCGGA-----------CTTAACCCTAATCTGCCAGCTCAGCCCTTTTTGAGCCGCTCCGTC------GGCAGGTAG-----------
  pseudoobscura  ---TTTGC-------------------------GCTCAACCGGACGGAGCTTAACGCTAAGCCACAAGCTTAACCCCTTGTGGGCCG------C------GGCAGGTAAATCGATGACCG
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  ---TTGTCCTCTTTTTTCTTGG-----------CCCAG-----------CTTAACCCTAAGCCA-------AACCCAAGCCTAG-------------CCAAGCAGGTAA-----------
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  ---TTTCCCTTTTTTTTATTGTAGTTGGTCTGCCCCAG-----------CTTAAACCCAAGCCACTGCATCAGGCCAATCCAAA------------------------------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -------TTG-TGGGTGGAC----------CCCACG-----------------------------ATTTTT---TTGGCCAAA--------------CCTCCAAGCTAACTTGCG--CAA
       simulans  -------TTG-TGGGTGGAC----------CCCACT-----------------------------ACTTTT---TTGGCCCAA--------------CCTCCAACCTAACTTGCG--CAA
      sechellia  -------TTG-TGGGTGGAC----------CCCACG-----------------------------ACTTTT---TTGGCCCAA--------------CCTCCAACCTAACTTGCG--CAA
         yakuba  -------TTC-CTG----------------CCCAC------------------------------ACTTTT---TTCGCCCAT-----------------CCATCCCCGCTTGCG--CAA
         erecta  -------------------------------------------------------------------------------CCAT--------------CC-CCATCCTGGCTTGCG--CAA
      ananassae  -------CTA-CCATCAACCA---------CCCACT-----------------------------CCTCCA---CTGGCCG-------------------CCCCACTCGCCCCCA--GAA
  pseudoobscura  ATGTCGCTTG-CGCAAGGCC----------CCTACT-----------------------------ACTCCC---CTCCCATAT--------GACACCCCACTAACCCTGCCCCCG--CCA
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  -------CGGCCAGGCGGACAGCTCAATAGCTTACGCAAGCAAAACAAAAGTCAAATAAAGAAAAACTTTCAAGTTGGCAGCACTTTAGGTACCACCCCCCCACCCCCACCACCAATCCG
     mojavensis  ------------------------------------------------------------------------------------------------------------------------
      grimshawi  ------------------------------------------------------------------------------------------------------------------------
        Summary  BBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  GTGGCAAGTGGCCGGTTTGCTGGCCCAAAAGA------------------GGAGGCACTATCCCGGTCCTGGT-ACAGTTG-GTA-CGCTGGG---AATGATTATATCATCATAATAAAT
       simulans  GTGGCAAGTGGCCGGTTTGCTGGCCCAGGAGA------------------GGAGGCACTATC---GCCCTGGT-ACAGTTG-GTA-CGCTGTG---CATGATTATATCATCATAATAAAT
      sechellia  GTGGCAAGTGGCCGGTTTGCTGGCCCAGGAGA------------------GGAGGCACTATC------------ACAGT---GTA-CGC--TG---CATGA-TATATCATCATA--TAAT
         yakuba  GTGGCA-------AGTTCGCTGCCCCAGGAAAGGAGGAGGATGAGGAGGAGGAGGCACTCTGTCTGGCCTGGT-ACAGTCG---C-CTCTGGG---CATGATTATATCATCATAATAAAT
         erecta  GTGGCA-------GGTTCGCTGCCCCAGGAGAGCCGT-------------GGAGGCACTCTGGCTGGCCTGGT-ACAGTTG---C-CGCTGGG---CATGATTATATCATCATAATAAAT
      ananassae  ATGGCA--------TCTTTTTGGTACAGTT--------------------------------------------TCCTCCG-GTC-CGCTCGT---CGTGATTATATCATCATAATAAAT
  pseudoobscura  TCTCCA-------CCACCACTGTACTATATGT------------------------------------------ACAGTTGCCTC-CTCTCTG---GATGATTATATCATCATAATAAAT
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  TCGCCA----------GTGCTGCCCCATGTAA------------------GTGCGC-----------TGTGGGTACAGTTG-CGC-CTTTAGGCAACATGATTATATCATCATAATAAAT
     mojavensis  ----------------------------------------------------------------CGCTCTGGGTACAGTTG-CGC-CTTTAGGCAACATGATTATATCATCATAATAAAT
      grimshawi  -------------------------------------------------------------------TCTGGGTACAGTTG-CGCATTTTGGGCAACATGATTATATCATCATAATAAAT
        Summary  BBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  GTTTTGCCCAA--CGAAACCGA-------AAACTTTTCAAATTAAGTCCCGGCAACTGGGTTCCC-AT--------------TTTC----------------------------------
       simulans  GTTTTGCCCAA--CGAAACCGA-------AAACTTTTCAAATTAAGTCCCGGCAACTGGGTCCCC-AT--------------TTTC----------------------------------
      sechellia  GTTGC-CACGA--CGAA-----------------CTTCATAGTCCGCACTGG--------------------------------TC----------------------------------
         yakuba  GTTTTGCCCAA--CGAAACCGA-------AAACTTTTCAAATTAAGTCCCGGCAACTGGGTCCCC-AT-TTCCATTTTCCATTTCCCGCTTGCTTCCCCTTTTGCTTTTCCTTTCCATTT
         erecta  GTTTGGCCCAA--CGAAACCGA-------AAACTTTTCAAATTAAGTCCCGGCAACTGGGTCCCC-ATATCCCGTATCCCATTTTC----------------------------------
      ananassae  GCTTCGCCGAAACCGAAACCCA-------AAACTTTTCAAATTTAGTTCCAG--------------AG--------------CATT----------------------------------
  pseudoobscura  GTTTTTCCCAA--CGAAACTGAAACCGAGAAACTTTTCAAATTAAGTTCCGA---------------------------------C----------------------------------
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  GTTTGCCGCAA--CTAAACTG--------AAACTTTTCAAATTAAGTTTCAACAACTGCGCCCCC-AA----------AAGTATTT----------------------------------
     mojavensis  GTTTGCCGCAA--CTAAACTG--------AAACTTTTCAAATTAAGTTTCAACAACTGCGCCCCC-AA----------AAGTATTT----------------------------------
      grimshawi  GTTTGCCGCAA--CTAAACTG--------AAACTTTTCAAATTAAGTTTCAACAACTGCGCCCCCAAA----------AAGTATTT----------------------------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -CATTT-TCCATGT-TCT--GCGGGCAGGGGCG------------------------------------GCCATTATC-TCGCTACAGCA-------GTTCCCAAATGGTTATGGCTGGA
       simulans  -CATTT-TCCATGT-TCT--GCGGGCAAGGGCG------------------------------------GCCATTATC-TCGCTACAGCA-------GATCCCAAATGGTTATGGCTGGA
      sechellia  -CATTCATTCATG--TCT--GC-GGCAGGCGCA-----------------------------------------TATC-TCGCTACAGCT-------GATCCAAAATGGTTATGGCTGGA
         yakuba  TCCTTT-GCCACGT-TCT--CCGGGCACGGGCG------------------------------------GCCATTATC-TCGCTACAGCATGCTACGGATCCCAAATGGTTATGGCTGGA
         erecta  -CCTTT-TCCACGT-TCTGCCCGGCAAAAGGCG------------------------------------GCCATTATC-TCGCTACAGCA-------GATCCCAAATGGTTATGG-----
      ananassae  -CATTT-CTC------CC--CCGAAACAGCGCT------------------------------------GCCATTATC-CCAC--------------AAAACAAAATGGTTTTGGGGCGA
  pseudoobscura  -CCGCC-GCCCCGC-CCC--CCGAAATTGTGCT-------------------------------------CCATTATCATAGATATACTG-------CCTGGAAAATGGTAATG--CGAA
     persimilis  ------------------------------------------------------------------------------------------------------------------------
        virilis  -CATTG-TTTATGCATGT--GCGGCTGTCTGTGTGTGTGTGTGTGTG------------------TGTGGGCGTTGTC-T----------------------------------------
     mojavensis  -CATTG-TTTATGCATGT--GCGGCTAT--------------------------------------------------------------------------------------------
      grimshawi  -CATTG-TTTATGCATGT--GTGTGTGTGCGTGTGTGTTTGTGTGTGTGTGCGTAGGGTGGTCTCTGTGGGCGTTGTC-C----AAAACT-------TTTGTTTTATGAGCACAGATAAA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CACCCCT------GCCGCCGC------T-CCAACG-GGGTGGATGAAGCCCCCAAAACCCGAAAG-TCATGGCAGCCATGG--------CAGTGTGGGGCTGTTAAACGTGCGGC--ATA
       simulans  CACCCCT------GTCGCCGC------T-CCAACG-GGGTGGATGAAGCCCCCAAAACCCGAAAG-TCATGGCAGCCATGG--------CAGTGTGGGGCTGTTAAACGTGCGGC--ATA
      sechellia  CGCCCCT---------GCCGC------T-CCAACG-GGGTGGATGAAGCCCCCAAAACCCGAAAG-TCATGGCAGCCATGG--------CAGTGTGGGGCTGTTAAACGTGCGGC--ATA
         yakuba  CACCCCT---------CCCGC------T-CCAACG-GGGTTGATGGAGCCCCCAAAACCCAGCCAGCCATGGCAGCCACGGCAGCTCCACAGTGTGGGGCTGTTAAACGTGCGGC--ATA
         erecta  -----CT---------CCCGC------TGCCACCG-GGGTGGATGAAGCCCCCAAA----------CCTTGCCGCCCATTCCAGCTCGACAGTGTGGGGCTGTTAAACGTGCGGC--ATA
      ananassae  GGTCCAT---------CCCGAGGGTGGT-CC--CG-GGATGAATAA--------------------ACTTTGCAGCTCC----------CAGTGTGGGACTGTTAAACGTGCGGC--ATA
  pseudoobscura  TCCCCCTCTACCAGTGCCCCC------G-CCAACGCTGGTGGGTGGTGT----------GGTGTG-GTGTGGCA----------------AGTGTGAGGCCGTTAAACGTGCTGC--ATT
     persimilis  ------------------------------------------------------------------------------------------AGTGTGAGGCCGTTAAACGTGCTGC--ATT
        virilis  -------------------------------------------------------------------------------------TGGA-AGTGTGAGCCCGTTAAACGTGCGGCATATA
     mojavensis  ------------------------------------------------------------------------------------------AGTGTGAGCCCGTTAAACGTGCGGC--ATA
      grimshawi  CTTCATT---------TACTG------T-----TG-AAGCTGCT--AGCTACTACAACACGCCAC-CCTCTGCCACTC-------GGCA-AGTGTGAGGCCGTTAAACGTGCGGC--ATA
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBRRRRRRRRBBBBBBBBBBBBBBMMMMMMMMBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ATATTAAGACTTCATAAAAGCGCAAATAATTC-GCT-GGCA--GGC----GATCGATAA-----------------------TACA-----------TACATACAAATATATAG------
       simulans  ATATTAAGACTTCATAAAAGCGCAAATAATTC-GCT-GGCA--GGC----GATCGATAA-----------------------TACA-----------CACAT----ATATATAG------
      sechellia  ATATTAAGACTTCATAAAAGCGCAAATAATTC-GCT-GGCA--GGC----GATCGATAA-----------------------TACA-----------CACAT----ATATATAG------
         yakuba  ATATTAAGACTTCATAAAAGCGCAAATAATTC-GCT-GGCA--GGC----GATCGATAACTA--------------CACATGTACA-----------TACAT----ATCTATATCTATAT
         erecta  ATATTAAGACTTCATAAAAGCGCAAATAATTC-GCT-GGCA--GGC----GATCGATAAATA--------------CATATGTACA-----------CACAT----ATACATAG------
      ananassae  ATATTAAGACTTCATAAAAGCGCAAATAATTT-GCT-GGCC--GACTCCGGATCGATAA-----------------------------------------AT----ATATGTAC----TC
  pseudoobscura  ATATTAAGACTTCATAAAAGAGCAAATAATTC-GCTGGGCA--AGCATC-GATCGATAAATGCTACTCTATGTACCCCCGTGAACA-----------TGTAT----GTACATGGCTATGG
     persimilis  ATATTAAGACTTCATAAAAGAGCAAATAATTC-GCTGGGCA--AGCATC-GATCGATAAATGTTACTCTATGTACCCCCGTGGACA-----------TGTAT----GTACATGGCTATGG
        virilis  ATATTAAGACTTCATAAAAGAGCAAATTATTTGGCT-GCCT--GTG----GATCGATAT-----------------------GGCA----------------------------------
     mojavensis  ATATTAAGACTTCATAAAAGAGCAAATTATTTGGCT-GCCT---TC----GATCGATAT-----------------------GCCAAACT--GCCAGCGAGT----G-----AG------
      grimshawi  ATATTAAGACTTCATAAAAGAGCAAATTATTTGGCT-GGCAACATC----GATCGATAT-----------------------GGCAAACTCCACCAGCAAAC----ACACCCAG------
        Summary  BBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ----TGGGATACACA------------CACTCTCTG-------CCGGCAAACACACACCACCC----------GAC-----C--------------------------------------
       simulans  ----TGGGATACACA------------CACTCTCTG-------CCGACAAACACACACCACCC----------GAC-----C--------------------------------------
      sechellia  ----TGGGATACACA------------CACTCTCTG-------CCGACAAACACACACCACCC----------GAC-----C--------------------------------------
         yakuba  CTACTGGGATACACA------------------CTGGGCTGCACT--------------ACCC----------GAC-----C--------------------------------------
         erecta  ----TGGGATACACAC-----T---GGCAATCCCTGGGATGCAGTGGC-GACAAGCAGCACCC----------G-C-----C--------------------------------------
      ananassae  CGCCTCGGATATGTAC-----TGAGGATGCTC-CCGTAGAGCAGCAGCCAGAAGCCAGCATCC----------AGCAGCCAC--------------------------------------
  pseudoobscura  CTA-TGGCATCCATGTACATATGTATGTACATAATGGGAGTTGGTGAAAGCAACCAACCACCCTACCATCCTGTAC-----T----------CTCTTCCTTACTCCTTACTCCTC-----
     persimilis  CTA-TGGCATCCATGTACATATGTATATACATAATGGGAGTTGGTGAAAGCAACCAACCACCC----------TAC-----CATCCTGTACTCTCTTCCTTACTCCTTACTCCTTGGTCC
        virilis  -----------------------------------------------------------ACCT----------CCT-----C--------------------------------------
     mojavensis  ----CGGGA---------------------------------------------------------------------------------------------------------------
      grimshawi  ----TGGCG-----------------------------------------TGCTGCTTCTCTT----------ACT-----C--------------------------------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -------CGACTG---AGCG-----------------------GCATAATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CCG-CCCGTCCCGCT
       simulans  -------CGACTG---AGCG-----------------------GCATAATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CCG-CCCGTCCCGCT
      sechellia  -------CGACTG---AGCG-----------------------CCATAATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CCG-CCCGTCCCGCT
         yakuba  -------CGACTG---AGCG-----------------------GCATTATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGG--CCG-CCCGTCCCGCT
         erecta  -------CGACTG---AGCG-----------------------GCATAATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CCG-CCCGTCCCGCT
      ananassae  -------CGCCCGTACGGCA-----------------------GCATTATGCCATATCATTCT------TGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CCG-CCCGTCCCGCT
  pseudoobscura  -TCCGGACTGCTG---GGCA-----------------------GCATTATACCATATCATACT------TGATGAAGCCGATAAAGTCGCATTATTAAGGGGGCACCT-CACGTCTCGCT
     persimilis  GTCCGTACTGCTG---GGCA-----------------------GCATTATACCATATCATACT------TGATGAAGCCGATAAAGTCGCATTATTAAGGGGGCACAT-CACGTCTCGCT
        virilis  -------CACCAG---CGCTCGTTCTCCATCTCGGTCTGT---GCATTATGCCATATCATTCTTTTGCCTGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CACTCACGTCTCGTT
     mojavensis  -------------------------------------------GCATTATGCCATATCATTCTTTTGCCTGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-CACTCACGTCTCGTT
      grimshawi  -------CGCCAT---CGCCA--TCGCCATCGTCGTCTCTGTG-CATTATGCCATATCATTCTTTTGCCTGATGAAGCCGATAAAATCCCATTATTAAGGGGGC-C---CACGTCTCGTT
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CGCTCCTGCGGAG-CAACC-GCCTGCGGGCGGGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAATCGGAAC------TCTCTCTC-----------------------TCT
       simulans  CGCTCCTGCGGAG-CAGCC-GCCTGCGGGCGGGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAATCGGAG--------CTCTCTC-----------------------TCT
      sechellia  CGCTCCTGCGGAG-CAGCC-GCCTGCGGGCGGGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAAACGGGG--------CTCTCTC-----------------------TCT
         yakuba  CGCTCCTGCGGAG-CAGCC-GCCTGCGGGCGGGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAATCCGAAT----GTGTGCTCTC-----------------------TCT
         erecta  CGCTCCTGCGGAG-CAGCC-GCCTGCGGGCGCGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAATCCAAGTCAGCGCGCGCTCTC-----------------------TCT
      ananassae  CACTCGTGGAGGGTCCACC-GCCTGCGGACAGGCGAGACAAAAGATTCGCTCATCCGCTATGAATACC--AAAATA-----------CTCTCTCTTTTCGCCAGCTCCTGGCTCCTTTCT
  pseudoobscura  CGCTCTGGGGCGT-CCGCCTGCTTGCGGACAAGCGAAACAAAAGATTCGCTCATCCGCTATGAATACC--AAATTC-----------CTCTCTC-----------------------TTG
     persimilis  CGCTCTGGGGCGT-CCGCCTGCTTGCGGACAAGCGAAACAAAAGATTCGCTCATCCGCTATGAATACC--AAATTC---------CTCTCTCTC-----------------------TTG
        virilis  CGCACCCGTGGCG-CTGCCCGCTTGCGGACAAGCGAAACAAAAGATTCGCTCATACGCTATGAATATATGAAATCG-----------CACTCGCC----------------------TCC
     mojavensis  CGCACCCGTGGCG-CTGCCCGCTTGCGGACAAGCGAAACAAAAGATTCGCTCATACGCTATGAATATATGAAATCG-----------CATTCGCC----------------------TCT
      grimshawi  CACACCCGTGGCG-TCGCCCGCTTGCGGACAAGCGAAACAAAAGATTCGCTCATACGCTATGAATATATGAAATCGCAGC-------CAGTCGCCAGT-------------------TCT
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CC--------------------------AGCTCGGGA------GTGC--------------CA--TGGCCAGCATGGCCAGGACCTCCTCATGGTCCTGCCGA-GCAGAGA---------
       simulans  CC--------------------------AGGTCGGGA------GTGC--------------CA--TGGCCAGCACGGCCAGGACCTCCTCATGGTCCTGCCGA-GCAGAGA---------
      sechellia  CT--------------------------AGGTTGGGA------GTGC--------------CA--TGGCCAGCACGGCCAGGACCTCCTCATGGTCCTGCCGA-GCAGAGA---------
         yakuba  CC--------------------------AGGTCGGCA------CTGC-----CATGGCCAGCA--GAGCCAGCATGGCCAGGACCTCCTCATGGTCCTCCCGA-GCAGAGA---------
         erecta  CT-----------------------------CCAGCA------CTCT--------------CG--GCACCAGCATGGCCAGGACCTCCTCATGCTCCTGGCGA-GCAGAGA---------
      ananassae  CC--------------------------AGGCTGGCC------TCTCCACCCCACCCCCACCC--CGGCCACCGTTGTTCCAGCCTCGTAAT--TGCTGCTGA-GCAGAGGCTCTTCCTT
  pseudoobscura  CCGTGCACACAAAGAGAGAGAGATGGAGAGAGAGAGAGAGAGCGAGC--------------GAGCGAGCGAGCTCCATGATAACTTGATTATGTTCT-----------------------
     persimilis  CCGTGCACACAAAGAGAGAGAGATGGAGAGAGAGAGA------GAGC--------------GA--GAGCGAGCTCCATGATAACTTGATTATGTTCT-----------------------
        virilis  CA-----CAGACTGACAGAGCGAGAGCGAGAGCAAGA------GAGC--------------GA--GA---------------------------TGCTGCTGGCGCTGCTG---------
     mojavensis  CG-----CAGCATGAACGAGCGACAGCGTGAGCGAGA------GAGA--------------AC--GAGCCAGA------GAGCATTGCTAGTGCTGCCGCTGCTGTTGCTG---------
      grimshawi  CA-------------------------------AAGA------GAGC--------------AA--AA---------------------TGATGCTGCTGCTCCCGCTGCTG---------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -----ACGCG-----------GCTCCA----------------------------TCCCG-----CTGCTCCGGGTCCTGCT----------CCT-------------------------
       simulans  -----GCGCG-----------GCTCCA----------------------------TCCCG-----CTGCTCCGG-TCTCGTC----------TCT-------------------------
      sechellia  -----GCGCG-----------GCTCCA----------------------------TCCCG-----CTGCTCCGGCTCCTGCT----------CCT-------------------------
         yakuba  -----GCGCT-----------GCTCCC----------------------------ATCCA-----CTGCTCCT------GCT----------CCT-------------------------
         erecta  -----GCGCT-----------GCTCCA----------------------------TCCCG-----CTGCTCCT----CCGCT----------CCT-------------------------
      ananassae  TTCCTGTGTGGGTCAGGGAGAGCTCCA----------------------------TGCTGAGCGCCTTCGCCT----CAGCT----------CCT-------------------------
  pseudoobscura  -----CCGCC-----------TGTCCG----------------------------CCCC------CCGCTTGGCATCCTATTTTTTGTGTGCCCT-------------------------
     persimilis  -----CCGCC-----------TGTCCG----------------------------CCCC------CCGCTTGGCATCCTATTTTTTGTGTGCCCT-------------------------
        virilis  -----CTGCT-----------GCTCCATGATAACTTGATTATGCCTTG-------TCCCT-----TTGCCTTGGACCTCGCT----------GCT-------------------------
     mojavensis  -----CTGCT-----------GCTCCATGATAACTTGATTATGGGCAGCAGCGACTGCCG-----CTGGCTTGGACCCGGCT----------CCT-------------------------
      grimshawi  -----CTGCT-----------GC--------------------------------TCCCG-----CTGCTT----TCTTGCT----------TCTGCTTTTTGGCTCATCCTCGCAGTTG
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  -----C-----CG--------CTT------TGTCCC-GCCTCGTTATCGCCGCTCAGCACCGAG-------AGCACA-GCAGCG-------CATCCACTCT-------------------
       simulans  -----C-----GA--------CTTCTAAAGTATCGT-GTCTAGC--TTAACGCTCCTCTCCACA-------CGCACG-ATAGCA-------CGT--------------------------
      sechellia  -----C-----CG--------CTT------TGTCCC-GCCTCGTTATCGCCGCTCAGCACCGAG-------CGCACA-GCAGCG-------CATCCACTCT-------------------
         yakuba  -----C-----CGC-------CTT------TGTCCC-GCCTCGTTATCGCCGCTCAGCACCCAG-------CAGCCATACAGCC-------AAGCAGCACC-------------ACAGCG
         erecta  -----C-----CG--------CTT------TGTCCC-GCCTCGTTATCGCCGCTCAGCACCCAG-------CAGCCA-GCAGCC-------CAGCAG-----------------------
      ananassae  -----CGCAGACGT-------CTT------TGTTCCAGTCTCGTAATTGCCTCTCAGCACC-------------ACA-GCATCT-------CAGCATCCCA-------------------
  pseudoobscura  -----C-----CC--------TTT------TGTTCCGGCATCGTAATTGCC-TTCATCGTCGCATAATTGTCAGCCA-GCAGCAG------CAGAGACTCT-------------------
     persimilis  -----C-----CC--------TTT------TGTTCCGGCATCGTAATTGCC-TTCATCGTCGCATAATTGTCAGCCA-GCAGCAGCAGCACCAGAGACTCT-------------------
        virilis  -----T-----TTTTATGTACTAT------TGTTCCGGCATCGTAATTGCC-TTCATCGTCGCATAATTGTCAGCCA-GCAGCG--------AGCAGCAGC-------------------
     mojavensis  -----T-----TTTTATGTACCAT------TGTTCCGGCATCGTAATTGCC-TTCATCGTCGCATAATTGTCAGCCA-GCAGCAG------CAGCAGCAGCAGAAGCAGCAAAGGCAGC-
      grimshawi  TTTGCT-----TTTTATGTG-TAT------TGTTCCGGCATCGTAATTGCC-TTCATCGTCGCATAATTGTCAGTCA-GCAGCAA------CAGCAGCAGCACCAGCAG-----------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ----------------------------------CAGCACCGCACGATTAGCACCGTTCCG-----------C-----------------------------------------------
       simulans  -----------------------------------------------------------CG-----------C-----------------------------------------------
      sechellia  ----------------------------------CAGCACCGCACGATTAGCACCGTTCCG-----------C-----------------------------------------------
         yakuba  CATCCACTCTGAGCAGCAG---------------CAGCACCGCACGATTAGCACCGCTCCG-----------G-----------------------------------------------
         erecta  ----------------------------------------CGCACGATTAGCACCGCTCCGGCAGTCAGGCTG-----------------------------------------------
      ananassae  --------------------------------------------------GCGTCTCTCTC-----------T-----------------------------------------------
  pseudoobscura  --------CTCAGCAGCAGCGACTCT----CTCAAAGCACCGCAAGATTAGCACC----CT-----------C-----------------------------------------------
     persimilis  --------CTCAGCAGCAGCGACTCT----CTCAAAGCACCGCAAGATTAGCACC----CT-----------C-----------------------------------------------
        virilis  ----------CGGCAGCGGCA---------GCGGCAGCACCACAACATTAGCACCATCGTT-----------CATTGCCGCCCGGCAGGCAGTGCGAGGCAACGGCAATAGCAGCAGCCA
     mojavensis  --------AAAGGCAGCGGCA---------GCGGCAGCACCACAACATTAGCACCATCGTT-----------CATTGCACCGCAGCAGGCAGTGCGAGGCAACGGCAATAGCAGCA-CTC
      grimshawi  ----------CAGCAGCAGCAGTCGTCCTGGCAGCAGCACCACAACATTAGCACCATCGTT-----------CATTGCACCGCGGCAGGCAGTGCGAAAGAGCGGCAATAGGCACA----
        Summary  BBBBBBBBBMMMMMMMMRRRRRRRRRRRRRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRRRRRRRBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  ------------TCAGGCTGTCCCGCTCG--CAC-CTGCCTGGGTCGCTGCGATTGGCCGC---------TCCCA---GCGACGGCGGCCA---------TTTGCCTGCA-GA----GCG
       simulans  ------------TCA-GCTGT--CGCTCG--CAC-TG--CTGGCGCGCTGCGATGG--CGC---------T-CCA---GCGACG-----------------CGGCATGCT-GC----AAG
      sechellia  ------------TCAGGCTGTCCCGCTCG--CAC-CTGCCTGGGCCGCTGCGATTGGCCGC---------TCCCA---GCGACGGCGGCCA---------TTTGCCTGCA-GA----GCG
         yakuba  ------------TCAGGCTGTCCCGCTCG--CAC-CTGCCTCGCTCGCTGCGATTGGCCGC---------TCCCT---GCGACGGCGGCCA---------TTTGCCTGCG-GA----GCG
         erecta  ------------TCAGGCTGTCCCGCTCG--CAC-CTGCCTCGGCCGCTGCGATTGGCCGC---------TCCCA---GCGACGGCGGCCA---------TTTGCCTGCG-GA----GCG
      ananassae  ------------GCCTGCCATCTCGCTCT--TGC-CGGCCGT--------CGATTGGCTGC---------CTGCC---GACACGGCAGCCATTGCTAAGGTCGGCCTGCA-GACCTCTCG
  pseudoobscura  ------------ATCTGCTGTCCCGCTCGAACGC-CTGGCT-GCCTGCTTTGATTGGCTGCAGTGCAGTGCCTGG---GCGACGGCGGCCA----------TTGCAGGCACGG----CCG
     persimilis  ------------ATCTGCTGTCCCGCTCGAACGC-CTGGCT-GCCTGCTTTGATTGGCTGCAGGGCAGTGCCTGG---GCGACGGCGGCCA----------TTGCAGGCACGG----GCG
        virilis  AATGCACAAC--TATCGCCGTCTCGCTTG--CGCCTGGCGCGTTGGGCTGCCATTGGCCGG---------GCGCT-TGCCTGCGGCAGCCA---------TTGCTATGCG-GG----C--
     mojavensis  TATGCACAACCGTAGTGCCGTCTCGCTCG--CGCACAGCACAAGCCACGCTCATTGGCTGT---------TGGCC-TGCCTGCGGCAGCCA---------TTGCTCTGCT-GC----CT-
      grimshawi  --CACACAAC--TATCGCCATCTCACTCG--CACACAGCGAAGCAAGCGTTGATTGGCTGC---------GCGAAGTGCCTGCGACGGCCA---------TTGCTCAGCG-GC----T--
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB

                 
   melanogaster  CAGCGGTATAAAA-GGG-CG-CGGGGTGGCTGAGAGCAGCACACTCGAGCTGTGACCGCCGCACAGTCAACAACT----------------------AACTGCCTTCGTTA---------
       simulans  CGACGATAAAGCG-CGG-TG-CTGAGACACTCAGCGTGACGCCATCAA------------------------------------------------------------------------
      sechellia  CAGCGGTATAAAA-GGG-CG-CGGGGTGGCTGAGAGCAGCACACTCGAGCTGTGACCGCCGCACAGTCAAC--------------------------AACTGCCTTCGTTA---------
         yakuba  CAGGGGTATAAAA-GGG-CG-CGGGGTGGCTGAGAGCAGCACACTCGAGCTGTGACCGCCGCACAGTCAGC--------------------------AACTGCCTTCGTTA---------
         erecta  CAGCGGTATAAAA-GGG-CG-CGGGGTGGCTGAGAGCAGCACACTCGAGCTGTGACCGCCGCACAGTGAAC--------------------------AACTGCC-TCGTTA---------
      ananassae  CAGGTATAAAAGC-GGG-CG--GGGGTGGCTGGGAGAGGCACACTCGAACTGTGACCGCCGCACAGTCAACAC------------------------ATCCGCCTTTTCCAAAAGCAACT
  pseudoobscura  CAGAGGTATATAA-GGGCCG-CGGGGTGGCCGAGAGAGGCACATTCGAACTGTAACCGTCGCACAGTCCAGACACACTCGATCCGCTCCGAAAAGAGAACCGCAGTTTCCA---------
     persimilis  CAGAGGTATATAAGGGGTCG-CGGGGTGGCCGAGAGAGGCACATTCGAACTGTAACCGTCGCACAGTCCAGACACACTCGATCCGCTCCGAAAAGAGAACCGCAGTTTCCA---------
        virilis  ---TGGTATAAAA-GAG-AGCCGGGGTAGCTGAGAGCGACACACTTGAGCTGTAACCATCGCAGAGTCAAC--------------------------ATCGTCGCTTAACC---TTTAAA
     mojavensis  ---TGGTATAAAA-GAG-AGCCGGGGTAGCTGAGAGCGATACACTTGAGCTGTAACCATCGCAGAGTCAGC--------------------------ATCGTCGC---------------
      grimshawi  ---AGGTATAAAA-GCG-AGTCGGGGTAGCTGAGAGAGGCACACTTGAGCTGTAAGCATCGCAGAGTCAAC--------------------------ATCGT------------------
        Summary  BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBRRR

                 
   melanogaster  --ATA---TCCTCTGAATAAGCCAACTTTGAATCACA----------------------------A--GACGCAT----------ACCAAACATGCACGGATACCGAACCTAC
       simulans  -----------------------------------------------------------------------------------------------------------ACCCAC
      sechellia  --CTC---TCCTCTGAATAAG--------------------------------------------------------------------------------------------
         yakuba  ----G---TACTCCGAGAAAGCCGACTTTGAATCACA----------------------------A--GACGCAT----------TGCAAACATGCACGGATACCGCACCTAC
         erecta  ----C---TCAGCCGACAAA-CCGACTTTGAATCAGA----------------------------A--GACGCAT----------TCCAAACATGCACGGATACCGAACCTAC
      ananassae  CGAAC---TCTTCCGAACCGACGATCTCTGAATTTCC----------------------------GCCGCCACCG----------CCTAAAGATGCACGGATACCGAACCTAC
  pseudoobscura  ----G---TTCTTAGAGACAACCCATCAACATCCAAC----------------------------G--AACACAT------------TAGCCATGCACGGATACCGAACATAC
     persimilis  ----GTTCTTCTTAGAGACAACCCATCAACATCCAAA----------------------------G--AACACAT------------CAACCATGCACGGATACCGAACATAC
        virilis  CCGTT---TTAACCGTTAAGTTGGAGAGAGAGAGAGA------------GCAGAGTAATATATA-G--TATATAT----------AGCAAA-ATGCACGGATATCGCACCTAC
     mojavensis  ----T---TTAACCGTTAAGTCGGAGAGATAGTGACAACGCCCATACACACACACACATATATATA--TATATATCTATATATTGAACAAA-ATGCACGGATACCGCACCTAC
      grimshawi  ----T---TCCATCGAGAGTTTAAAGGGAAAGCAGCT----------------------------G-------------------ATCAAA-ATGCACGGATACCGCACATAC
        Summary  RRRRRBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB


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