Multiz Alignments of 124 insects |
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Place cursor over species for alignment detail. Click on 'B' to link to browser
for aligned species, click on 'D' to get DNA for aligned species.
Alignment block 1 of 252 in window, 12082995 - 12083029, 35 bps
B D D. melanogaster agcatag----ata----tattt---ttttatttaagag---------cac-ttg--c
D D. simulans agcatag----ata----tattt--gttttatttaaagg---------cac-ttg--c
B D D. sechellia agcatag----ata----tattt--gttttatttaaagg---------cac-ttg--c
D. erecta agcttag----tta------------ttttatttaaagg---------cac-ttg--c
D. yakuba agcatag----ata----t-------ttttatttaaagg---------cac-ttgctc
D. ficusphila agcatag----ttg----ta------tttattttcaagg---------cac-ttg--c
D. eugracilis agcatat----ata------------tttattttcaagg---------cac-ttg--c
D. biarmipes agcatag----atg----ta------tttattttcaagg---------cac-ttg--c
D. suzukii agcatag----ata----ta------tttattttcaagg---------cac-ttg--c
D. takahashii agcatag----atgtatata------tttattttcaagg---------cac-ttg--c
D. elegans agcatag----a------ta------tttattttcaagg---------cac-ttg--c
D. rhopaloa agcatag----a------ta------tttattttcaagg---------cac-ttg--c
D_serrata agcatgt----ata----ta------tttattttcaagg---------cac-ttg--c
D. kikkawai agcatgg----ata----ta------tttattttcaagg---------cac-ttg--c
D. ananassae agcatag----atc------------tttattttcaagg---------cac-ttg--c
D. bipectinata agcatag----atc------------tttattttcaagg---------cac-ttg--c
D_americana gggctgc----cta----ggatt---gacaattaaaaga---------cgc-tcaa-c
D_novamexicana gggctgc----cta----ggatt---ggcaattaaaaga---------cgc-tcaa-c
D. virilis gggctgc----cta----ggatt---ggcaattaaaaga---------cgc-tcaa-t
D_montana aggctgc----cta----aggtt---ggcaattaaaaga---------cgc-acaa-c
D_arizonae agcccga----a--------------gccaattaaaacc---------cgc-tcga-c
D. mojavensis tgcccga----a--------------gccaattaaaacc---------cgc-tcga-c
D_navojoa cgcccga----g--------------ggcaattaaaacc---------cgc-tcga-c
D_hydei cgcccga----g--------------gccaattaaaaat---------cgc-tcga-c
D_busckii aaataaa----a--------------tgcaaataaa----------------------
D_athabasca agaatat----gca------------tttattttcaagg---------cac-ttg--c
D_pseudoobscura_1 agaataa----gta------------tttattttcaagg---------cac-ttg--c
D. miranda agaatat----gta------------tttattttcaagg---------cac-ttg--c
B D D. persimilis agaataa----gta------------tttattttcaagg---------cac-ttg--c
D. pseudoobscura agaataa----gta------------tttattttcaagg---------cac-ttg--c
D_subobscura agaataa--atgta------------tttattttcaagg---------cac-ttg--c
D_obscura agaatat----gta------------tttattttcaagg---------cac-ttg--c
D. albomicans agcatat----att----tagtt---gtaactttgaaga---------aac-taa--a
D. willistoni cggatat----tga----gatcctcattttatttttaag---------cac-tac--c
Stomoxys_calcitrans ggaacaa----ttt----tc------cttagattgataa---------tatgccg--c
Sarcophagidae_BV_2014 tgcagag----tta----aacca---ttgtctaaacaaacatccaagttgg-g-----
Teleopsis_dalmanni cacataaaagtttt----tataa---tttccttaacgga---------tgg-t-----
D. grimshawi ==========================================================
D_nasuta ==========================================================
Proctacanthus_coquilletti ==========================================================
Belgica_antarctica ==========================================================
Lutzomyia_longipalpis ==========================================================
A_farauti ==========================================================
Phlebotomus_papatasi ==========================================================
Bactrocera_oleae ==========================================================
Culex_quinquefasciatus ==========================================================
Glossina_morsitans_2 ==========================================================
Phortica_variegata ==========================================================
Ceratitis_capitata ==========================================================
Lucilia_cuprina ==========================================================
Glossina_brevipalpis ==========================================================
Bactrocera_latifrons ==========================================================
Bactrocera_dorsalis ==========================================================
Zeugodacus_cucurbitae ==========================================================
M. domestica ==========================================================
Zaprionus_indianus ==========================================================
Scaptodrosophila_lebanonensis ==========================================================
T. castaneum ==========================================================
Paykullia_maculata ==========================================================
Inserts between block 1 and 2 in window
D. willistoni 17bp
Alignment block 2 of 252 in window, 12083030 - 12083116, 87 bps
B D D. melanogaster ta---ct-tag--gctaa---t---c-------------------atctta--aactctaat------cc
D D. simulans ta---ct-tag--gctta---t---t-------------------atctta--aactctaat------ct
B D D. sechellia ta---ct-tag--gctag---t---c-------------------atctta--aactctaat------ct
D. erecta ta---ct-tag--gctac---t---c-------------------atccta--aactctaat------ct
D. yakuba ta---ct-tag--gctac---t---c-------------------atctta--aactctaat------ct
D. ficusphila ta---ct-tag--tctat---t---c-------------------agctta--acttgta--------ct
D. eugracilis ta---ct-taatcactaa---t---c-------------------atctta--tattctaaa------ct
D. biarmipes ta---ct-tag--gctat---ctg-c-------------------atctta--tcttcttaa------cc
D. suzukii ta---ct-tag--gctat---ctatc-------------------atctta--tcttcctac------cc
D. takahashii ta---ct-tag--gct---------t-------------------atctta--tcttcttaa------ct
D. elegans ta---ct-tag--gctat---att-cttatgtcttat--------gtctta--tgttctaca------cc
D. rhopaloa ta---ct-ta----ttct---att-c-------------------gtctta--tgtcctaaa------cc
D_serrata ta---ct-tag--gctat---g---c-------------------atcttaggttttctact------gc
D. kikkawai ta---ct-tag--gctat---g---c-------------------atcttagggcttctacg------gc
D. ananassae ta---ct-tag--gatgt---a---c-------------------atctta--------aat------ct
D. bipectinata ta---ct-tag--gatgt---a---c-------------------atctta--------aat------ct
D_americana ta---tt-tt----ataa---a--------------------------tta--atatac-----------
D_novamexicana ta---tt-tt----ataa---a--------------------------tta--atatac-----------
D. virilis ta---tt-tt----ataa---a--------------------------tta--atatac-----------
D_montana ta---tt-tt----ataa---a--------------------------tta--atatata---------t
D_arizonae ta---tt-tta--cataa---a--------------------------tta--aaatata---------t
D. mojavensis ta---tt-tta--cataa---a--------------------------tta--aaatata---------t
D_navojoa ta---tt-tta--cataa---a--------------------------tta--aaatata---------t
D_hydei ta---tt-tta--tataa---a--------------------------tta--aaatata---------t
D_busckii ------t-ttg--tataatgtt--------------------------ttt--agtttta---------t
D_athabasca ta---ct-tag--cctag---ag--g-------------------atctta--ggataca---------c
D_pseudoobscura_1 ta---ct-tat--catag---a---g-------------------atctta--ggatgga---------c
D. miranda ta---ct-tat--catag---a---g-------------------atctta--ggatgga---------c
B D D. persimilis ta---ct-tat--catag---a---g-------------------atctta--ggatgga---------c
D. pseudoobscura ta---ct-tat--catag---a---g-------------------atctta--ggatgga---------c
D_subobscura ta---ct-tag--cttag---a---g-------------------atctta--gcataca---------a
D_obscura ta---ct-tag--catag---a---g-------------------atctta--ggataca---------a
D. albomicans tagagtt-tta--tacga---a--------------------------ttg--cagttga---------g
D. willistoni ta---tt-tct--cgtaa---a-----------------------actgta--aactccaaa------at
Stomoxys_calcitrans tg---ttatag--actac---a---cccagagatcag---caa--acacta--tctgctgat------tt
Ceratitis_capitata -------------------------------tattaaaactaactaactaa--atttataattaaacaat
Sarcophagidae_BV_2014 ----------------------------------------cacctaccccc--actt-taat------ac
Teleopsis_dalmanni ----------------------------------------tttttatgatc--attc-------------
D. grimshawi ======================================================================
D_nasuta ======================================================================
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Bactrocera_oleae ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_morsitans_2 ======================================================================
Phortica_variegata ======================================================================
Lucilia_cuprina ======================================================================
Glossina_brevipalpis ======================================================================
Bactrocera_latifrons ======================================================================
Bactrocera_dorsalis ======================================================================
Zeugodacus_cucurbitae ======================================================================
M. domestica ======================================================================
Zaprionus_indianus ======================================================================
Scaptodrosophila_lebanonensis ======================================================================
T. castaneum ======================================================================
Paykullia_maculata ======================================================================
D. melanogaster ta----agtcg---------------------------------gta--c----tat-------------
D. simulans ta----agtcg---------------------------------gta--c----tat-------------
D. sechellia ta----agtcg---------------------------------gta--c----tat-------------
D. erecta ta----g--tg---------------------------------gtg--c----tat-------------
D. yakuba ta----agttg---------------------------------gtg--c----tat-------------
D. ficusphila ta----acttgtacttaacttctacttaatataaacac------ata--a----tag-------------
D. eugracilis tt----agttg---------------------------------gta--c----tat-------------
D. biarmipes tt----agttg---------------------------------gtaggg----tat-------------
D. suzukii tt----agttg---------------------------------gtatgg----tat-------------
D. takahashii at----attag---------------------------------ata-----------------------
D. elegans tt----agtgg---------------------------------gta--c----tat-------------
D. rhopaloa tt----agtgg---------------------------------gta--c----tat-------------
D_serrata tt----a-------------------------------------gta--ctagatat-------------
D. kikkawai tt----agttg---------------------------------gta--ctaggtat-------------
D. ananassae aa----acggc---------------------------------gta--c----agt-------------
D. bipectinata aa----acagc---------------------------------ata--a----agt-------------
D_americana ----------------------------------------------------------------------
D_novamexicana ----------------------------------------------------------------------
D. virilis ----------------------------------------------------------------------
D_montana ----------------------------------------------------------------------
D_arizonae tt----acgaa-----------------------------------a--c----ttacaaactgaagact
D. mojavensis tt----acgaa-----------------------------------a--c----ttacaaactgaagact
D_navojoa tt----acgaa-----------------------------------a--c----ttacaaactgaagact
D_hydei tt----acgaa-----------------------------------g--c----ttacaaactagaaact
D_busckii tt----caata-----------------------------------g--c----tta-------------
D_athabasca atatacatata---------------------------------gta--c----tta-------------
D_pseudoobscura_1 at----atata---------------------------------gta--c----tta-------------
D. miranda at----atata---------------------------------gta--c----tta-------------
D. persimilis at----atata---------------------------------gta--c----tta-------------
D. pseudoobscura at----atata---------------------------------gta--c----tta-------------
D_subobscura aaa---atata---------------------------------g-a--c----tcg-------------
D_obscura a-----atat------------------------------------a--c----tcg-------------
D. albomicans tt----aaatg-----------------------------------------------------------
D. willistoni ta----actta---------------------------------aaa-----------------------
Stomoxys_calcitrans ta----aatta---------------------------------aaa--a----tct-------------
Ceratitis_capitata ta----agttg------------acgtgacttacatattatatataa--t----ttt-------------
Sarcophagidae_BV_2014 ca----aatcg---------------------------------tta--t----tcc-------------
Teleopsis_dalmanni -------gttg---------------------------------taa--t----ttt-------------
D. grimshawi ======================================================================
D_nasuta ======================================================================
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Bactrocera_oleae ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_morsitans_2 ======================================================================
Phortica_variegata ======================================================================
Lucilia_cuprina ======================================================================
Glossina_brevipalpis ======================================================================
Bactrocera_latifrons ======================================================================
Bactrocera_dorsalis ======================================================================
Zeugodacus_cucurbitae ======================================================================
M. domestica ======================================================================
Zaprionus_indianus ======================================================================
Scaptodrosophila_lebanonensis ======================================================================
T. castaneum ======================================================================
Paykullia_maculata ======================================================================
D. melanogaster ------tttctag-----g----ctta-ca-t--ct-acg--aattg-------gaactaatacatatgt
D. simulans ------ttactag-----g----ctta-ca-t--ct-acg--aattg-------gaactaat-catatgt
D. sechellia ------tttctag-----g----cttg-ca-t--ct-acg--aattg-------gaactaatacatatgt
D. erecta ------tctctag-----g----ctta-gg-t--ct-acg--aattg-------gaacta----------
D. yakuba ------gtcctag-----g----ctta-tt-t--ct-acg--gattg-------gaacta----------
D. ficusphila ------taactat-----a----ctta-tt-t--ctaacg--aattg-------gaacta----------
D. eugracilis ------ttactag-----g----cttagga-t--ct-aca--aattg-------gaacta----------
D. biarmipes ------ttactag-----g----ctta-gg-t--ct-acg--aattg-------gaacta----------
D. suzukii ------tttctag-----g----ctta-gg-t--ct-acg--aattg-------gaacta----------
D. takahashii ---------ctag---ata----ctta-gg-t--ct-aca--aattg-------gaacta----------
D. elegans ------ttactag-----g----ctta-gc-t--ct-acg--aattg-------gaacta----------
D. rhopaloa ------ttactag-----gtctactta-gc-t--ct-acg--aattg-------gaacta----------
D_serrata ------tagctag-----a----ctta-gg-t--ct-aca--aattg-------gaacta----------
D. kikkawai ------tagctag-----g----ctta-gg-t--ct-atg--aattg-------gaacta----------
D. ananassae ------aaactat-----a----ctta-gg-a--ct-acg--aattg-------gaacta----------
D. bipectinata ------aaactac-----a----ctta-tg-a--ct-acg--aattg-------gaacta----------
D_americana --------catat-----a----ttta-ct-t--tt-gga--aacttaa-----gaactc----------
D_novamexicana --------catat-----a----ttta-ct-t--tt-gga--aacttga-----gaactc----------
D. virilis --------catat-----a----ttta-ct-t--tt-cga--aacttaa-----gaactc----------
D_montana -----atatatat-----a----ttta-ct-t--tt-gga--aacttaa-----gaactc----------
D_arizonae taggattacagagaaaaaa----tatg-tt-g--gt-aaa--tgcttagagattgaattg----------
D. mojavensis taggattacagagaaaaaa----tatg-tt-g--gt-aaa--tgcttagagattgaattg----------
D_navojoa taggattacagag--aaaa----tata-tt-g--gt-aaa--tgcttagagattgaattg----------
D_hydei agagactaaaaag--aaaa----tata-tt-g--gt-aaa--tgcttagagattggattg----------
D_busckii ---gtttaaggcg-----a----taaa-tt-a--at-tga--aactaaaagctagaac------------
D_athabasca ------tacttat-----a----atta-tg-a--ta-ggatat-----------agacta----------
D_pseudoobscura_1 ------tacgtat-----a----ctta-tt-a--ta-gga--t-----------ggtcta----------
D. miranda ------tacgtat-----a----ctta-tt-a--ta-gga--t-----------ggacta----------
D. persimilis ------tacgtat-----a----ctta-tt-a--ta-gga--t-----------ggacta----------
D. pseudoobscura ------tacgtat-----a----ctta-tt-a--ta-gga--t-----------ggacta----------
D_subobscura ------taatcgt-aggga----ctta-ttgg--ta-gaa--t-----------aaacta----------
D_obscura ------tactcgt-----a----ctta-tt-g--ta-gga--t-----------aaacta----------
D. albomicans ------aatgcgt----------cttc-tt-t--ta-cta--t-----------aaattg----------
D. willistoni ----------------------------------------------------------------------
Stomoxys_calcitrans ------tcgattt----aa----aata-aa-a--at-aca--tatt------------------------
Ceratitis_capitata -----ttttttta-----a----ttcg-aa-t--ac-ata--catat-------tta-------------
Sarcophagidae_BV_2014 ------tttctaa-----g----ctta-ca-ttcac-gat--aagat-------aat-------------
Teleopsis_dalmanni ----ggtttttaa-----g----ctcc-aa-t--aa-aat--aatac-------aaa-------------
D. grimshawi ======================================================================
D_nasuta ======================================================================
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Bactrocera_oleae ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_morsitans_2 ======================================================================
Phortica_variegata ======================================================================
Lucilia_cuprina ======================================================================
Glossina_brevipalpis ======================================================================
Bactrocera_latifrons ======================================================================
Bactrocera_dorsalis ======================================================================
Zeugodacus_cucurbitae ======================================================================
M. domestica ======================================================================
Zaprionus_indianus ======================================================================
Scaptodrosophila_lebanonensis ======================================================================
T. castaneum ======================================================================
Paykullia_maculata ======================================================================
D. melanogaster t
D. simulans a
D. sechellia a
D. erecta -
D. yakuba -
D. ficusphila -
D. eugracilis -
D. biarmipes -
D. suzukii -
D. takahashii -
D. elegans -
D. rhopaloa -
D_serrata -
D. kikkawai -
D. ananassae -
D. bipectinata -
D_americana -
D_novamexicana -
D. virilis -
D_montana -
D_arizonae -
D. mojavensis -
D_navojoa -
D_hydei -
D_busckii -
D_athabasca -
D_pseudoobscura_1 -
D. miranda -
D. persimilis -
D. pseudoobscura -
D_subobscura -
D_obscura -
D. albomicans -
D. willistoni -
Stomoxys_calcitrans -
Ceratitis_capitata -
Sarcophagidae_BV_2014 -
Teleopsis_dalmanni -
D. grimshawi =
D_nasuta =
Proctacanthus_coquilletti =
Belgica_antarctica =
Lutzomyia_longipalpis =
A_farauti =
Phlebotomus_papatasi =
Bactrocera_oleae =
Culex_quinquefasciatus =
Glossina_morsitans_2 =
Phortica_variegata =
Lucilia_cuprina =
Glossina_brevipalpis =
Bactrocera_latifrons =
Bactrocera_dorsalis =
Zeugodacus_cucurbitae =
M. domestica =
Zaprionus_indianus =
Scaptodrosophila_lebanonensis =
T. castaneum =
Paykullia_maculata =
Inserts between block 2 and 3 in window
D_busckii 8bp
Stomoxys_calcitrans 6496bp
Alignment block 3 of 252 in window, 12083117 - 12083122, 6 bps
B D D. melanogaster ---ta-ttgt
D D. simulans ---ta-ttgt
B D D. sechellia ---ta-ttgt
D. erecta ---ta-tggt
D. yakuba ---tatttgt
D. ficusphila ------t--t
D. eugracilis ------t--t
D. biarmipes ------t--t
D. suzukii ------t--t
D. takahashii ------t--t
D. elegans ------t--t
D. rhopaloa ------t--t
D_serrata ------t--t
D. kikkawai ------t--t
D. ananassae ------t--t
D. bipectinata ------t--t
D_americana ------g--a
D_novamexicana ------a--t
D. virilis ------g--c
D_montana ------g--a
D_arizonae ------t--g
D. mojavensis ------t--g
D_navojoa ------t--g
D_hydei ------c--g
D_athabasca ------t--g
D_pseudoobscura_1 ------t--a
D. miranda ------t--g
B D D. persimilis ------t--g
D. pseudoobscura ------t--g
D_subobscura ------t--g
D_obscura ------t--g
D. albomicans ------g--g
Ceratitis_capitata tatta-t---
Sarcophagidae_BV_2014 agtaa-t---
Teleopsis_dalmanni tttta-t---
D. willistoni ----------
D_busckii ==========
D. grimshawi ==========
D_nasuta ==========
Proctacanthus_coquilletti ==========
Belgica_antarctica ==========
Lutzomyia_longipalpis ==========
A_farauti ==========
Phlebotomus_papatasi ==========
Stomoxys_calcitrans ==========
Bactrocera_oleae ==========
Culex_quinquefasciatus ==========
Glossina_morsitans_2 ==========
Phortica_variegata ==========
Lucilia_cuprina ==========
Glossina_brevipalpis ==========
Bactrocera_latifrons ==========
Bactrocera_dorsalis ==========
Zeugodacus_cucurbitae ==========
M. domestica ==========
Zaprionus_indianus ==========
Scaptodrosophila_lebanonensis ==========
T. castaneum ==========
Paykullia_maculata ==========
Inserts between block 3 and 4 in window
D_americana 35bp
D_novamexicana 35bp
D. virilis 36bp
D_montana 36bp
D_arizonae 31bp
D. mojavensis 31bp
D_navojoa 31bp
D_hydei 31bp
D_athabasca 43bp
D_pseudoobscura_1 43bp
D. miranda 43bp
B D D. persimilis 43bp
D. pseudoobscura 43bp
D_subobscura 50bp
D_obscura 43bp
D. albomicans 306bp
Alignment block 4 of 252 in window, 12083123 - 12083123, 1 bps
B D D. melanogaster t
D D. simulans t
B D D. sechellia t
D. erecta t
D. yakuba t
D. ficusphila t
D. eugracilis t
D. biarmipes t
D. suzukii t
D. takahashii t
D. elegans t
D. rhopaloa t
D_serrata t
D. kikkawai t
D. ananassae t
D. bipectinata t
D_americana t
D_novamexicana t
D. virilis t
D_montana t
D_arizonae t
D. mojavensis t
D_navojoa t
D_hydei t
D_busckii t
D_athabasca t
D_pseudoobscura_1 c
D. miranda c
B D D. persimilis c
D. pseudoobscura c
D_subobscura c
D_obscura c
Ceratitis_capitata t
Sarcophagidae_BV_2014 a
Teleopsis_dalmanni g
D. willistoni -
D. grimshawi =
D. albomicans =
D_nasuta =
Proctacanthus_coquilletti =
Belgica_antarctica =
Lutzomyia_longipalpis =
A_farauti =
Phlebotomus_papatasi =
Stomoxys_calcitrans =
Bactrocera_oleae =
Culex_quinquefasciatus =
Glossina_morsitans_2 =
Phortica_variegata =
Lucilia_cuprina =
Glossina_brevipalpis =
Bactrocera_latifrons =
Bactrocera_dorsalis =
Zeugodacus_cucurbitae =
M. domestica =
Zaprionus_indianus =
Scaptodrosophila_lebanonensis =
T. castaneum =
Paykullia_maculata =
Inserts between block 4 and 5 in window
D_serrata 1bp
Ceratitis_capitata 59bp
Sarcophagidae_BV_2014 9bp
Teleopsis_dalmanni 9bp
Alignment block 5 of 252 in window, 12083124 - 12083144, 21 bps
B D D. melanogaster ------------------------------------t-a--------gg-agcgagtctgtcagcgg
D D. simulans ------------------------------------t-g--------gg-agcgagtctgtcagcgg
B D D. sechellia ------------------------------------c-g--------gg-agcgagtctgtcagcgg
D. erecta ------------------------------------t-g--------gg-agcgagtctgtcagcgg
D. yakuba ------------------------------------t-g--------gg-agcgagtctgtcagcgg
D. ficusphila ------------------------------------t-g--------gg-ggcgagtctgtcagagg
D. eugracilis ------------------------------------t-a--------gg-ggcgagtctgtcagagg
D. biarmipes ------------------------------------t-g--------gg-ggcgagtccgtcagagg
D. suzukii ------------------------------------t-g--------gg-ggcgagtctgtcagagg
D. takahashii ------------------------------------tcg--------gg-ggcgagtctgtcagagg
D. elegans ------------------------------------t-atggggggcag-ggcgagtctgtcagatg
D. rhopaloa ------------------------------------t-g--------gg-ggcgagtctgtcagatg
D_serrata ------------------------------------g-g--------gg-ggcgagtatggtagaca
D. kikkawai ------------------------------------g-g--------gg-ggcgagtgtgatagagg
D. ananassae ------------------------------------t-g--------ggaggcgagtgtattagagg
D. bipectinata ------------------------------------g-g--------ggaggcgagcgtattagagg
D_americana ------------------------------------t-a--------ga-gat--------------
D_novamexicana ------------------------------------t-a--------ga-gat--------------
D. virilis ------------------------------------t-a--------ga-gat--------------
D_montana ------------------------------------t-a--------ga-gat--------------
D_arizonae ------------------------------------t-g--------gc-gat--------------
D. mojavensis ------------------------------------t-g--------gc-gat--------------
D_navojoa ------------------------------------t-g--------gc-gat--------------
D_hydei ------------------------------------t-g--------gc-gat--------------
D_busckii ------------------------------------a-g--------gt-gta--------------
D_athabasca ------------------------------------t-g--------aa-gat--------------
D_pseudoobscura_1 ------------------------------------t-g--------aa-gat--------------
D. miranda ------------------------------------t-g--------aa-gat--------------
B D D. persimilis ------------------------------------t-g--------aa-gat--------------
D. pseudoobscura ------------------------------------t-g--------aa-gat--------------
D_subobscura ------------------------------------t-g--------aa-gat--------------
D_obscura ------------------------------------t-g--------aa-gat--------------
D. willistoni --------------------------------------------------g----------------
Sarcophagidae_BV_2014 cag----------------gaatgtataaaatatctt-t--------ac-atcgatatggacaacgg
Teleopsis_dalmanni tagagaagagatcaagatcgaatgtattttgcagtta-t--------ta-ggcgatcatgtatatgg
D. grimshawi ===================================================================
D. albomicans ===================================================================
D_nasuta ===================================================================
Proctacanthus_coquilletti ===================================================================
Belgica_antarctica ===================================================================
Lutzomyia_longipalpis ===================================================================
A_farauti ===================================================================
Phlebotomus_papatasi ===================================================================
Stomoxys_calcitrans ===================================================================
Bactrocera_oleae ===================================================================
Culex_quinquefasciatus ===================================================================
Glossina_morsitans_2 ===================================================================
Phortica_variegata ===================================================================
Ceratitis_capitata ===================================================================
Lucilia_cuprina ===================================================================
Glossina_brevipalpis ===================================================================
Bactrocera_latifrons ===================================================================
Bactrocera_dorsalis ===================================================================
Zeugodacus_cucurbitae ===================================================================
M. domestica ===================================================================
Zaprionus_indianus ===================================================================
Scaptodrosophila_lebanonensis ===================================================================
T. castaneum ===================================================================
Paykullia_maculata ===================================================================
Alignment block 6 of 252 in window, 12083145 - 12083176, 32 bps
B D D. melanogaster ttttcccaaacggaaaatgt------------ctgtactg-ct---------------cc
D D. simulans ttttcccaaatggaaaatgt------------ctgtactg-ct---------------cc
B D D. sechellia ttttcccaaatggaaaatgt------------ctgtactg-ct---------------cc
D. erecta ttttccccagcggaaaatgt------------ctgtactg-ct-----------------
D. yakuba ttttcccaaacggaaaatgt------------ctgtactg-ct---------------cc
D. ficusphila ttttcccagatggaaaatgt------------ctgtactg-cc---------------cc
D. eugracilis ttttcccacatggaaaatgt------------ctgtactg-cc---------------cc
D. biarmipes ttttcccacatggaaaatgt------------ctgtactgccc---------------cc
D. suzukii tttt-ccacatggaaaatgt------------ctgtactg-cc---------------cc
D. takahashii ttttcccacatggaaaatgt------------ctgtactg-cc---------------cc
D. elegans ttttgccacatggaaaacat------------cagtactg-cc---------------cc
D. rhopaloa ttttcccacatggaaaacgt------------cagtactg-cc---------------cc
D_serrata ttttcccatatggaaaacgt------------ctgtactg-cc---------------ct
D. kikkawai ttttcccatatggaaaacgt------------ctgtactg-cc---------------ct
D. ananassae tttt-ccatttggaaaatgt------------ccatactg-cc---------------cc
D. bipectinata tttt-ccatttggaaaacgt------------ccatactg-cc---------------cc
D_americana tgaaatg----tggcggcga------------ctccacga-tg---------------aa
D_novamexicana tgaaatg----tggcggcga------------ctccacga-tg---------------aa
D. virilis tgaattg----tggcggcga------------ctccacga-tg---------------aa
D_montana tgacatg----tggcggcga------------ctccacga-tg---------------aa
D_arizonae gtcaacggtcagggaggcga------------ctcaacac-ct---------------gc
D. mojavensis gtcaacggtcaaggaggtga------------ctcaacac-ct---------------gc
D_navojoa gtcaacggtcaaggaggtga------------ctcaacac-ct---------------gc
D_hydei gtcaacggttggggaggtga------------ctcaacac-cc---------------gc
D_busckii agcaatagt---------------------------------------------------
D_athabasca gttttccatatggaaaatgt------------ctgtactt-cc---------------cc
D_pseudoobscura_1 gttttccatatggaaaatgt------------ctctactt-cc---------------cc
D. miranda gtttaccatatggaaaatgt------------ctctactt-cc---------------cc
B D D. persimilis gttttccatatggaaaatgt------------ctctactt-cc---------------cc
D. pseudoobscura gttttccatatggaaaatgt------------ctctactt-cc---------------cc
D_subobscura gttttccatgcggaaaatgt------------ctctactt-c------------------
D_obscura gttttccatctggaaaatgt------------ctatactt-cccgctcccgctcccttcc
D. albomicans ttttcaaagtagaaagatct------------atctgcct-tc---------------tc
D. willistoni ----tcttcatgaaaaaata------------cttaaaat-ac---------------ac
Sarcophagidae_BV_2014 --tttctatggcgtgaatgc----------------------------------------
Teleopsis_dalmanni --tttatggatcgggaatgttttaagatatct----------------------------
D. grimshawi ============================================================
D_nasuta ============================================================
Proctacanthus_coquilletti ============================================================
Belgica_antarctica ============================================================
Lutzomyia_longipalpis ============================================================
A_farauti ============================================================
Phlebotomus_papatasi ============================================================
Stomoxys_calcitrans ============================================================
Bactrocera_oleae ============================================================
Culex_quinquefasciatus ============================================================
Glossina_morsitans_2 ============================================================
Phortica_variegata ============================================================
Ceratitis_capitata ============================================================
Lucilia_cuprina ============================================================
Glossina_brevipalpis ============================================================
Bactrocera_latifrons ============================================================
Bactrocera_dorsalis ============================================================
Zeugodacus_cucurbitae ============================================================
M. domestica ============================================================
Zaprionus_indianus ============================================================
Scaptodrosophila_lebanonensis ============================================================
T. castaneum ============================================================
Paykullia_maculata ============================================================
Inserts between block 6 and 7 in window
D. takahashii 4bp
Alignment block 7 of 252 in window, 12083177 - 12083204, 28 bps
B D D. melanogaster a---ccaca---------aataaaa--tgttatt---tata--ttt------t
D D. simulans g---ccaca---------aataaaa--tgttatt---tatg--ttt------t
B D D. sechellia a---ccaca---------aataaaa--tgttatt---tata--ttt------t
D. erecta ----ccaca---------caagaag--tgttatt---ttta--ctt------t
D. yakuba a----caca---------aagaaaa--tgttatt---tttattttt------t
D. ficusphila c---ctacg----------atacgg--aaatatt---tctt--ctt------t
D. eugracilis a----caca------------aaaa--tgttatt---ttta--tgt------t
D. biarmipes a----caca------------aaaa--tgttatt---ttta--tgt------t
D. suzukii a----caca------------aaaa--tgttatt---ttta--tgt------t
D. takahashii a----caca------------aaaa--tgatatt---ttta--tgc------t
D. elegans a----ctca------------gaaa--tgttgttgtgttca--tgt------t
D. rhopaloa a----caca------------aaaa--tgttatt---ttca--tgt------t
D_serrata -------------------------------------gctg--tct------c
D. kikkawai -------------------------------------gctg--tct------c
D. ananassae g----tgaa------------taaa--ttgtatt---ttca--tgt------c
D. bipectinata g----tgaa------------taaa--ttgtatt---ttca--tgt------c
D_americana t-------a-----------------------tg---tata--tgc------t
D_novamexicana t-------a-----------------------tg---tata--tgc------t
D. virilis t-------a-----------------------tg---tata--tgc------t
D_montana -------------------------------------tata--tgc------t
D_arizonae tc--cagga-----------------------tc---tagc--agt------t
D. mojavensis tc--cagga-----------------------tc---tagc--agt------t
D_navojoa tc--cagga-----------------------tg---tagc--agtacatcct
D_hydei tt-----------------------------------tagc--tct------g
D_busckii -------------------------------------tagc--ggc------t
D_athabasca ct--gccca----------------------------catc--ttc------t
D_pseudoobscura_1 ct--cccca----------------------------catc--ttc------t
D. miranda ct--cccca----------------------------catc--ttc------t
B D D. persimilis ct--cccca----------------------------catc--ttc------t
D. pseudoobscura ct--cccca----------------------------catc--ttc------t
D_subobscura -----ccca----------------------------cgtt--ccc------t
D_obscura ct--tccca----------------------------tccc--ttc------a
D. albomicans tt--cataaattaacattgctatag--atgtatg---tata--aat------t
D. willistoni agagcttca-----------------------tg---ttta--act------c
Ceratitis_capitata ------------aacataaataaag--tataata---taca--tg--------
Sarcophagidae_BV_2014 -----------------gactaaaa--tgttatg---tata--ttt------t
Teleopsis_dalmanni ------------tgcaaaattaaaaactctgatc---aata--att------t
D. grimshawi =====================================================
D_nasuta =====================================================
Proctacanthus_coquilletti =====================================================
Belgica_antarctica =====================================================
Lutzomyia_longipalpis =====================================================
A_farauti =====================================================
Phlebotomus_papatasi =====================================================
Stomoxys_calcitrans =====================================================
Bactrocera_oleae =====================================================
Culex_quinquefasciatus =====================================================
Glossina_morsitans_2 =====================================================
Phortica_variegata =====================================================
Lucilia_cuprina =====================================================
Glossina_brevipalpis =====================================================
Bactrocera_latifrons =====================================================
Bactrocera_dorsalis =====================================================
Zeugodacus_cucurbitae =====================================================
M. domestica =====================================================
Zaprionus_indianus =====================================================
Scaptodrosophila_lebanonensis =====================================================
T. castaneum =====================================================
Paykullia_maculata =====================================================
Inserts between block 7 and 8 in window
D_athabasca 6bp
D_pseudoobscura_1 8bp
D. miranda 8bp
B D D. persimilis 8bp
D. pseudoobscura 8bp
D_obscura 5bp
D. albomicans 6bp
Teleopsis_dalmanni 3228bp
Alignment block 8 of 252 in window, 12083205 - 12083230, 26 bps
B D D. melanogaster cgt-------------------cccctg-------------------c-----tctatgggtatgtaca
D D. simulans cgt-------------------cccctg-------------------c-----tctatatgtatgtaca
B D D. sechellia cgt-------------------cccctg-------------------c-----tctatatgtatgtaca
D. erecta cgt-------------------cccctg-------------------c-----tcca----tatgtaca
D. yakuba cgt-------------------cccctg-------------------cgaacatcta----tatgtaca
D. ficusphila tcc-------------------ccccag-------------------c-------------tatttaca
D. eugracilis tct-------------------ccccag-------------------c-------------tatgtaca
D. biarmipes gct-------------------cccc---------------------c-------------tatgtaca
D. suzukii gct-------------------ccccag-------------------c-------------tatgtaca
D. takahashii tct-------------------cccccagctacatcgtttatatattt-------------tatgtaca
D. elegans tct-------------------ccccag-------------------c-------------tatttaca
D. rhopaloa tct-------------------cccctg-------------------c-----tatg----tatgtaca
D_serrata cct-------------------tccctg-------------------c-------------tatttaca
D. kikkawai ccc-------------------ttcctg-------------------c-------------tatgtaca
D. ananassae tcttccctctctgtggtttttcccgctg-------------------c-------------tatttaca
D. bipectinata tcttccctctctgttgtat---cccctg-------------------c-------------tatttaca
D_americana agt--------------------------------------------g-------------tacatgaa
D_novamexicana agt--------------------------------------------g-------------tacatgaa
D. virilis agt--------------------------------------------g-------------tacatgaa
D_montana agt--------------------------------------------g-------------tacatgaa
D_arizonae gct--------------------------------------------a-------------ctcctgct
D. mojavensis gct--------------------------------------------a-------------ctcctgct
D_navojoa gct--------------------------------------------a-------------ctcctgct
D_hydei gct--------------------------------------------g-------------ccccag--
D_busckii gca--------------------------------------------a-------------ttggtgca
D_athabasca tgt--------------------------------------------g-------------tatgtaca
D_pseudoobscura_1 tat--------------------------------------------g-------------tatgtaca
D. miranda tat--------------------------------------------g-------------tatgtaca
B D D. persimilis tat--------------------------------------------g-------------tatgtaca
D. pseudoobscura tat--------------------------------------------g-------------tatgtaca
D_subobscura ----------------------------------------------------------------gtaca
D_obscura tgt--------------------------------------------g-------------tatgtaca
D. albomicans tat--------------------------------------------t-------------tatttgca
D. willistoni tat-------------------cttaaa-------------------a-------------aacaaata
Ceratitis_capitata ---------------------------------------------------------------catgcg
D. grimshawi =====================================================================
D_nasuta =====================================================================
Proctacanthus_coquilletti =====================================================================
Belgica_antarctica =====================================================================
Lutzomyia_longipalpis =====================================================================
Sarcophagidae_BV_2014 =====================================================================
A_farauti =====================================================================
Phlebotomus_papatasi =====================================================================
Stomoxys_calcitrans =====================================================================
Bactrocera_oleae =====================================================================
Culex_quinquefasciatus =====================================================================
Glossina_morsitans_2 =====================================================================
Phortica_variegata =====================================================================
Lucilia_cuprina =====================================================================
Glossina_brevipalpis =====================================================================
Bactrocera_latifrons =====================================================================
Bactrocera_dorsalis =====================================================================
Zeugodacus_cucurbitae =====================================================================
M. domestica =====================================================================
Teleopsis_dalmanni =====================================================================
Zaprionus_indianus =====================================================================
Scaptodrosophila_lebanonensis =====================================================================
T. castaneum =====================================================================
Paykullia_maculata =====================================================================
Alignment block 9 of 252 in window, 12083231 - 12083262, 32 bps
B D D. melanogaster tctttggcgacttgta----c-----c------a----------------tggatct-------------
D D. simulans tctttggcgacttgta----a-----c------a----------------tggatct-------------
B D D. sechellia tctttggcgacttgta----a-----c------a----------------tggatct-------------
D. erecta tctttggcgacttgtc----c-----c------a----------------gggatct-------------
D. yakuba tctttggc--------------------------------------------------------------
D. ficusphila tctttggc--------------------------------------------gatct-------------
D. eugracilis tctttggcgacttgtct---t-----t------a----------------gggatct-------------
D. biarmipes tctttggcgactcgtc----c-----c------a----------------gggatcc-------------
D. suzukii tctttggcgacttgtt----c-----c------a----------------gggatcc-------------
D. takahashii tctttggcgacttgtc----c-----c------t----------------gggatct-------------
D. elegans tctttggcggcttgtt--------------------------------------cct-------------
D. rhopaloa tctttggcggcttgtt----c-----c------a----------------gggacct-------------
D_serrata tctttggcggcttgtc----t-----------------------------ggcaccc-------------
D. kikkawai tctttggcggcgtgtc----tggtacc------c----------------ggcacct-------------
D. ananassae tctttggcgacttgtctctct-----c------t----------------aggatat-------------
D. bipectinata tctttggcgacttgtctctct-----c------t----------------aggatat-------------
D_americana tctttggcgacgtcag----t-----g------aaaatgttagag-atggtgactca-------------
D_novamexicana tctttggcgacgtcag----t-----g------aaaatgttggag-atggtgactca-------------
D. virilis tctttggcgacatcag----t-----g------aaaatgttagag-atggtggctca-------------
D_montana tctttggcgacgtcag----t-----g------aaaaggttagag-atggcggctca-------------
D_arizonae gcttcgatagcttctg----t-----g------g------------------------------------
D. mojavensis gcttctatagcttctg----t-----g------g------------------------------------
D_navojoa gctccaatagcttcta----t-----g------g------------------------------------
D_hydei gatctagcagtttcta----c-----t------g------------------------------------
D_busckii tctttggcgaggtcaa----a-----g------g------------------------------------
D_athabasca tctttggcgacatcaa----t-----a------a----------------cggatcc-------------
D_pseudoobscura_1 tctttggcgacatcaa----t-----c------a----------------cggatca-------------
D. miranda tctttggcgacatcaa----t-----c------a----------------tggatca-------------
B D D. persimilis tctttggcgacatcaa----t-----c------a----------------cggatca-------------
D. pseudoobscura tctttggcgacatcaa----t-----c------a----------------cggatca-------------
D_subobscura tctttggcgacatcaa----t-----c-----aa----------------cggatca-------------
D_obscura tctttggcgacatcaa----g-----c-----ga----------------cggatca-------------
D. albomicans acttnagaaccactcg----a-----g------acttggtgctagcatagtgtaaca----tgattcttt
D. willistoni tctttggcgacgcata----t-----tttaaaaa----------------catatttgctatatttagta
Ceratitis_capitata ctggtgaaaac---------t-----a------a----------------cgaatca-------------
A_christyi tcttttgcgccgagtg----t-----g------t-------------------gccg-------------
D. grimshawi ======================================================================
D_nasuta ======================================================================
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
Sarcophagidae_BV_2014 ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Stomoxys_calcitrans ======================================================================
Bactrocera_oleae ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_morsitans_2 ======================================================================
Phortica_variegata ======================================================================
Lucilia_cuprina ======================================================================
Glossina_brevipalpis ======================================================================
Bactrocera_latifrons ======================================================================
Bactrocera_dorsalis ======================================================================
Zeugodacus_cucurbitae ======================================================================
M. domestica ======================================================================
Teleopsis_dalmanni ======================================================================
Zaprionus_indianus ======================================================================
Scaptodrosophila_lebanonensis ======================================================================
T. castaneum ======================================================================
Paykullia_maculata ======================================================================
D. melanogaster gg-------tgac
D. simulans gc-------tgac
D. sechellia gg-------tgac
D. erecta gg-------tgac
D. yakuba ----------gac
D. ficusphila gg-------tgac
D. eugracilis gg-------cgac
D. biarmipes gg-------agac
D. suzukii gg-------tgac
D. takahashii gg-------tgac
D. elegans gg-------tgac
D. rhopaloa gg-------cgac
D_serrata gg-cacc--tggc
D. kikkawai gg-cacc--tggc
D. ananassae gg-------tgac
D. bipectinata gg-------taac
D_americana -----------ac
D_novamexicana -----------ac
D. virilis -----------ac
D_montana -----------ac
D_arizonae -------------
D. mojavensis -------------
D_navojoa -------------
D_hydei -------------
D_busckii -------------
D_athabasca gg-------tgac
D_pseudoobscura_1 gg-------tgac
D. miranda gg-------tgac
D. persimilis gg-------tgac
D. pseudoobscura gg-------tgac
D_subobscura gc-------tgac
D_obscura gg-------tgac
D. albomicans gg-------cgag
D. willistoni gg-------ccac
Ceratitis_capitata taatatcaataat
A_christyi ca-------cagt
D. grimshawi =============
D_nasuta =============
Proctacanthus_coquilletti =============
Belgica_antarctica =============
Lutzomyia_longipalpis =============
Sarcophagidae_BV_2014 =============
A_farauti =============
Phlebotomus_papatasi =============
Stomoxys_calcitrans =============
Bactrocera_oleae =============
Culex_quinquefasciatus =============
Glossina_morsitans_2 =============
Phortica_variegata =============
Lucilia_cuprina =============
Glossina_brevipalpis =============
Bactrocera_latifrons =============
Bactrocera_dorsalis =============
Zeugodacus_cucurbitae =============
M. domestica =============
Teleopsis_dalmanni =============
Zaprionus_indianus =============
Scaptodrosophila_lebanonensis =============
T. castaneum =============
Paykullia_maculata =============
Alignment block 10 of 252 in window, 12083263 - 12083264, 2 bps
B D D. melanogaster ac---
D D. simulans ac---
B D D. sechellia ac---
D. erecta ac---
D. yakuba ac---
D. ficusphila ac---
D. eugracilis ac---
D. biarmipes ac---
D. suzukii ac---
D. takahashii ac---
D. elegans ac---
D. rhopaloa ac---
D_serrata ac---
D. kikkawai ac---
D. ananassae ac---
D. bipectinata ac---
D_americana ac---
D_novamexicana ac---
D. virilis ac---
D_montana ac---
D_arizonae -c---
D. mojavensis -c---
D_navojoa -c---
D_athabasca ac---
D_pseudoobscura_1 ac---
D. miranda ac---
B D D. persimilis ac---
D. pseudoobscura ac---
D_subobscura ac---
D_obscura ac---
D. albomicans at---
D. willistoni a----
Ceratitis_capitata at---
A_christyi ac---
A_quadriannulatus acctg
A_merus ac---
D_busckii -----
D. grimshawi =====
D_nasuta =====
Proctacanthus_coquilletti =====
Belgica_antarctica =====
Lutzomyia_longipalpis =====
Sarcophagidae_BV_2014 =====
A_farauti =====
Phlebotomus_papatasi =====
Stomoxys_calcitrans =====
Bactrocera_oleae =====
Culex_quinquefasciatus =====
Glossina_morsitans_2 =====
Phortica_variegata =====
Lucilia_cuprina =====
Glossina_brevipalpis =====
Bactrocera_latifrons =====
Bactrocera_dorsalis =====
Zeugodacus_cucurbitae =====
M. domestica =====
D_hydei -----
Teleopsis_dalmanni =====
Zaprionus_indianus =====
Scaptodrosophila_lebanonensis =====
T. castaneum =====
Paykullia_maculata =====
Alignment block 11 of 252 in window, 12083265 - 12083296, 32 bps
B D D. melanogaster c----------tgctcc------tgctcc----------------tgga------------------gga
D D. simulans c----------tgctcc------tgctcc----------------tgga------------------gga
B D D. sechellia c----------tgcccc------tgctcc----------------tgga------------------gga
D. erecta c----------tgctcc------tgctcg----------------cgga------------------gga
D. yakuba c----------tgctcc------tgctcc----------------tgga------------------gga
D. ficusphila c----------tgctcc------tgatcc----------------tgga------------------gga
D. eugracilis c----------tgctcc------tgctcc----------------tgga------------------gga
D. biarmipes c----------tgctcc----------------------------tgga------------------ggt
D. suzukii c----------tgctcc----------------------------tgga------------------ggt
D. takahashii c----------tgctcc----------------------------tgga------------------ggt
D. elegans c----------tgctcc------tgctcc-tgctcctgcttcttttgga------------------gga
D. rhopaloa c----------tgctcc------tgctcc----------------tgga------------------gga
D_serrata c----------tgctcctattcctgctcc----------------tggc------------------gga
D. kikkawai c----------tgctcctattcctgctcc----------------tggc------------------gga
D. ananassae c----------tgctcc------tg--------------------ctgg------------------gga
D. bipectinata c----------tgctcc------tg--------------------ctgc------------------gga
D_americana c----------tgctcc------cgcttc----------------cgct---------------------
D_novamexicana c----------tgctcc------cgcttc----------------cgtt---------------------
D. virilis c----------tgctcc------cgcttc----------------cgct---------------------
D_montana c----------tgctcc------cgcttc----------------cgct---------------------
D_arizonae c----------ttctcc------tccctc----------------agattggcagatgctcct-------
D. mojavensis c----------ttctcc------tccctc----------------agct--gcagatgcccct-------
D_navojoa c----------tgctcc------tccctc----------------agct--gcaggtgctccc-------
D_hydei c----------tgcgcc------gctgtc----------------agct---------------------
D_busckii ---------------------------------------------tggt--ggaga--------------
D_athabasca c----------tgctcc------cgatcc----------------tccc---------gtcct-------
D_pseudoobscura_1 c----------tgctcc------cgatcc----------------tata---------ctcctgcga---
D. miranda c----------tgctcc------cgatcc----------------tata---------ctcctgcga---
B D D. persimilis c----------tgctcc------cgatcc----------------tatc---------ctcctgcaa---
D. pseudoobscura c----------tgctcc------cgatcc----------------tata---------ctcctgcga---
D_subobscura c----------tgcaac------cgatcc----------------aaaa---------ctcc--------
D_obscura c----------tgctcc------cgatcc----------------t-------------ccctgc-----
D. albomicans tagagaggtgatattcc------ggcgct-----------------------------------------
Ceratitis_capitata c----------tacagt------tgtttcgtgatggaataa----ta-----------------------
A_christyi c----------tgatgc------tgctgt----------------tgtt------------------gat
A_quadriannulatus c----------tgctgc------tgctgc----------------tgtt------------------gat
A_merus c----------tgctgc------tgctgc----------------tgtt------------------gat
A_cracens c----------tgctgc------tgctgc----------------tgtt------------------gat
A_dirus c----------tgctgc------tgctgc----------------tgtt------------------ggt
D. willistoni ----------------------------------------------------------------------
D. grimshawi ======================================================================
D_nasuta ======================================================================
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
Sarcophagidae_BV_2014 ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Stomoxys_calcitrans ======================================================================
Bactrocera_oleae ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_morsitans_2 ======================================================================
Phortica_variegata ======================================================================
Lucilia_cuprina ======================================================================
Glossina_brevipalpis ======================================================================
Bactrocera_latifrons ======================================================================
Bactrocera_dorsalis ======================================================================
Zeugodacus_cucurbitae ======================================================================
M. domestica ======================================================================
Teleopsis_dalmanni ======================================================================
Zaprionus_indianus ======================================================================
Scaptodrosophila_lebanonensis ======================================================================
T. castaneum ======================================================================
Paykullia_maculata ======================================================================
D. melanogaster gtaggtggt---------gga
D. simulans gtaggtggt---------gga
D. sechellia gtaggtggt---------gga
D. erecta ggaggtgca---------gga
D. yakuba ggaggtgga---------gga
D. ficusphila ggaggtgga---------gga
D. eugracilis gtatgtgga---------gga
D. biarmipes ggag---------------ga
D. suzukii ggag---------------ga
D. takahashii ggag---------------ga
D. elegans ggaggtg------------ga
D. rhopaloa ggaggtggt----------gg
D_serrata gtaggtggaggcggagacgga
D. kikkawai gtaggcggaggcggagacgga
D. ananassae ggaggtgga---------ggc
D. bipectinata gtaggtgga---------ggt
D_americana ---------------------
D_novamexicana ---------------------
D. virilis ---------------------
D_montana ---------------------
D_arizonae ---------------------
D. mojavensis ---------------------
D_navojoa ---------------------
D_hydei ---------------------
D_busckii ---------------------
D_athabasca ---------------------
D_pseudoobscura_1 ---------------------
D. miranda ---------------------
D. persimilis ---------------------
D. pseudoobscura ---------------------
D_subobscura ---------------------
D_obscura ---------------------
D. albomicans ---------------------
Ceratitis_capitata ---------------------
A_christyi ggagatgatgat---------
A_quadriannulatus ggtgatggtgct---------
A_merus ggtgatggtgct---------
A_cracens gttggtgatgg----------
A_dirus gttggtgatgg----------
D. willistoni ---------------------
D. grimshawi =====================
D_nasuta =====================
Proctacanthus_coquilletti =====================
Belgica_antarctica =====================
Lutzomyia_longipalpis =====================
Sarcophagidae_BV_2014 =====================
A_farauti =====================
Phlebotomus_papatasi =====================
Stomoxys_calcitrans =====================
Bactrocera_oleae =====================
Culex_quinquefasciatus =====================
Glossina_morsitans_2 =====================
Phortica_variegata =====================
Lucilia_cuprina =====================
Glossina_brevipalpis =====================
Bactrocera_latifrons =====================
Bactrocera_dorsalis =====================
Zeugodacus_cucurbitae =====================
M. domestica =====================
Teleopsis_dalmanni =====================
Zaprionus_indianus =====================
Scaptodrosophila_lebanonensis =====================
T. castaneum =====================
Paykullia_maculata =====================
Inserts between block 11 and 12 in window
D_americana 4bp
D_novamexicana 4bp
D. virilis 4bp
D_montana 4bp
D_arizonae 6bp
D. mojavensis 6bp
D_navojoa 6bp
D_hydei 12bp
D_busckii 15bp
D_athabasca 10bp
D_pseudoobscura_1 13bp
D. miranda 13bp
B D D. persimilis 13bp
D. pseudoobscura 13bp
D_subobscura 6bp
D_obscura 10bp
D. albomicans 1bp
A_quadriannulatus 5bp
A_merus 5bp
Alignment block 12 of 252 in window, 12083297 - 12083301, 5 bps
B D D. melanogaster tccgt
D D. simulans tccgt
B D D. sechellia tccgt
D. erecta tccga
D. yakuba tccgt
D. ficusphila tctga
D. eugracilis tcctt
D. biarmipes tcc-t
D. suzukii tcc-t
D. takahashii tc---
D. elegans ata-t
D. rhopaloa tgg-t
D_serrata gatgg
D. kikkawai gac-g
D. ananassae ----g
D. bipectinata ----g
Ceratitis_capitata ----t
Ephydra_gracilis ----t
A_christyi ---gc
A_quadriannulatus t----
A_merus t----
A_cracens tgcgt
A_dirus tgcgt
D. willistoni -----
D_busckii =====
D. grimshawi =====
D. miranda =====
D_athabasca =====
D. pseudoobscura =====
D_navojoa =====
D_arizonae =====
D. mojavensis =====
D. virilis =====
D_novamexicana =====
D. albomicans =====
D_nasuta =====
Proctacanthus_coquilletti =====
Belgica_antarctica =====
Lutzomyia_longipalpis =====
Sarcophagidae_BV_2014 =====
A_farauti =====
Phlebotomus_papatasi =====
Stomoxys_calcitrans =====
Bactrocera_oleae =====
Culex_quinquefasciatus =====
Glossina_morsitans_2 =====
Phortica_variegata =====
Lucilia_cuprina =====
Glossina_brevipalpis =====
Bactrocera_latifrons =====
Bactrocera_dorsalis =====
Zeugodacus_cucurbitae =====
D_americana =====
M. domestica =====
D_pseudoobscura_1 =====
D_obscura =====
D_subobscura =====
D_hydei =====
B D D. persimilis =====
Teleopsis_dalmanni =====
Zaprionus_indianus =====
Scaptodrosophila_lebanonensis =====
T. castaneum =====
Paykullia_maculata =====
D_montana =====
Inserts between block 12 and 13 in window
D. yakuba 4bp
Ceratitis_capitata 2bp
Ephydra_gracilis 9bp
A_christyi 3bp
A_quadriannulatus 2bp
A_merus 2bp
Alignment block 13 of 252 in window, 12083302 - 12083310, 9 bps
B D D. melanogaster gtcc---ctttg
D D. simulans gtct---cttcg
B D D. sechellia gtct---cttcg
D. erecta gttt---ctccg
D. yakuba ggat---ctccg
D. ficusphila ctcctgatcccg
D. eugracilis tttg---tttt-
D. biarmipes tgct---cttga
D. suzukii tgcg---cttgg
D. takahashii -------cttgg
D. elegans ggat---atcct
D. rhopaloa ggag---gatcc
D_serrata aagg---atccc
D. kikkawai aagg---atccc
D. ananassae ggag---atccc
D. bipectinata gggg---atccc
Ceratitis_capitata --------tccc
Cirrula_hians -------gtgcg
Ephydra_gracilis -------tctcg
A_christyi ------ggtt--
A_quadriannulatus gccg---ttgcc
A_merus gccg---ttgcc
A_cracens ------gctggg
A_dirus ------gctggg
D. willistoni ------------
D_busckii ============
D. grimshawi ============
D. miranda ============
D_athabasca ============
D. pseudoobscura ============
D_navojoa ============
D_arizonae ============
D. mojavensis ============
D. virilis ============
D_novamexicana ============
D. albomicans ============
D_nasuta ============
Proctacanthus_coquilletti ============
Belgica_antarctica ============
Lutzomyia_longipalpis ============
Sarcophagidae_BV_2014 ============
A_farauti ============
Phlebotomus_papatasi ============
Stomoxys_calcitrans ============
Bactrocera_oleae ============
Culex_quinquefasciatus ============
Glossina_morsitans_2 ============
Phortica_variegata ============
Lucilia_cuprina ============
Glossina_brevipalpis ============
Bactrocera_latifrons ============
Bactrocera_dorsalis ============
Zeugodacus_cucurbitae ============
D_americana ============
M. domestica ============
D_pseudoobscura_1 ============
D_obscura ============
D_subobscura ============
D_hydei ============
B D D. persimilis ============
Teleopsis_dalmanni ============
Zaprionus_indianus ============
Scaptodrosophila_lebanonensis ============
T. castaneum ============
Paykullia_maculata ============
D_montana ============
Inserts between block 13 and 14 in window
Ceratitis_capitata 4bp
Cirrula_hians 4bp
Ephydra_gracilis 4bp
A_quadriannulatus 3bp
A_merus 3bp
Alignment block 14 of 252 in window, 12083311 - 12083311, 1 bps
B D D. melanogaster a
D D. simulans a
B D D. sechellia a
D. erecta a
D. yakuba a
D. ficusphila a
D. biarmipes t
D. suzukii t
D. takahashii c
D. elegans a
D. rhopaloa g
D_serrata c
D. kikkawai c
D. ananassae t
D. bipectinata t
Glossina_morsitans_1 a
Glossina_morsitans_2 a
Themira_minor a
A_christyi g
A_cracens a
A_dirus c
D. willistoni -
D_busckii =
D. grimshawi =
D. miranda =
D_athabasca =
D. pseudoobscura =
D_navojoa =
D_arizonae =
D. mojavensis =
D. virilis =
D_novamexicana =
D. albomicans =
D_nasuta =
A_merus =
A_quadriannulatus =
Proctacanthus_coquilletti =
Belgica_antarctica =
Lutzomyia_longipalpis =
Sarcophagidae_BV_2014 =
A_farauti =
Phlebotomus_papatasi =
Stomoxys_calcitrans =
Bactrocera_oleae =
Culex_quinquefasciatus =
Phortica_variegata =
Ceratitis_capitata =
Cirrula_hians =
Lucilia_cuprina =
Glossina_brevipalpis =
Bactrocera_latifrons =
Bactrocera_dorsalis =
Zeugodacus_cucurbitae =
D_americana =
M. domestica =
D. eugracilis -
D_pseudoobscura_1 =
D_obscura =
D_subobscura =
D_hydei =
B D D. persimilis =
Teleopsis_dalmanni =
Zaprionus_indianus =
Scaptodrosophila_lebanonensis =
T. castaneum =
Ephydra_gracilis =
Paykullia_maculata =
D_montana =
Alignment block 15 of 252 in window, 12083312 - 12083312, 1 bps
B D D. melanogaster -t
D D. simulans -t
B D D. sechellia -t
D. erecta -t
D. yakuba -t
D. ficusphila -t
D. eugracilis -t
D. biarmipes -g
D. suzukii -g
D. takahashii -g
D. elegans -t
D. rhopaloa -t
D_serrata -t
D. kikkawai -t
D. ananassae -c
D. bipectinata -c
D_americana -c
D_novamexicana -c
D. virilis -c
D_montana -c
D_arizonae -t
D. mojavensis -t
D_navojoa -t
D_athabasca -t
D_pseudoobscura_1 -t
D. miranda -t
B D D. persimilis -t
D. pseudoobscura -t
D_subobscura -c
D_obscura -t
Zaprionus_indianus -t
Scaptodrosophila_lebanonensis -t
D. willistoni -c
Ceratitis_capitata -a
Cirrula_hians -t
Ephydra_gracilis -t
Glossina_austeni -t
Glossina_morsitans_1 -t
Glossina_morsitans_2 -t
Glossina_pallidipes -t
Glossina_fuscipes -t
Glossina_palpalis_gambiensis -t
Glossina_brevipalpis -t
Phormia_regina -t
Teleopsis_dalmanni -t
Haematobia_irritans -t
M. domestica -t
Themira_minor -t
A_christyi -c
A_quadriannulatus -t
A_merus -t
A_cracens a-
A_dirus a-
D_busckii ==
D. grimshawi ==
D. albomicans ==
D_nasuta ==
Proctacanthus_coquilletti ==
Belgica_antarctica ==
Lutzomyia_longipalpis ==
Sarcophagidae_BV_2014 ==
A_farauti ==
Phlebotomus_papatasi ==
Stomoxys_calcitrans ==
Bactrocera_oleae ==
Culex_quinquefasciatus ==
Phortica_variegata ==
Lucilia_cuprina ==
Bactrocera_latifrons ==
Bactrocera_dorsalis ==
Zeugodacus_cucurbitae ==
D_hydei ==
T. castaneum ==
Paykullia_maculata ==
Inserts between block 15 and 16 in window
D. ficusphila 11bp
A_quadriannulatus 1bp
A_merus 1bp
Alignment block 16 of 252 in window, 12083313 - 12083314, 2 bps
B D D. melanogaster -tc
D D. simulans -tc
B D D. sechellia -tc
D. erecta -tc
D. yakuba -tc
D. ficusphila -tt
D. eugracilis -tt
D. biarmipes -tt
D. suzukii -tc
D. takahashii -ct
D. elegans -tt
D. rhopaloa -tt
D_serrata -ct
D. kikkawai -ct
D. ananassae -ct
D. bipectinata -ct
D_americana -tc
D_novamexicana -tc
D. virilis -tc
D_montana -tc
D_arizonae -tt
D. mojavensis -tt
D_navojoa -tt
D_athabasca -cc
D_pseudoobscura_1 -tc
D. miranda -tt
B D D. persimilis -tc
D. pseudoobscura -tc
D_subobscura -cc
D_obscura -cc
Zaprionus_indianus -ct
D_nasuta -tc
D. albomicans -tc
Scaptodrosophila_lebanonensis -ct
D. willistoni -cc
Stomoxys_calcitrans -tt
Ceratitis_capitata -tc
Cirrula_hians -tg
Ephydra_gracilis -tc
Glossina_austeni -tt
Glossina_morsitans_1 -tt
Glossina_morsitans_2 -tt
Glossina_pallidipes -tt
Glossina_fuscipes -tt
Glossina_palpalis_gambiensis -tt
Glossina_brevipalpis -tg
Calliphora_vicina -tt
Lucilia_cuprina -tt
Phormia_regina -tt
Teleopsis_dalmanni -tc
Haematobia_irritans -tt
M. domestica -tt
Themira_minor -cc
A_christyi --t
A_quadriannulatus -c-
A_merus -c-
A_cracens gc-
A_dirus gc-
D_busckii ===
D. grimshawi ===
Proctacanthus_coquilletti ===
Belgica_antarctica ===
Lutzomyia_longipalpis ===
Sarcophagidae_BV_2014 ===
A_farauti ===
Phlebotomus_papatasi ===
Bactrocera_oleae ===
Culex_quinquefasciatus ===
Phortica_variegata ===
Bactrocera_latifrons ===
Bactrocera_dorsalis ===
Zeugodacus_cucurbitae ===
D_hydei ===
T. castaneum ===
Paykullia_maculata ===
Inserts between block 16 and 17 in window
D_americana 35bp
D_novamexicana 41bp
D. virilis 41bp
D_montana 35bp
D_arizonae 50bp
D. mojavensis 50bp
D_navojoa 24bp
Ceratitis_capitata 1bp
Cirrula_hians 1bp
Ephydra_gracilis 1bp
A_christyi 1bp
Alignment block 17 of 252 in window, 12083315 - 12083315, 1 bps
B D D. melanogaster t
D D. simulans t
B D D. sechellia t
D. erecta t
D. yakuba t
D. ficusphila c
D. eugracilis t
D. biarmipes c
D. suzukii t
D. takahashii t
D. elegans t
D. rhopaloa c
D_serrata c
D. kikkawai c
D. ananassae c
D. bipectinata c
D_americana c
D_novamexicana c
D. virilis c
D_montana c
D_arizonae c
D. mojavensis c
D_navojoa c
D_hydei c
D_busckii c
D. grimshawi t
D_athabasca t
D_pseudoobscura_1 t
D. miranda t
B D D. persimilis t
D. pseudoobscura t
D_subobscura t
D_obscura t
Zaprionus_indianus t
D_nasuta t
D. albomicans t
Scaptodrosophila_lebanonensis t
D. willistoni t
Tephritis_californica t
Stomoxys_calcitrans t
Bactrocera_dorsalis t
Bactrocera_latifrons t
Bactrocera_tryoni t
Bactrocera_oleae t
Zeugodacus_cucurbitae t
Ceratitis_capitata t
Cirrula_hians t
Ephydra_gracilis t
Glossina_austeni t
Glossina_morsitans_1 t
Glossina_morsitans_2 t
Glossina_pallidipes t
Glossina_fuscipes t
Glossina_palpalis_gambiensis t
Glossina_brevipalpis t
Calliphora_vicina t
Lucilia_cuprina t
Lucilia_sericata t
Phormia_regina t
Paykullia_maculata t
Teleopsis_dalmanni t
Haematobia_irritans c
M. domestica c
Rhagoletis_zephyria t
Themira_minor t
A_christyi t
A_quadriannulatus t
A_merus t
A_cracens t
A_dirus t
Proctacanthus_coquilletti =
Belgica_antarctica =
Lutzomyia_longipalpis =
Sarcophagidae_BV_2014 =
A_farauti =
Phlebotomus_papatasi =
Culex_quinquefasciatus =
Phortica_variegata =
T. castaneum =
Alignment block 18 of 252 in window, 12083316 - 12083326, 11 bps
B D D. melanogaster agtaccatgag
D D. simulans agtaccaggag
B D D. sechellia agtaccaggag
D. erecta agtacc---ag
D. yakuba agtaccaggtg
D. ficusphila agtaccaggag
D. eugracilis agtaccaggaa
D. biarmipes agtaccaggag
D. suzukii agtaccaggag
D. takahashii agtaccaggag
D. elegans agtaccaggaa
D. rhopaloa agtaccaggag
D_serrata agtaccaggag
D. kikkawai agtaccaggag
D. ananassae agtaccaggag
D. bipectinata agtaccaggag
D_americana agtaccaggtg
D_novamexicana agtaccaggtg
D. virilis agtaccaggtg
D_montana agtaccaggtg
D_arizonae agtaccagga-
D. mojavensis agtaccagga-
D_navojoa agtaccagga-
D_hydei agtaccagga-
D_busckii agtaccaggag
D. grimshawi agtaccaggag
D_athabasca agtaccaggag
D_pseudoobscura_1 aataccaggag
D. miranda aataccaggag
B D D. persimilis aataccaggag
D. pseudoobscura aataccaggag
D_subobscura agtaccacgag
D_obscura agtaccaggag
Zaprionus_indianus agtaccaggag
D_nasuta agtaccaggag
D. albomicans agtaccaggag
Scaptodrosophila_lebanonensis agtaccaggcg
Phortica_variegata agtaccacgaa
D. willistoni agtaccaggag
Eutreta_diana agtaccaggaa
Tephritis_californica agtaccaggaa
Stomoxys_calcitrans aataccatgat
Bactrocera_dorsalis agtaccaggaa
Bactrocera_latifrons agtaccaggaa
Bactrocera_tryoni agtaccaggaa
Bactrocera_oleae agtaccaggaa
Zeugodacus_cucurbitae agtaccaggaa
Ceratitis_capitata agtaccaagaa
Cirrula_hians agtaccacgaa
Ephydra_gracilis aataccacgag
Glossina_austeni aataccacggt
Glossina_morsitans_1 agtaccacggt
Glossina_morsitans_2 agtaccacggt
Glossina_pallidipes aataccacggt
Glossina_fuscipes aataccacggt
Glossina_palpalis_gambiensis aataccacggt
Glossina_brevipalpis attaccaggac
Calliphora_vicina aataccaagga
Lucilia_cuprina aataccaggga
Lucilia_sericata aataccaggga
Phormia_regina aataccaagga
Paykullia_maculata aataccaagtg
Teleopsis_dalmanni aataccaggaa
Haematobia_irritans aataccatgtg
M. domestica aataccaggtg
Rhagoletis_zephyria agtaccaggaa
Themira_minor agtaccaggag
A_christyi agcagcgtaat
A_quadriannulatus gatggtgtgtg
A_merus gatggtgtgtg
A_cracens ---gct-----
A_dirus ---gct-----
Proctacanthus_coquilletti ===========
Belgica_antarctica ===========
Lutzomyia_longipalpis ===========
Sarcophagidae_BV_2014 ===========
A_farauti ===========
Phlebotomus_papatasi ===========
Culex_quinquefasciatus ===========
T. castaneum ===========
Inserts between block 18 and 19 in window
D_serrata 3bp
D. kikkawai 3bp
Alignment block 19 of 252 in window, 12083327 - 12083344, 18 bps
B D D. melanogaster gg---atagaacggctgtggc
D D. simulans gg---atagaacggctgtggc
B D D. sechellia gg---atagaacggctgtggc
D. erecta tg---gtagaacggctgtggc
D. yakuba gg---gtagaacggctgtggc
D. ficusphila tg---gtagaatggctgcggc
D. eugracilis tg---atagaatggctgtggc
D. biarmipes tg---gtagaacggctgtggc
D. suzukii tg---gtagaacggctgtggc
D. takahashii tg---atagaacggctgcggc
D. elegans tg---atagaacggctgtggc
D. rhopaloa tg---atagaacggctgtggc
D_serrata tg---atagaacggctgtggc
D. kikkawai tg---atagaacggctgtggc
D. ananassae tg---gtagaacggctgcggc
D. bipectinata tg---gtagaacggctgcggc
D_americana gg---atagaacggctgcggc
D_novamexicana gg---atagaacggctgcggc
D. virilis gg---atagaacggctgcggc
D_montana gg---atagaacgtctgcggc
D_arizonae -----gtagaacggctggggc
D. mojavensis -----gtagaacggctgtggc
D_navojoa -----gtagaacggctgcggc
D_hydei -----gtagaacggctgcggc
D_busckii tg---gtagaacggctggggc
D. grimshawi tg---atagaatggctgaggc
D_athabasca tgatggtagaacggctgcggg
D_pseudoobscura_1 tggtgatagaacggctgcggg
D. miranda tggtgatagaacggctgcggg
B D D. persimilis tggtgatagaacggctgcgga
D. pseudoobscura tggtgatagaacggctgcggg
D_subobscura tgatggtagaacggctgtggg
D_obscura tgatggtagaacggctgtggg
Zaprionus_indianus tgataggggaacgcttggggc
D_nasuta tg---atagaacggctgtggc
D. albomicans tg---atagaacggctgtggc
Scaptodrosophila_lebanonensis tg---atagaacgactgaggc
Phortica_variegata tg---ataaaaaggctggggt
D. willistoni tg---atagaacggttgtggc
Eutreta_diana tg---atagaatggctgcggc
Tephritis_californica tg---atagaatggctgc---
Stomoxys_calcitrans gg---atagaaatgttga---
Bactrocera_dorsalis tg---atagaatggctgt---
Bactrocera_latifrons tg---atagaatggctgt---
Bactrocera_tryoni tg---atagaatggctgt---
Bactrocera_oleae tg---atagaatggctgt---
Zeugodacus_cucurbitae gg---atagaagggctgt---
Ceratitis_capitata gg---atagaagggctgc---
Cirrula_hians tg---atagaatggctgt---
Ephydra_gracilis tg---atagaatggctgt---
Glossina_austeni ga---ggaaaatgtagga---
Glossina_morsitans_1 ga---ggaaaatgtagga---
Glossina_morsitans_2 ga---ggaaaatgtagga---
Glossina_pallidipes ga---ggaaaatgtagga---
Glossina_fuscipes ga---ggaaaatgtagga---
Glossina_palpalis_gambiensis ga---ggaaaatgtagga---
Glossina_brevipalpis ga---agaaaatggtgga---
Calliphora_vicina gg---atagaaatgttgg---
Lucilia_cuprina gg---atagaagtgctgt---
Lucilia_sericata gg---atagaaatgttgg---
Phormia_regina gg---atagaagtgttga---
Sarcophagidae_BV_2014 gg---ctgaagaggctg----
Paykullia_maculata gg---atagaaatgttgg---
Teleopsis_dalmanni gg---ataaaatgactga---
Haematobia_irritans gg---gtagaaatgttga---
M. domestica gg---gtagaaatgttga---
Rhagoletis_zephyria tg---atagaatggctgtggc
Themira_minor tg---atagaagggctgtgg-
A_christyi cg---gttgatcggtggtggt
A_quadriannulatus ---------gacggttgctga
A_merus ---------gacggctgctga
A_cracens -g---atggtggggctgcagc
A_dirus -g---atggtggggctgcagc
Proctacanthus_coquilletti =====================
Belgica_antarctica =====================
Lutzomyia_longipalpis =====================
A_farauti =====================
Phlebotomus_papatasi =====================
Culex_quinquefasciatus =====================
T. castaneum =====================
Inserts between block 19 and 20 in window
Eutreta_diana 371bp
A_christyi 9bp
Alignment block 20 of 252 in window, 12083345 - 12083373, 29 bps
B D D. melanogaster ggcatcgttgtgta------gttgaccttcga----ggg
D D. simulans ggcatcgttgtgta------gttgaccttcga----ggg
B D D. sechellia ggcatcgttgtgta------gttgaccttcga----ggg
D. erecta ggcatcgttgtgta------gttgaccttcga----ggg
D. yakuba ggcatcgttgtgta------gttgaccttcga----ggg
D. ficusphila ggcatcgttgggta------gttgaccttcga----ggg
D. eugracilis ggcatcgttgtgta------gttgaccttcga----ggg
D. biarmipes ggcatcgttgtgta------gttcaccttcga----ggg
D. suzukii ggcatcgttgtgta------gttcaccttcga----ggg
D. takahashii ggcatcgttgcata------gttgaccttcga----ggg
D. elegans ggcatcgtcgagta------gttgaccttcga----ggg
D. rhopaloa ggcatcgttgtgta------gttgaccttcga----ggg
D_serrata ggcattgctgtgta------gttgaccttcga----ggg
D. kikkawai ggcatcgttgtgta------gttgaccttcga----ggg
D. ananassae ggcatcgctgtgta------gttaaccttcga----ggg
D. bipectinata ggcatcgctgtgta------gttgaccttcga----ggg
D_americana ggcatcgttgaata------gttcatcttgct----ggg
D_novamexicana ggcatcgttgaata------gttcatcttgct----ggg
D. virilis ggcatcgttgaata------gttcatcttgct----ggg
D_montana ggcatcgctgaata------gttcatcttgct----ggg
D_arizonae ggcatcgttgaata------gttcatcttgct----ggg
D. mojavensis ggcatcgttgaata------gttcatcttgct----ggg
D_navojoa ggcatcgttgaata------gttcatcttgct----ggg
D_hydei ggcatcgttgaata------gttcatcttgct----ggg
D_busckii ggcatggcagcata------gttgacctttga----ggg
D. grimshawi ggcatagtgccata------gttcatcttgga----ggg
D_athabasca ggcattgtcgagta------gttgaccttcga----ggg
D_pseudoobscura_1 ggcatcgtcgcgta------gttgaccttcga----ggg
D. miranda ggcatcgtcgcgta------gttgaccttcga----ggg
B D D. persimilis ggcatcgtcgcgta------gttgaccttcga----ggg
D. pseudoobscura ggcatcgtcgcgta------gttgaccttcga----ggg
D_subobscura ggcatcgtcgggta------gttgaccttcga----ggg
D_obscura ggcatcgtcgtgta------gttgaccttcga----ggg
Zaprionus_indianus ggcatggcgctgta------gttcatcttgga----ggg
D_nasuta ggcatcgctgtgta------attcatcttcga----ggg
D. albomicans ggcatcgctgtgta------attcatcttcga----ggg
Scaptodrosophila_lebanonensis ggcattgtcggatagtttacgttgaccttaga----ggg
Phortica_variegata ggcatcgcactgta------gttgacctttga----ggg
D. willistoni ggcattgtcgtgta------gttgactttcga----agg
Tephritis_californica ggcacagtaggata------atttatcttcga----agg
Stomoxys_calcitrans ggcactgcagcata------attaactttaga----agg
Bactrocera_dorsalis ggcaccgtgggata------attcattttcga----tga
Bactrocera_latifrons ggcactgtgggata------attcattttcga----tga
Bactrocera_tryoni ggcactgtgggata------attcattttcgg----tga
Bactrocera_oleae ggcactgtgggata------attcattttcgg----tga
Zeugodacus_cucurbitae ggcactgtaggata------attgattttcgg----tga
Ceratitis_capitata ggcactgtgggata------attcattttcga----tgg
Cirrula_hians ggcaatgcaccata------gttca-tttcgg----tgg
Ephydra_gracilis ggcaatgcaccgta------gttca-tttcgg----tag
Glossina_austeni gggacgcccgcgta------attaactttgga----agg
Glossina_morsitans_1 gggacgcccgcgta------attaactttgga----agg
Glossina_morsitans_2 gggacgcccgcgta------attaactttgga----agg
Glossina_pallidipes gggacgcccgcgta------attaactttgga----agg
Glossina_fuscipes gggacgcccgcgta------attaactttgga----agg
Glossina_palpalis_gambiensis gggacgcccgcgta------attaactttgga----agg
Glossina_brevipalpis ggaacactagtata------atcaaatttaga----aga
Calliphora_vicina gaaaccccagcata------gttgactttgga----ggg
Lucilia_cuprina gaaactccagcata------gttgactttcga----ggg
Lucilia_sericata gaaactccagcata------gttgactttcga----ggg
Phormia_regina gaaacgccagcata------gttgacttttga----ggg
Sarcophagidae_BV_2014 ----cagcagcatg------at--------------ggg
Paykullia_maculata gaaactcctgcgta------gttcactttaga----agg
Teleopsis_dalmanni gggactccatgata------attgacttttga----tgg
Haematobia_irritans ggtactgcagcata------attgacttttga----ggg
M. domestica ggaacaccggcata------gttcattttcga----tgg
Rhagoletis_zephyria ---acagccggata------gttcatctttgg----tgg
Themira_minor --aacgccggcata------attgactttgcc----cgc
A_christyi cgaagcgctcagca------atgtttgatcga----ggt
A_quadriannulatus agcagcgtaat-cg------gttgatcgttggcgcccgg
A_merus agcagcgtgat-cg------gttgatcgttggcgcctgg
A_cracens agcgt----gagcg------gttga--tcggg----gga
A_dirus agcgt----gatcg------gttga--tcggg----gga
Proctacanthus_coquilletti =======================================
Belgica_antarctica =======================================
Lutzomyia_longipalpis =======================================
A_farauti =======================================
Phlebotomus_papatasi =======================================
Eutreta_diana =======================================
Culex_quinquefasciatus =======================================
T. castaneum =======================================
Alignment block 21 of 252 in window, 12083374 - 12083391, 18 bps
B D D. melanogaster cga---aggaaa------------------g-------------gcggc---ggc
D D. simulans cga---aggaaa------------------g-------------gcggc---ggc
B D D. sechellia cga---aggaaa------------------g-------------gcggc---ggc
D. erecta cga---aggaaa------------------g-------------gcggc---ggc
D. yakuba cga---aggaaa------------------g-------------gcggc---ggc
D. ficusphila cga---gggaaa------------------g-------------gcggc---ggc
D. eugracilis cga---tggaaa------------------g-------------gcggc---ggc
D. biarmipes cga---cgggaa------------------g-------------gcggc---ggc
D. suzukii cga---tggaaa------------------g-------------gcggc---ggc
D. takahashii cga---tggaaa------------------g-------------gcggc---ggc
D. elegans cga---tgggaa------------------g-------------gcggc---ggc
D. rhopaloa cga---tgagaa------------------g-------------gcggc---ggc
D_serrata cga---cgagaa------------------g-------------gcggc---ggc
D. kikkawai cga---cgagaa------------------g-------------gcggc---ggc
D. ananassae cga---cgaaaa------------------g-------------gcggc---tgc
D. bipectinata cga---cgaaaa------------------g-------------gcggc---agc
D_americana cga---ggagaaggcggcagcagct---gcc-------------gcggc---cgc
D_novamexicana cga---ggagaaggcggcagcagct---gcc-------------gcggc---cgc
D. virilis cga---ggagaaggcggcagcagct---gcc-------------gcggc---cgc
D_montana cga---ggagaaggcggcagcagct---gcc-------------gcggc---cgc
D_arizonae cga---ggagaaggcagcagcagct---gcg-------------gcggc---cgc
D. mojavensis cga---ggagaaggcagcagcagct---gcg-------------gcggc---cgc
D_navojoa cga---ggagaaggcggcagcagct---gcg-------------gcggc---cgc
D_hydei cga---ggagaaggcagcagctgcg---gcg-------------gcggc---tgc
D_busckii cga---tggaaa------------------g-------------gcggc---cgc
D. grimshawi tga---ggagaaggcagcagcagccgcggcg-------------gcggc---agc
D_athabasca cga---tgagaa------------------g-------------gcggc---ggc
D_pseudoobscura_1 cga---tgcgaa------------------g-------------gcggc---ggc
D. miranda cga---tgcgaa------------------g-------------gcggc---ggc
B D D. persimilis cga---tgcgaa------------------g-------------gcggc---ggc
D. pseudoobscura cga---tgcgaa------------------g-------------gcggc---ggc
D_subobscura tga---ggaaaa------------------g-------------gcggc---ggc
D_obscura cga---tgagaa------------------g-------------gcggc---ggc
Zaprionus_indianus cga---ggagaaggcagctgcagcagcagcg-------------gcggc---agc
D_nasuta cga---ggagaa------------------a-------------gcggc---ggc
D. albomicans cga---ggagaa------------------a-------------gcggc---ggc
Scaptodrosophila_lebanonensis cga---ggagaaggcagctgc---------g-------------gcggc---ggc
Phortica_variegata cgaaccgttgaaggcagcagcagc------g-------------gcggc---ggc
D. willistoni cga---tgagaa------------------a-------------gcggc---ggc
Tephritis_californica tgt---accaaa------------------a-------------cctgt---act
Stomoxys_calcitrans cga---cccgaa------------------a-------------gcagc---a--
Bactrocera_dorsalis gga---gttaaa------------------a-------------cctgcact---
Bactrocera_latifrons gga---gttaaa------------------a-------------cctgcgct---
Bactrocera_tryoni gga---attaaa------------------a-------------cctgc------
Bactrocera_oleae gga---gttaaa------------------a-------------cctgcact---
Zeugodacus_cucurbitae gga---gttaaa------------------a-------------cctgcact---
Ceratitis_capitata cga---actaaa------------------t-------------cccgcact---
Cirrula_hians cta---atggaa------------------a---------------tgctgt---
Ephydra_gracilis cta---aaggaa------------------a---------------tgctgt---
Glossina_austeni tga---accgaa------------------a-------------cttgc------
Glossina_morsitans_1 tga---accgaa------------------a-------------cttgc------
Glossina_morsitans_2 tga---accgaa------------------a-------------cttgc------
Glossina_pallidipes tga---accgaa------------------a-------------cttgc------
Glossina_fuscipes tga---accgaa------------------a-------------cttgt------
Glossina_palpalis_gambiensis tga---accgaa------------------a-------------cttgt------
Glossina_brevipalpis tga---accgaa------------------a-------------tttgt------
Calliphora_vicina tga---actaaa------------------g-------------gcagc------
Lucilia_cuprina aga---actaaa------------------g-------------gcagc------
Lucilia_sericata aga---actaaa------------------g-------------gcagc------
Phormia_regina aga---actaaa------------------g-------------gcagc------
Sarcophagidae_BV_2014 gaa---attgta------------------attgttgcgttgccatagc------
Paykullia_maculata tga---tgtaaa------------------a-------------gcggc------
Teleopsis_dalmanni cga---gctgaa------------------g----------gctgtgtt------
Haematobia_irritans cga---accaaa------------------a-------------gctgc------
M. domestica tga---actgaa------------------g-------------ctggg------
Rhagoletis_zephyria cga---gctgaa------------------t-------------cctgc---act
Themira_minor tga---cgggaa------------------g-------------gcagt------
A_christyi tga---agaggg------------------a-------------ctcgt---g--
A_quadriannulatus tgg---tccggacgcgctc-----------a-------------gcaac------
A_merus tgg---tccggacgcgctc-----------a-------------gcaac------
A_cracens cgc---accggacgcgctg-----------a-------------gcagc------
A_dirus cgc---accggacgcactg-----------a-------------gcagc------
A_albimanus cga---agtaag------------------g-------------atagc---cag
Proctacanthus_coquilletti =======================================================
Belgica_antarctica =======================================================
Lutzomyia_longipalpis =======================================================
A_farauti =======================================================
Phlebotomus_papatasi =======================================================
Eutreta_diana =======================================================
Culex_quinquefasciatus =======================================================
T. castaneum =======================================================
Inserts between block 21 and 22 in window
D. albomicans 15bp
Scaptodrosophila_lebanonensis 3bp
D. willistoni 6bp
A_quadriannulatus 5bp
A_merus 5bp
A_cracens 5bp
A_dirus 5bp
Alignment block 22 of 252 in window, 12083392 - 12083421, 30 bps
B D D. melanogaster attgaagtt---------ctggggc--atg------------aagtgcgccga
D D. simulans attgaagtt---------ctgcggc--atg------------aagtgcgccga
B D D. sechellia attgaagtt---------ctgcggc--atg------------aagtgcgccga
D. erecta attgaagtt---------ctgcggc--atg------------aagtgcgccga
D. yakuba attgaagtt---------ctgcggc--atg------------aagtgcgccga
D. ficusphila attgaagtt---------ctgcggc--atg------------aagtgcgacga
D. eugracilis attgaagtt---------ttgcggc--atg------------aagtgcgttga
D. biarmipes attgaagtt---------ctgcggc--atg------------aagtgtgccgt
D. suzukii attgaagtt---------ctgcggc--atg------------aagtgtgccga
D. takahashii attgaagtt---------ctgcggc--ata------------aaatgggccga
D. elegans attgaagtt---------ctgcggc--atg------------aagtgcgacga
D. rhopaloa attgaagtt---------ctgcggc--atg------------aagtgcgacga
D_serrata attgaagtt---------ttgcggc--ata------------aagt-------
D. kikkawai attgaagtt---------ctgcggc--atg------------aagt-------
D. ananassae attgaagtt---------ctggggc--atg------------aagtgggtcga
D. bipectinata attgaagtt---------ctggggc--atg------------aagtgggttga
D_americana attgaagtt---------ttgcggc--ata------------aaatgcgccga
D_novamexicana attgaagtt---------ttgcggc--ata------------aaatgagccga
D. virilis attgaagtt---------ttgcggc--ata------------aaatgcgccga
D_montana attgaagtt---------ttgcggc--ata------------aaatgcgccga
D_arizonae attgaagtt---------ctgcggc--ata------------aagtgcgccga
D. mojavensis attgaagtt---------ctgtggc--ata------------aagtgcgccga
D_navojoa attgaagtt---------ctgcggc--ata------------aagtgcgccga
D_hydei attgaagtt---------ttgaggc--ata------------aaatgcgccga
D_busckii attgaagtt---------ttgtggc--atg------------aagtgcgttga
D. grimshawi attgaagtt---------ctgcggc--ata------------aaatgcgacga
D_athabasca attgaagtt---------ctgcggc--atg------------aaatgcgtcga
D_pseudoobscura_1 attgaagtt---------ctgcggc--atg------------aaatgagtcga
D. miranda attgaagtt---------ctgcggc--atg------------aaatgcgtcga
B D D. persimilis attgaagtt---------ctgcggc--atg------------aaatgagtcga
D. pseudoobscura attgaagtt---------ctgcggc--atg------------aaatgagtcga
D_subobscura attgaagtt---------ttgcggc--atg------------aaatgtgtcga
D_obscura attgaagtt---------ctgcgac--atg------------aaatgtgtcga
Zaprionus_indianus attgaagtt---------ctgtggc--ata------------aagtgcgacga
D. albomicans attgaagtt---------ctgcggc--atg------------aagtgcgacga
Scaptodrosophila_lebanonensis attgaagtt---------ttggggc--atg------------aagtgcgttga
Phortica_variegata attgaagtt---------ttgttgc--atg------------aaatgcgccga
D. willistoni attgaaatt---------ttgcggc--atg------------aagtgcgtcgt
Tephritis_californica accaaaatt---------ttgctgc--ata------------aaatgcgacga
Stomoxys_calcitrans ----aaatt---------ttgttgc--ata------------aaatgactgga
Bactrocera_dorsalis gccgaaatt---------ctgttgc--ata------------aagtgagacga
Bactrocera_latifrons accgaaatt---------ctgttgc--ata------------aagtgagatga
Bactrocera_tryoni accgaaatt---------ctgttgc--ata------------aagtgagatga
Bactrocera_oleae accgaaatt---------ctgttgc--ata------------aagtgagacga
Zeugodacus_cucurbitae accgaaatt---------ctgttgc--ata------------aagtgtgatga
Ceratitis_capitata tccgtagct---------ctgctgc--ata------------aagtgtgacgt
Cirrula_hians attgaagtt---------ttgttgc--ata------------aaatgtggcag
Ephydra_gracilis attgaagtt---------ttgttgc--atg------------aaatgtggcag
Glossina_austeni ---gaaatt---------ttgttgc--ata------------aaatgtgctga
Glossina_morsitans_1 ---aaaatt---------ttgttgc--ata------------aaatgtgctga
Glossina_morsitans_2 ---aaaatt---------ttgttgc--ata------------aaatgtgctga
Glossina_pallidipes ---aaaatt---------ttgttgc--ata------------aaatgtgctga
Glossina_fuscipes ---aaaatt---------ttgttgc--ata------------aaatgtgctga
Glossina_palpalis_gambiensis ---aaaatt---------ttgtggc--ata------------aaatgtgctga
Glossina_brevipalpis ---gaagtt---------ttgttgc--ata------------aaatgtgctga
Calliphora_vicina ---aaagtt---------ctgttgc--atg------------aaatgtgagga
Lucilia_cuprina ---aaagtt---------ttgttgc--atg------------aaatgcgagga
Lucilia_sericata ---aaagtt---------ttgttgc--atg------------aaatgcgagga
Phormia_regina ---aaagtt---------ctgttgc--atg------------aaatgagagga
Sarcophagidae_BV_2014 ---aga-tg---------ccgtagccgaag------------aatattgatga
Paykullia_maculata ---aaagtt---------ctgttgc--atg------------aaatgtgacga
Teleopsis_dalmanni ---gtagtt---------ttgcttc--atg------------taatgtgtggc
Haematobia_irritans ---aaaatt---------ttgttgc--ata------------aaatggctaga
M. domestica ---gaagtt---------ttgttgc--atg------------aagtggccaga
Rhagoletis_zephyria tccgaaatt---------ctgctgc--atg------------aagtgggacga
Themira_minor attgaaatt---------ctgttgc--atc------------aaatgggacga
A_christyi cttgaagct---------ctccatc--gcaccgaagtgatccacgtgcaggaa
A_quadriannulatus atcgaggttgaagagggactcgtgc--ttg------------aagctctccat
A_merus atcgaggttgaagagggactcgtgc--ttg------------aagctctccat
A_cracens atcgaggttgaacagcgactcgtgc--ttg------------aagctctccat
A_dirus atcgaggttgaacagcgactcgtgc--ttg------------aagctctccat
A_albimanus atttagcct---------cggcggc--gac------------ggcagcagc--
Proctacanthus_coquilletti =====================================================
Belgica_antarctica =====================================================
Lutzomyia_longipalpis =====================================================
A_farauti =====================================================
Phlebotomus_papatasi =====================================================
Eutreta_diana =====================================================
Culex_quinquefasciatus =====================================================
T. castaneum =====================================================
Inserts between block 22 and 23 in window
D. grimshawi 9bp
Tephritis_californica 15bp
Bactrocera_dorsalis 14bp
Bactrocera_latifrons 14bp
Bactrocera_tryoni 14bp
Bactrocera_oleae 14bp
Zeugodacus_cucurbitae 14bp
Ceratitis_capitata 14bp
Cirrula_hians 5bp
Ephydra_gracilis 5bp
Glossina_austeni 14bp
Glossina_morsitans_1 14bp
Glossina_morsitans_2 14bp
Glossina_pallidipes 14bp
Glossina_fuscipes 14bp
Glossina_palpalis_gambiensis 14bp
Glossina_brevipalpis 14bp
Lucilia_cuprina 43bp
Lucilia_sericata 43bp
Phormia_regina 52bp
Sarcophagidae_BV_2014 50bp
Paykullia_maculata 43bp
Teleopsis_dalmanni 82bp
Haematobia_irritans 7bp
M. domestica 5bp
Alignment block 23 of 252 in window, 12083422 - 12083425, 4 bps
B D D. melanogaster cgaa--
D D. simulans cgaa--
B D D. sechellia cgaa--
D. erecta cgaa--
D. yakuba cgaa--
D. ficusphila cgaa--
D. eugracilis cgaa--
D. biarmipes cgag--
D. suzukii ggaa--
D. takahashii cgta--
D. elegans cgaa--
D. rhopaloa cgaa--
D. ananassae cgaa--
D. bipectinata cgaa--
D_americana cgaa--
D_novamexicana cgaa--
D. virilis cgaa--
D_montana cgaa--
D_arizonae cgaa--
D. mojavensis cgaa--
D_navojoa cgaa--
D_hydei cgaa--
D_busckii cgaa--
D. grimshawi tgaa--
D_athabasca ggag--
D_pseudoobscura_1 agag--
D. miranda agag--
B D D. persimilis agag--
D. pseudoobscura agag--
D_subobscura ggag--
D_obscura ggag--
Zaprionus_indianus ggag--
D. albomicans gctg--
Scaptodrosophila_lebanonensis cgac--
Phortica_variegata cgca--
D. willistoni gggc--
Tephritis_californica cgaa--
Rhagoletis_zephyria gttg--
Themira_minor cgat--
A_coluzzii cgag--
A_quadriannulatus cgca--
A_merus cgca--
B D A. gambiae cgag--
A_cracens cgca--
A_dirus cgca--
A_albimanus --agcc
Proctacanthus_coquilletti ======
Bactrocera_tryoni ======
Belgica_antarctica ======
Lutzomyia_longipalpis ======
Sarcophagidae_BV_2014 ======
A_christyi ------
A_farauti ======
Phlebotomus_papatasi ======
Haematobia_irritans ======
Stomoxys_calcitrans ------
Eutreta_diana ======
Bactrocera_oleae ======
Culex_quinquefasciatus ======
Glossina_pallidipes ======
Glossina_morsitans_2 ======
Glossina_morsitans_1 ======
Glossina_palpalis_gambiensis ======
Ceratitis_capitata ======
Cirrula_hians ======
Lucilia_cuprina ======
Glossina_brevipalpis ======
Bactrocera_latifrons ======
Bactrocera_dorsalis ======
Phormia_regina ======
Lucilia_sericata ======
Zeugodacus_cucurbitae ======
M. domestica ======
D. kikkawai ------
Teleopsis_dalmanni ======
T. castaneum ======
D_serrata ------
Ephydra_gracilis ======
Paykullia_maculata ======
Glossina_fuscipes ======
Glossina_austeni ======
Alignment block 24 of 252 in window, 12083426 - 12083460, 35 bps
B D D. melanogaster ctg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
D D. simulans ctg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
B D D. sechellia ctg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
D. erecta ctg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
D. yakuba ctg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
D. ficusphila gtg---------------------------------ggcggcgga--tagtgcg-gatgtga--------
D. eugracilis gtg---------------------------------ggcgtcgga--taatgcg-gatgggc--------
D. biarmipes ctg---------------------------------ggcggcgga--tagtgcg-gatgggc--------
D. suzukii ctg---------------------------------ggcggcgga--tagtgcg-gatgggt--------
D. takahashii ttg---------------------------------ggcggcgga--tagtgcg-gatgtgc--------
D. elegans gtg---------------------------------ggtggcgga--tagtgcg-gatgtcc--------
D. rhopaloa gtg---------------------------------ggtggcgga--tagtgcg-gatggcc--------
D_serrata -tc---------------------------------tgcggcgga--tagtggg-gatgtcc--------
D. kikkawai -tc---------------------------------tgcggcgga--tagtggg-ggtgacc--------
D. ananassae gtg---------------------------------ggcggcgga--tagtggg-gatgcgc--------
D. bipectinata gtg---------------------------------ggtggtgga--tagtggg-gatgagc--------
D_americana ttg------------------------------------ggcgga--taatgcg-atgttcc--------
D_novamexicana ttg------------------------------------ggcgga--taatgcg-atgttcc--------
D. virilis ttg------------------------------------ggcgga--taatgcg-atgtgcc--------
D_montana ttg------------------------------------ggcgga--taatgcg-acgttcc--------
D_arizonae ttg------------------------------------ggcgga--tagtgtg-gcgttcc--------
D. mojavensis ttg------------------------------------ggcgga--tagtgtg-gcgttcc--------
D_navojoa ttg------------------------------------ggcgga--tagtgtg-gcgttcc--------
D_hydei ttg------------------------------------gccgga--taatgtg-ggcttcc--------
D_busckii ttt------------------------------------gccgca--taatgag-gcgtccc--------
D. grimshawi gca------------------------------------ggcggc--ggaggcg-gaggagg--------
D_athabasca gcg------------------------------------ggcgga--tagtgtg-gatgtcc--------
D_pseudoobscura_1 gtg------------------------------------ggcgga--tagtgag-gatgtcc--------
D. miranda gtg------------------------------------ggcgga--tagtggg-gatgtcc--------
B D D. persimilis gtg------------------------------------ggcgga--tagtgag-gatgtcc--------
D. pseudoobscura gtg------------------------------------ggcgga--tagtgag-gatgtcc--------
D_subobscura ctg------------------------------------ggcgga--tagtggg-gatgtcc--------
D_obscura gtg------------------------------------ggcgga--tagtggg-gatgtcc--------
Zaprionus_indianus ctg------------------------------------tgcgg---tggcgg-----------------
D. albomicans gtg------------------------------------gcagga--taatgcg-gtgtggc--------
Scaptodrosophila_lebanonensis gtc------------------------------------ggcgga--tagtggt-ggggtgc--------
Phortica_variegata ---------------------------------------gttgga--taatgat-gcgaggc--------
D. willistoni gtt------------------------------------ggggca--taatgtg-gatgacc--------
Tephritis_californica ctcatattacccgc------------t---------gccgacgaa-ctatcatg-gaaacccaa-----a
Stomoxys_calcitrans ---------------------------------------gttggc--t----------------------
Bactrocera_dorsalis -----------------------------------------------tggaact-catgtta--------
Bactrocera_latifrons -----------------------------------------------tggaact-catgtta--------
Bactrocera_tryoni -----------------------------------------------tggaact-catgtta--------
Bactrocera_oleae -----------------------------------------------tggaact-catgtta--------
Zeugodacus_cucurbitae -----------------------------------------------tggcgct-catattg--------
Ceratitis_capitata -----------------------------------------------tagagct-catgttg--------
Cirrula_hians -----------------------------------------------tggaagc-ttcttgt--------
Ephydra_gracilis -----------------------------------------------tgggagc-ttcttgt--------
Glossina_austeni -----------------------------------------------caatacc-acc------------
Glossina_morsitans_1 -----------------------------------------------caatacc-acc------------
Glossina_morsitans_2 -----------------------------------------------caatacc-acc------------
Glossina_pallidipes -----------------------------------------------caatacc-acc------------
Glossina_fuscipes -----------------------------------------------caatacc-acc------------
Glossina_palpalis_gambiensis -----------------------------------------------caatacc-acc------------
Glossina_brevipalpis -----------------------------------------------caatact-act------------
Lucilia_cuprina -----------------------------------------------aaaggca-actgttg--------
Lucilia_sericata -----------------------------------------------aaaggca-actgttg--------
Phormia_regina -----------------------------------------------aatggta-attgttg--------
Sarcophagidae_BV_2014 -----------------------------------------------atgaccatattgtga--------
Paykullia_maculata -----------------------------------------------aagggta-actgttg--------
Teleopsis_dalmanni -----------------------------------------------gtgacct-gttgatg--------
Haematobia_irritans -----------------------------------------------gaagccg-aacctga--------
M. domestica -----------------------------------------------tggctcc-agcg-----------
Rhagoletis_zephyria ---------ccagcc----------gc---------tgtcgtggagcccatact-gctggcc--------
Themira_minor -------------------------gt---------ggccgcaac--cgaggct-gccgctccagaactg
A_christyi ---cttcatctcgtcctc--gtacacg---------gaggtcgga--tgctgct-ggtgctg--------
A_coluzzii ---------------ctcggatgctgc---------tgctgctga--tgatgat-gatggtg--------
A_quadriannulatus ---------------ccgaagtggtcc---------acgtgcaga--aacttca-tctcgtc--------
A_merus ---------------ccgaagtggtcc---------acgtgcagg--aacttca-tctcgtc--------
B D A. gambiae ---------------ctcggatgctgc---------tgctgctga--tgatgat-gatggtg--------
A_cracens ---------------ccgaagtgatcc---------acctgcagg--aa---------------------
A_dirus ---------------ccgaagtgatcc---------acctgcagg--aa---------------------
A_albimanus ----------------------gctgccgattggtagtgtgcgga--tgcggct-gctga----------
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster -----gcctgcgta
D. simulans -----gccggcgta
D. sechellia -----gccggcgta
D. erecta -----gcccgcgta
D. yakuba -----gcccgcgta
D. ficusphila -----gccggcgta
D. eugracilis -----gccggcata
D. biarmipes -----gccggcgta
D. suzukii -----gccggcgta
D. takahashii -----gccagcgta
D. elegans -----gcccgcgta
D. rhopaloa -----gcctgcgta
D_serrata -----gccggcgta
D. kikkawai -----gccggcgta
D. ananassae -----gccggcgta
D. bipectinata -----accggcgta
D_americana -----------ata
D_novamexicana -----------ata
D. virilis -----------ata
D_montana -----------ata
D_arizonae -----------ata
D. mojavensis -----------ata
D_navojoa -----------ata
D_hydei -----------ata
D_busckii -----------ata
D. grimshawi -----------ata
D_athabasca --cgctccggcata
D_pseudoobscura_1 --cgctccggcata
D. miranda --cgctccggcata
D. persimilis --cgctccggcata
D. pseudoobscura --cgctccggcata
D_subobscura --cgcgccagcgta
D_obscura --cgctccagcgta
Zaprionus_indianus ------cgggggca
D. albomicans -----------ata
Scaptodrosophila_lebanonensis -----ggtcggata
Phortica_variegata -----ggtagcata
D. willistoni --cgtgttagtgta
Tephritis_californica tgcgatgaggcata
Stomoxys_calcitrans -----ccagccgtg
Bactrocera_dorsalis --gccgccgtcgcg
Bactrocera_latifrons --gccgccgtcggg
Bactrocera_tryoni --gccgccgtcggg
Bactrocera_oleae --gccgccgccggg
Zeugodacus_cucurbitae --ggggccgtcgcg
Ceratitis_capitata --gccgcagacgtg
Cirrula_hians --gcggcgctagtg
Ephydra_gracilis --gtggcggtagtg
Glossina_austeni -------------a
Glossina_morsitans_1 -------------a
Glossina_morsitans_2 -------------a
Glossina_pallidipes -------------a
Glossina_fuscipes -------------a
Glossina_palpalis_gambiensis -------------a
Glossina_brevipalpis -------------a
Lucilia_cuprina -ggcagccgaggga
Lucilia_sericata -ggcagccgagggg
Phormia_regina -ggcagccgtagct
Sarcophagidae_BV_2014 -gg-----------
Paykullia_maculata -ggcagaagaaggt
Teleopsis_dalmanni -tgcgtgatacgga
Haematobia_irritans -ggcaccagcgtgt
M. domestica --gcggctgttgtg
Rhagoletis_zephyria -----ggcgtcgaa
Themira_minor ccgtatgtagcata
A_christyi -----atggtgctg
A_coluzzii --------------
A_quadriannulatus --------------
A_merus --------------
A. gambiae --------------
A_cracens --------------
A_dirus --------------
A_albimanus --------------
Proctacanthus_coquilletti ==============
Belgica_antarctica ==============
Lutzomyia_longipalpis ==============
A_farauti ==============
Phlebotomus_papatasi ==============
Eutreta_diana ==============
Culex_quinquefasciatus ==============
T. castaneum ==============
Inserts between block 24 and 25 in window
A_coluzzii 21bp
A_quadriannulatus 21bp
A_merus 21bp
B D A. gambiae 21bp
Alignment block 25 of 252 in window, 12083461 - 12083477, 17 bps
B D D. melanogaster ctg---------------cgg---a--------------------------tgcgg------a---tgtg
D D. simulans ctg---------------cgg---a--------------------------tgcgg------a---tgtg
B D D. sechellia ctg---------------cgg---a--------------------------tgcgg------a---tgtg
D. erecta ctg---------------cgg---a--------------------------tgcgg------a---tgtg
D. yakuba ctg---------------cgg---a--------------------------tgcgg------a---tgtg
D. ficusphila ctg---------------cgg---a---------tgc------g-----cgtgcgg------a---tgtg
D. eugracilis ttg---------------cgg---a---------tgc------g-----catgtgg------a---tgtg
D. biarmipes ttg---------------cgg---a---------tgc------g-----catgtgg------a---tgtg
D. suzukii ctg---------------cgg---a---------tgc------g-----catgcgg------a---tgtg
D. takahashii ctg---------------cgg---a---------tgc------g-----catgcgg------a---tggg
D. elegans ttg---------------cgg---a---------tgc------g-----cgtgtgg------a---tgtg
D. rhopaloa ctg---------------cgg---a---------tgc------g-----catgcgg------a---tgtg
D_serrata ctg---------------tgc---a---------tgt------g-----gatgcgg------a---tggg
D. kikkawai ttg---------------cgc---a---------tgt------g-----gatgcgg------a---tggg
D. ananassae ctg---------------ggg---a---------tga------g-----catgcgg------a---tggg
D. bipectinata ctg---------------ggg---a---------tga------g-----catgcgg------a---tggg
D_americana ctg---------------cgc---a---------tgg------g-----------c------a---tggg
D_novamexicana ctg---------------cgc---a---------tgg------g-----------c------a---tggg
D. virilis ctg---------------cgc---a---------tgg------g-----------c------a---tggg
D_montana ctg---------------cgc---a---------tgg------g-----------c------a---tggg
D_arizonae ttg---------------ggg---a---------tgc------g--------gcgc------a---tggg
D. mojavensis ttg---------------ggg---a---------tgc------g--------gcgc------a---tggg
D_navojoa ttg---------------ggg---a---------tgc------g--------gcgc------a---tggg
D_hydei ttg---------------ggc---a---------tgc------g--------gtgc------a---tggg
D_busckii ttg---------------cgc---a---------tgg------g-----cgtgtgc------a---tggg
D. grimshawi atg---------------gga---a---------gcg------g--------gtgc------atactgtg
D_athabasca ctg---------------cgg---a---------tgg------t--------gcgc------a---tgcg
D_pseudoobscura_1 ctg---------------tgg---a---------tgg------t--------gcgc------a---tgcg
D. miranda ctg---------------tgg---a---------tgg------t--------gcgc------a---tgcg
B D D. persimilis ctg---------------tgg---a---------tgg------t--------gcgc------a---tgcg
D. pseudoobscura ctg---------------tgg---a---------tgg------t--------gcgc------a---tgcg
D_subobscura ctg---------------cgg---a---------tga------t--------gcgcatgcgga---tgcg
D_obscura ctg---------------cgg---a---------tgg------t--------gcgc------a---tgcg
Zaprionus_indianus ctg---------------gtg---g---------cgc------t--------gcgt------a-------
D. albomicans ct--------------------------------------------------gcgc------a---tgtg
Scaptodrosophila_lebanonensis ttg---------------agg---a-----------------------------gc------a---tgtg
Phortica_variegata ctg---------------cgaggca---------tgt------g-----catgcgc------atggtggg
D. willistoni ttg---------------ccc---a---------tga------t--------gtgg------a---tgtg
Tephritis_californica ttg---------------tgc---agcagcagcatgg------t-----gatgatg------a---tgcg
Stomoxys_calcitrans cca---------------gag---g---------tgg------cg---ccatgcga------a---agaa
Bactrocera_dorsalis ctg---------------tg----a---------tgg------a-----agcccaa------a---tgcg
Bactrocera_latifrons ctg---------------tg----a---------tgg------a-----aacccaa------a---tgcg
Bactrocera_tryoni ctg---------------tg----a---------tgg------a-----aacccaa------a---tgcg
Bactrocera_oleae ctg---------------tg----a---------tgg------a-----aacccaa------a---tgcg
Zeugodacus_cucurbitae ctg---------------tg----a---------tga------a-----agcccaa------a---tgcg
Ceratitis_capitata ctg---------------tg----a---------tgg------a-----agcccaa------a---tgtg
Cirrula_hians cca---------------tg----g---------tga------a-----atggcaggtgatga---tgcg
Ephydra_gracilis cca---------------tg----a---------tga------a-----atggcaagtgatga---tgcg
Glossina_austeni cta---------------tg----g---------tga------a-----actgtaa------t---tgtt
Glossina_morsitans_1 cta---------------tg----a---------tga------a-----actgcaa------t---tgtt
Glossina_morsitans_2 cta---------------tg----a---------tga------a-----actgcaa------t---tgtt
Glossina_pallidipes cta---------------tg----g---------tga------a-----actgtaa------t---tgtt
Glossina_fuscipes cta---------------tg----a---------tga------a-----actgtaa------t---tgtt
Glossina_palpalis_gambiensis cta---------------tg----a---------tga------a-----actgtaa------t---tgtt
Glossina_brevipalpis cga---------------tg----a---------tga------a-----actgtaa------t---tctt
Lucilia_cuprina gtg------gaatattgatg----a---------cca------t-----a---ttg------a---gaat
Lucilia_sericata gtg------gaatattgatg----a---------cca------t-----a---ttg------g---gaat
Phormia_regina gta---------------------------------------------------ga------a---tatt
Paykullia_maculata gtg---------------------------------------------------ga------a---tatt
Teleopsis_dalmanni ttg---------------------------------------------------ta------c---tgtg
Haematobia_irritans ggagcaaacgacaattgttg----a---------cca------g-----aactacc------g---tatt
M. domestica ctg---------------gc----a---------tgaggagcga-----aaggcaa------t---tgtt
Rhagoletis_zephyria ccg---------------tg----a---------tgg------a-----aacccaa------a---tgtg
Themira_minor ttg---------------ag----c---------tg----------------------------------
A_christyi ctg---------------ctg---c---------tgt------t-----gatggtg------a---tgtg
A_arabiensis c---------------------------------------------------------------------
A_coluzzii c---------------------------------------------------------------------
A_quadriannulatus c---------------------------------------------------------------------
A_merus c---------------------------------------------------------------------
B D A. gambiae c---------------------------------------------------------------------
A_cracens ----------------------------------------------------------cttca---tgtc
A_dirus ----------------------------------------------------------cttca---tgtc
A_albimanus --------------------------------------------ggccggatgatg------a---tg--
Proctacanthus_coquilletti ======================================================================
Belgica_antarctica ======================================================================
Lutzomyia_longipalpis ======================================================================
Sarcophagidae_BV_2014 ----------------------------------------------------------------------
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
Inserts between block 25 and 26 in window
A_cracens 14bp
A_dirus 14bp
Alignment block 26 of 252 in window, 12083478 - 12083524, 47 bps
B D D. melanogaster cgtg---cgg---------atgcg------gc---------gca---tgg------g-----gatg----
D D. simulans cgtg---cgg---------atgcg------gc---------gca---tgg------g-----gatg----
B D D. sechellia cgtg---cgg---------atgcg------gc---------gca---tgg------g-----gatg----
D. erecta cgtg---cgg---------atggg------gc---------gca---tgg------g-----gatg----
D. yakuba cgtg---cgg---------atgcg------gc---------gca---tgg------g-----gatg----
D. ficusphila cgtg---cag---------atgcggggcatgt---------gca---tgc------g-----gatg----
D. eugracilis cgtg---cgg---------atgcg------gc---------gca---tgg------g-----gatg----
D. biarmipes cgtg---cgg---------atgtg------gc---------gca---tgg------g-----gatg----
D. suzukii cgtg---cgg---------atgtg------gc---------gca---tgg------g-----gatg----
D. takahashii cgtg---cgg---------atgtg------gc---------gca---tgt------g-----gatg----
D. elegans catg---cgg---------atgcg------gc---------gca---tgggcatgcg-----gatg----
D. rhopaloa catg---cgg---------atgtg------gg---------gca---tgggcatgcg-----gatg----
D_serrata catg---ggg---------gtgtc------cg---------tga---tgg------g-----gatg----
D. kikkawai catg---ggg---------gtgtc------cg---------tga---tgg------g-----gatg----
D. ananassae cgtg---cgg---------atgcg------gg---------gca---tgtggatgcg-----gatg----
D. bipectinata cgtg---cgg---------atgcg------gg---------gca---tgtggatgcg-----gatg----
D_americana catg---ggg---------atgcg------gc---------gca---tgc------g-----catg----
D_novamexicana catg---ggg---------atgcg------gc---------gca---tgc------g-----catg----
D. virilis catg---ggg---------atgcg------gc---------gca---tgc------g-----catg----
D_montana catg---ggg---------atgcg------gg---------gca---tgc------g-----catg----
D_arizonae gatg---ggg---------atgcg------cg---------cca---tgt------g-----gatg----
D. mojavensis gatg---ggg---------atgcg------cg---------cca---tgt------g-----gatg----
D_navojoa gatg---ggg---------atgcg------ca---------cca---tgt------g-----gatg----
D_hydei gatg---cgg---------atgcc------cc---------gcg---tgt------g-----gatg----
D_busckii gatg---gct---------gtg---------g---------gca---tgg------g-----gatg----
D. grimshawi aatg---ggg---------atgcga-----cg---------gca---tat------gcgaatgatg----
D_athabasca gatg---ggg---------atgag------ga---------gcg---tgc------c-----catg----
D_pseudoobscura_1 gatg---cgg---------atgtg------ga---------gcg---tgc------c-----catgatgc
D. miranda gatg---cgg---------atgtg------ga---------gcg---tgc------c-----catgatgc
B D D. persimilis gatg---cgg---------atgtg------ga---------gcg---tgc------c-----catgatgc
D. pseudoobscura gatg---cgg---------atgtg------ga---------gcg---tgc------c-----catgatgc
D_subobscura gatg---cgg---------atgtg------ga---------gcg---tgc------c-----cgtga---
D_obscura gatg---cgg---------atgtg------ga---------gcg---tgc------c-----catg----
Zaprionus_indianus -gtg---cga---------agctg------ct---------gcatattgc------g-----catg----
D. albomicans catg---cgg---------atgcg------gg---------gca---tgc------g-----gatg----
Scaptodrosophila_lebanonensis catg---ggg---------atggt------gc---------gca---tgc------g-----gatg----
Phortica_variegata gatg---atg---------cggcg------gc---------ggc---ggt------g-----gatg----
D. willistoni catg---agg---------atggg------ac---------ggt---ggc------a-----cgtg----
Tephritis_californica catg---tgg---------atgcg------gt---------gta---tggaa----g-----gatg----
Stomoxys_calcitrans aagg---tag---------ttgtt------ggcccgagcttcca---tac------t-----gctg----
Bactrocera_dorsalis atga---ggc---------atatt------gt---------gcg---gcg------g-----cagt----
Bactrocera_latifrons atga---ggc---------atatt------gt---------gcg---gcg------g-----cagc----
Bactrocera_tryoni atga---ggc---------atatt------gt---------gcg---gcg------g-----cagc----
Bactrocera_oleae acga---ggc---------atatt------gt---------gcg---gca------g-----cagc----
Zeugodacus_cucurbitae atga---ggc---------atatt------gt---------gcg---gca------g-----cagc----
Ceratitis_capitata atgaggcggc---------gtatt------gc---------gcg---gct------g-----cagc----
Cirrula_hians agtg---gct---------gtatt------gc---------gtg---tgc------g-----catg----
Ephydra_gracilis agtg---act---------gtatt------gt---------gtg---tgc------g-----catg----
Glossina_austeni gcga---ggcagttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_morsitans_1 gcga---ggcagttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_morsitans_2 gcga---ggcagttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_pallidipes gcga---ggcagttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_fuscipes gcga---ggcggttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_palpalis_gambiensis gcga---ggcggttgatgaatatt------ga---------gaa---cca------t-----attg----
Glossina_brevipalpis ggga---ggcagttgatgaatatt------gg---------gaa---cca------t-----actg----
Lucilia_cuprina gatg---agc---------atgat------ga---------tgt---gga------t-----gatg----
Lucilia_sericata gatg---agg---------atgat------ga---------tgg---gga------t-----gatg----
Phormia_regina gatg---acc---------atatt------ga---------cta---tga------t-----ggtg----
Sarcophagidae_BV_2014 gatg---tgt---------atgat------ga---------tga---tga------t-----ggtg----
Paykullia_maculata gatg---gct---------atatt------gg---------gaa---tga------t-----ggtg----
Teleopsis_dalmanni tatg---tgt---------gtgtt------gg---------gaa---tg---------------------
Haematobia_irritans gttg---act---------atatt------ga---------gaa---tgg------t-----gggc----
M. domestica ggct---gga---------atatt------gg---------tga---gcg------t-----attg----
Rhagoletis_zephyria atga---ggc---------atatt------gg---------gcg---gca------g-----cagc----
Belgica_antarctica cgtg---cgg---------atgaa------cg---------aag---cct------g-----aaat----
Themira_minor ------------------catgat------ga---------tga---tga------g-----gatg----
A_christyi aatg---gtg---------atgga------gc---------gtc---tgg------g-----tgga----
A_arabiensis --tg---ctg---------ctgct------gt---------gca---tgg------t-----gatg----
A_coluzzii --tg---ctg---------ctgct------gt---------gca---tgg------t-----gatg----
A_quadriannulatus --tg---ctg---------ctgct------ga---------tgg---tgg------t-----gatg----
A_merus --tg---ctg---------ctgct------ga---------tgg---tgg------t-----gatg----
B D A. gambiae --tg---ctg---------ctgct------gt---------gca---tgg------t-----gatg----
A_cracens cgct---cgg---------gtgct------gg---------tgg---tga------t-----ggtg----
A_dirus cgct---cgg---------gtgct------gg---------tgg---tga------t-----ggtg----
A_albimanus ---g---tgg---------tggtg------gc---------tca---tgt------t-----gttg----
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster --------------------------tcc------gt---------gatg---------cg-a-------
D. simulans --------------------------tcc------gt---------gatg---------cg-a-------
D. sechellia --------------------------tcc------gt---------gatg---------cg-c-------
D. erecta --------------------------tcc------gt---------gatg---------cg-a-------
D. yakuba --------------------------tcc------gt---------gatg---------cg-a-------
D. ficusphila --------------------------tcc------gtgat---gcggatg---------cg-a-------
D. eugracilis --------------------------tcc------atgat---ggggatg---------cg-a-------
D. biarmipes --------------------------tcc------gtgat---gaggatg---------cg-a-------
D. suzukii --------------------------tcc------gtgat---gcggatg---------cg-a-------
D. takahashii --------------------------ccc------atgat---gcggatg---------cg-a-------
D. elegans --------------------------tcc------gtgat---gcggatg---------cg-a-------
D. rhopaloa --------------------------tcc------gtgat---gcggatg---------cg-a-------
D_serrata --------------------------ccc------gtgat---gtgggtg---------cg-a-------
D. kikkawai --------------------------ccc------gtgat---gtgggtg---------cg-a-------
D. ananassae --------------------------tcc------gtgat---gggagtg---------cg-a-------
D. bipectinata --------------------------tcc------gtgat---gggggtg---------cg-a-------
D_americana --------------------------cgc------------------atg---------cg-g-------
D_novamexicana --------------------------cgc------------------atg---------cg-g-------
D. virilis --------------------------cgg------------------atg---------at-g-------
D_montana --------------------------cg----------------------------------g-------
D_arizonae --------------------------ccc------gt---------gatg---------cg-g-------
D. mojavensis --------------------------ccc------gt---------gatg---------cg-g-------
D_navojoa --------------------------ccc------gt---------gatg---------cg-g-------
D_hydei --------------------------ccc------at---------gatg---------cg-g-------
D_busckii --------------------------cgc------------------atg---------cg-g-------
D. grimshawi --------------------------tgc------at---------gatg---------cg-g-------
D_athabasca --tccgtgcggatggggatggccgtgggc------at---------gatg---------cg-a-------
D_pseudoobscura_1 gatccgtgcggatggggatggccgtgagc------at---------gatg---------cg-a-------
D. miranda gatccgtgcggatggggatggccgtgagc------at---------gatg---------cg-a-------
D. persimilis gatccgtgcggatggggatggccgtgagc------at---------gatg---------cg-a-------
D. pseudoobscura gatccgtgcgaatggggatggccgtgagc------at---------gatg---------cg-a-------
D_subobscura ---ccgtggggatggggatggccgtgggc------at---------gatg---------gg-c-------
D_obscura --cccgtgcggatggggatggccgtgagc------at---------gatg---------cg-a-------
Zaprionus_indianus -----------gtgggcatgggcgtgtgc------at---------gatgcgctgccgccg-c-------
D. albomicans --------------------------atg------ag---------gatg---------cg-gggc----
Scaptodrosophila_lebanonensis --------------------------atg------gtggt------ggtg---------gg-g-------
Phortica_variegata --------------------------tcc------atgcg---ttggatg---------cgtg-------
D. willistoni --------------------------gcc------at------gcgggtg---------cg-a-------
Tephritis_californica --------------------------agg------gt---------ggtg---------ca-g-------
Stomoxys_calcitrans --------------------------gct------gt---------attg---------ag-a-------
Bactrocera_dorsalis --------------------------tgc------gt---------ggtg---------at-gcgc----
Bactrocera_latifrons --------------------------ggc------gt---------ggtg---------at-gcgc----
Bactrocera_tryoni --------------------------tgc------gt---------ggtg---------at-gcgc----
Bactrocera_oleae --------------------------agc------at---------gatg---------at-gcgc----
Zeugodacus_cucurbitae --------------------------tgc------at---------gatg---------at-gcgc----
Ceratitis_capitata --------------------------agc------gt---------gatg---------at-gcgcatgt
Cirrula_hians --------------------------tg------------------gatg---------at-gtgc----
Ephydra_gracilis --------------------------ag------------------gatg---------at-gtga----
Glossina_austeni --------------------------gga------at---------ggtg---------at-g-------
Glossina_morsitans_1 --------------------------gga------at---------ggtg---------at-g-------
Glossina_morsitans_2 --------------------------gga------at---------ggtg---------at-g-------
Glossina_pallidipes --------------------------gga------at---------ggtg---------at-g-------
Glossina_fuscipes --------------------------gga------at---------ggtg---------at-g-------
Glossina_palpalis_gambiensis --------------------------gga------at---------ggtg---------at-g-------
Glossina_brevipalpis --------------------------ata------at---------gatg---------at-g-------
Lucilia_cuprina --------------------------agg------at---------aact---------gg-g-------
Lucilia_sericata --------------------------agg------at---------agct---------gg-g-------
Phormia_regina --------------------------gtg------at---------ggtg---------at-g-------
Sarcophagidae_BV_2014 --------------------------gtg---tgcat---------gagg---------at-g-------
Paykullia_maculata --------------------------gtg------gt---------ggtg---------at-g-------
Teleopsis_dalmanni -----------------------------------gt---------ggaa---------ga-g-------
Haematobia_irritans --------------------------act------at---------ggtg---------at-g-------
M. domestica --------------------------cga------gt---------gatg---------ag-c-------
Rhagoletis_zephyria --------------------------cac------atgatgatgggcatg---------cg-g-------
Belgica_antarctica --------------------------gtt------ct---------gatg---------cg-g-------
Themira_minor --------------------------atg------at---------gatg---------gg-a-------
A_christyi --------------------------acc------at---------cgtt---------tg-g-------
A_arabiensis ------------------------tagcg------ac---------tgcg---------tg-g-------
A_coluzzii ------------------------tagcg------ac---------tgcg---------cg-g-------
A_quadriannulatus --------------------------gtg------gt---------ggtg---------ct-g-------
A_merus --------------------------gtg------gt---------ggtg---------ct-g-------
A. gambiae ------------------------tagcg------ac---------tgcg---------cg-g-------
A_cracens --------------------------gtg------gt---------gatg---------gt-g-------
A_dirus --------------------------gtg------gt---------gatg---------gt-g-------
A_albimanus --------------------------gagaaaaatgt---------gctg---------ca-g-------
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster --------a--------tg-ggc------gtgg
D. simulans --------g--------tg-ggc------atgg
D. sechellia --------a--------tg-ggc------atgg
D. erecta --------a--------tg-ggc------gtgc
D. yakuba --------g--------tg-ggc------gtgg
D. ficusphila --------g--------tg-ggc------gtgt
D. eugracilis --------a--------tg-ggc------atga
D. biarmipes --------g--------tg-cgc------gtgg
D. suzukii --------g--------tg-cgc------atgg
D. takahashii --------g--------tg----------atgg
D. elegans --------g--------tg-agc------atgt
D. rhopaloa --------g--------tg-ggc------atgt
D_serrata --------g--------tg-ggc------atgg
D. kikkawai --------g--------tg-ggc------atgc
D. ananassae --------a--------tg-ggc------atgg
D. bipectinata --------a--------tg-ggc------atgg
D_americana --------a--------tg----------atgg
D_novamexicana --------a--------tg----------atgg
D. virilis --------g--------gg----------atgg
D_montana --------a--------tg----------atgg
D_arizonae --------a--------tg----------atgc
D. mojavensis --------a--------tg----------atgc
D_navojoa --------a--------tg----------atgt
D_hydei --------a--------tg----------gtgc
D_busckii --------a--------tg----------at--
D. grimshawi --------a--------tg----------g---
D_athabasca --------a--------tg-gga------atgc
D_pseudoobscura_1 --------a--------tg-gga------atgc
D. miranda --------a--------tg-gga------atgc
D. persimilis --------a--------tg-gga------atgc
D. pseudoobscura --------a--------tg-gga------atgc
D_subobscura --------a--------tg-ccc------atgc
D_obscura --------a--------tg-cgagtgcgcatgc
Zaprionus_indianus --------a--------tg-tgcagcagcatga
D. albomicans --------a--------tg-ggg------atgc
Scaptodrosophila_lebanonensis --------a--------tg-agg------gtgc
Phortica_variegata --------g--------ca--------------
D. willistoni --------a--------tg-ggg------atgt
Tephritis_californica --------t--------cg----------atgc
Stomoxys_calcitrans --------a--------tg----------gtgt
Bactrocera_dorsalis --------a--------tg---c------gtgt
Bactrocera_latifrons --------a--------tg---c------gtgt
Bactrocera_tryoni --------a--------tg---c------gtat
Bactrocera_oleae --------a--------tg---c------gtgt
Zeugodacus_cucurbitae --------a--------tg---c------gtat
Ceratitis_capitata gcatgtgta--------tg---t------gtat
Cirrula_hians --------a--------tg---c------gtgt
Ephydra_gracilis --------a--------tg---t------gggt
Glossina_austeni --------a--------ta----------gtga
Glossina_morsitans_1 --------a--------ta----------gtga
Glossina_morsitans_2 --------a--------ta----------gtga
Glossina_pallidipes --------a--------ta----------gtga
Glossina_fuscipes --------a--------ta----------gtga
Glossina_palpalis_gambiensis --------a--------ta----------gtga
Glossina_brevipalpis --------a--------ta----------gtga
Lucilia_cuprina --------a--------ta----------ttga
Lucilia_sericata --------a---------------------tat
Phormia_regina --------a--------tg----------atgt
Sarcophagidae_BV_2014 --------a--------gg----------atgt
Paykullia_maculata --------a--------tg----------atgt
Teleopsis_dalmanni --------a--------tg----------gtgt
Haematobia_irritans --------a--------tg-ggc------atgt
M. domestica --------a--------tt----------gtga
Rhagoletis_zephyria --------g--------tg-cgc------gtgg
Belgica_antarctica --------aatcagagttg--------------
Themira_minor --------a---------g-cgt------atgc
A_christyi --------a--------tgtagg------gtgc
A_arabiensis --------g------------------------
A_coluzzii --------g------------------------
A_quadriannulatus --------a------------------------
A_merus --------a------------------------
A. gambiae --------g------------------------
A_cracens --------a--------tg----------g---
A_dirus --------a--------tg----------g---
A_albimanus --------a--------ta----------g---
Proctacanthus_coquilletti =================================
Lutzomyia_longipalpis =================================
A_farauti =================================
Phlebotomus_papatasi =================================
Eutreta_diana =================================
Culex_quinquefasciatus =================================
T. castaneum =================================
Inserts between block 26 and 27 in window
D_americana 37bp
D_novamexicana 37bp
D. virilis 37bp
D_arizonae 30bp
D. mojavensis 30bp
D_navojoa 30bp
D_hydei 30bp
D_busckii 14bp
D. grimshawi 21bp
D_athabasca 6bp
D_pseudoobscura_1 6bp
D. miranda 6bp
B D D. persimilis 6bp
D. pseudoobscura 6bp
D_subobscura 6bp
D_obscura 6bp
Zaprionus_indianus 6bp
Tephritis_californica 4bp
Stomoxys_calcitrans 7bp
Bactrocera_dorsalis 2bp
Bactrocera_latifrons 2bp
Bactrocera_tryoni 2bp
Bactrocera_oleae 2bp
Zeugodacus_cucurbitae 2bp
Ceratitis_capitata 2bp
Cirrula_hians 2bp
Ephydra_gracilis 2bp
Glossina_austeni 2bp
Glossina_morsitans_1 2bp
Glossina_morsitans_2 2bp
Glossina_pallidipes 2bp
Glossina_fuscipes 2bp
Glossina_palpalis_gambiensis 2bp
Glossina_brevipalpis 2bp
Lucilia_cuprina 2bp
Lucilia_sericata 2bp
Phormia_regina 2bp
Sarcophagidae_BV_2014 2bp
Paykullia_maculata 2bp
Teleopsis_dalmanni 4bp
Haematobia_irritans 2bp
M. domestica 2bp
Rhagoletis_zephyria 6bp
A_christyi 2bp
Alignment block 27 of 252 in window, 12083525 - 12083620, 96 bps
B D D. melanogaster cctggt---gc---c------------------------------------ggata-----------gg-
D D. simulans cctggt---gc---c------------------------------------ggata-----------gg-
B D D. sechellia cctggt---gc---t------------------------------------ggata-----------gg-
D. erecta ccgggt---gc---c------------------------------------ggata-----------gg-
D. yakuba ccgggt---gc---c------------------------------------ggata-----------cg-
D. ficusphila cccggc---gc---cg---------------------------------agggata-----------cg-
D. eugracilis ccgggt---gc---cg---------------------------------aaggata-----------gg-
D. biarmipes ccgggg---gc---cg---------------------------------agggata-----------gg-
D. suzukii ccgggg---gc---cg---------------------------------agggata-----------gg-
D. takahashii ccggtt---gc---cg---------------------------------aaggata-----------tg-
D. elegans ccgggt---gccgtcg---------------------------------gtggata-----------gg-
D. rhopaloa cccggg---gc---cg---------------------------------aaggata-----------gg-
D_serrata ctgggc---gt---cg---------------------------------agggata-----------gg-
D. kikkawai ccgggc---gt---cg---------------------------------aggaata-----------gg-
D. ananassae ctggga---gc---cg---------------------------------acggata-----------gg-
D. bipectinata ctggga---gc---cg---------------------------------acggata-----------ag-
D_americana cctgtg-------------------------------------------tgggata-----------tg-
D_novamexicana cctgtg-------------------------------------------tgggata-----------tg-
D. virilis cctgtg-------------------------------------------tgggata-----------tg-
D_montana ----------------------------------------------------------------------
D_arizonae tgtgtgctgtt---gg---------------------------------ttggata-----------cg-
D. mojavensis tgtgtgctgtt---gg---------------------------------ttggata-----------cg-
D_navojoa tgtgtgctgtt---gg---------------------------------ttgaata-----------cg-
D_hydei tgtgttgtgtt---cg---------------------------------ttggata-----------tg-
D_busckii tgtgtgccgcc---ag---------------------------------tggcataggc--------cg-
D. grimshawi tgtgtgctagc---tgtgc------------------------------tgggata-----------tc-
D_athabasca cccgtg---gc---cg---------------------------------tgggata-----------tg-
D_pseudoobscura_1 cccgtg---gc---cg---------------------------------tgggata-----------tg-
D. miranda cccgtg---gc---cg---------------------------------tgggata-----------tg-
B D D. persimilis cccgtg---gc---cg---------------------------------tgggata-----------tg-
D. pseudoobscura cccgtg---gc---cg---------------------------------tgggata-----------tg-
D_subobscura cctgtg---gc---cg---------------------------------tgggata-----------tg-
D_obscura cccgtg---gc---cg---------------------------------tgggata-----------tg-
Zaprionus_indianus ggcgtc---gt---gg---------------------------------tgccata-----------tg-
D. albomicans ---gttgacga---tg---------------------------------gtgcata-----------tg-
Scaptodrosophila_lebanonensis ---gcg---gg---cg---------------------------------tagaata-----------gg-
Phortica_variegata ------tgtgc---gg---------------------------------tgggata-----------gg-
D. willistoni gccgtt---gc---tg---------------------------------aaggata-----------tg-
Tephritis_californica ------------------------------------------------------ta-----------tt-
Stomoxys_calcitrans -----------------gatggtggt-----------gatgtgcatgagctgaata-----------cg-
Bactrocera_dorsalis --------------------------------------------aaggatgatgcc-----------gt-
Bactrocera_latifrons --------------------------------------------aaggatgatgcc-----------gt-
Bactrocera_tryoni --------------------------------------------aaggatgatgcc-----------gt-
Bactrocera_oleae --------------------------------------------aaggatgatgcc-----------gt-
Zeugodacus_cucurbitae --------------------------------------------aacgatgatgcc-----------gtt
Ceratitis_capitata --------------------------------------------aaggatggtggc-----------gt-
Cirrula_hians --------------------------------------------ataggcgccgca--------------
Ephydra_gracilis --------------------------------------------ataggcgctgta--------------
Glossina_austeni --------------------------------------------tccgatagcata-----------at-
Glossina_morsitans_1 --------------------------------------------tccgatagcgta-----------at-
Glossina_morsitans_2 --------------------------------------------tccgatagcgta-----------at-
Glossina_pallidipes --------------------------------------------tccaatagcata-----------at-
Glossina_fuscipes --------------------------------------------cccgatagcata-----------at-
Glossina_palpalis_gambiensis --------------------------------------------cccgatagcata-----------at-
Glossina_brevipalpis --------------------------------------------tccgatagcgaa-----------at-
Lucilia_cuprina --------------------------------------------ag---cag------------------
Lucilia_sericata --------------------------------------------ag---aag------------------
Phormia_regina --------------------------------------------at---ggggata-----------gc-
Sarcophagidae_BV_2014 --------------------------------------------atgaggaggata-----------tg-
Paykullia_maculata --------------------------------------------at---gagggta-----------gc-
Teleopsis_dalmanni --------------------------------------------ct---ggtggta-----------ac-
Haematobia_irritans --------------------------------------------atgtataggata-----------at-
M. domestica --------------------------------------------------agagta-----------gg-
Rhagoletis_zephyria --------------------------------------------------------tgcggcgccggtg-
Belgica_antarctica ---------------------------------------------acgacaggttg-----------tg-
Themira_minor -----------------------------------------cgcagcggccgcata-----------ct-
A_christyi -----------------------catccaccatcctggctgcccgtactcatcgtc-----------cc-
A_arabiensis ----------------------------------------------------------------------
A_coluzzii ----------------------------------------------------------------------
A_quadriannulatus ----------------------------------------------------------------------
A_merus ----------------------------------------------------------------------
B D A. gambiae ----------------------------------------------------------------------
A_cracens ----------------------------------------------------------------------
A_dirus ----------------------------------------------------------------------
A_albimanus ----------------------------------------------------------------------
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster -----a-----tgc-------------------at-actg---------------------cggc---g-
D. simulans -----a-----tgc-------------------at-actg---------------------cggc---g-
D. sechellia -----a-----tgc-------------------at-actg---------------------cggc---g-
D. erecta -----a-----ggc-------------------at-actg---------------------cggc---g-
D. yakuba -----a-----tgc-------------------at-actg---------------------cggc---g-
D. ficusphila -----c-----ggc-------------------at-actg---------------------cggc---g-
D. eugracilis -----t-----tgc-------------------at-actg---------------------cggt---g-
D. biarmipes -----c-----ggc-------------------at-attg---------------------ggac---g-
D. suzukii -----t-----ggc-------------------at-attg---------------------gggc---g-
D. takahashii -----c-----ggc-------------------at-attg---------------------cggg---g-
D. elegans -----t-----ggc-------------------at-actg---------------------cggt---g-
D. rhopaloa -----t-----ggc-------------------at-actg---------------------gggc---g-
D_serrata -----c-----ggc-------------------at-attg---------------------cggc---g-
D. kikkawai -----c-----agc-------------------at-actg---------------------cgac---g-
D. ananassae -----t-----ggc-------------------at-attg---------------------cggc---g-
D. bipectinata -----t-----tgc-------------------at-actg---------------------cggc---g-
D_americana -----g-----ggc-------------------at-attg---------------------tgcg---g-
D_novamexicana -----g-----cgc-------------------at-attg---------------------tgcg---g-
D. virilis -----g-----cgc-------------------at-attg---------------------tgcg---g-
D_montana --------------------------------------------------------------------g-
D_arizonae -----g-----agc-------------------at-attg---------------------tgcg---g-
D. mojavensis -----g-----agc-------------------at-attg---------------------tgcg---g-
D_navojoa -----g-----agc-------------------gt-attg---------------------tgcg---g-
D_hydei -----g-----cgc-------------------at-attg---------------------tgcg---g-
D_busckii -----t-----ggc-------------------at-atgg---------------------agcg---g-
D. grimshawi -----c-----agc-------------------at-attg---------------------cgac---g-
D_athabasca -----g-----ggc-------------------at-attg---------------------cgcc---g-
D_pseudoobscura_1 -----g-----ggc-------------------at-attg---------------------cggc---g-
D. miranda -----g-----ggc-------------------at-attg---------------------cggc---g-
D. persimilis -----g-----ggc-------------------at-attg---------------------cggc---g-
D. pseudoobscura -----g-----ggc-------------------at-attg---------------------cggc---g-
D_subobscura -----g-----cgc-------------------at-actg---------------------cggc---g-
D_obscura -----g-----cgc-------------------at-actg---------------------cggc---g-
Zaprionus_indianus -----g-----agc-------------------at-attg---------------------cgca---g-
D. albomicans -----g-----agc-------------------at-attg---------------------tccg---g-
Scaptodrosophila_lebanonensis -----g-----cgc-------------------ga-actg---------------------tggc---g-
Phortica_variegata -----g-----cgc-------------------at-actg---------------------tgcc---g-
D. willistoni -----a-----cgc-------------------at-attg---------------------tggt---g-
Tephritis_californica -----g-----agc-------------------atgattg---------------------tgat---g-
Stomoxys_calcitrans -----a-----ggg-------------------at-attg---------------------agag---g-
Bactrocera_dorsalis -----tggtggtgc-------------------at-attg------------------------c---g-
Bactrocera_latifrons -----tggtggcgc-------------------at-attg------------------------c---g-
Bactrocera_tryoni -----tggtggtgc-------------------at-attg------------------------c---g-
Bactrocera_oleae -----tggtggtgc-------------------at-actg------------------------g---g-
Zeugodacus_cucurbitae ggtggtggtggtgc-------------------at-attg------------------------c---g-
Ceratitis_capitata -----cggtggtac-------------------at-actg------------------------a---g-
Cirrula_hians -----tggtggtacgtt--------------gaat-attg------------------------t---g-
Ephydra_gracilis -----tgatggtacgtc--------------gaat-attg------------------------c---g-
Glossina_austeni -----t-----cgc-------------------gt-attg------------------agcagga---g-
Glossina_morsitans_1 -----t-----cgc-------------------gt-attg------------------agcagga---g-
Glossina_morsitans_2 -----t-----cgc-------------------gt-attg------------------agcagga---g-
Glossina_pallidipes -----t-----cgc-------------------gt-attg------------------agcagga---g-
Glossina_fuscipes -----t-----cgc-------------------at-attg------------------agctgga---g-
Glossina_palpalis_gambiensis -----t-----cgc-------------------at-attg------------------agctgga---g-
Glossina_brevipalpis -----t-----tgc-------------------at-attg------------------agcagaa---g-
Lucilia_cuprina ------------------------------------------------------------cagcg---g-
Lucilia_sericata ---------------------------------------------------------cagcagcg---g-
Phormia_regina -----t-----agg-------------------at-attggga------------agcagctgca---g-
Sarcophagidae_BV_2014 -----a-----tgg-------------------at-attgtga------------agctgcggcagttg-
Paykullia_maculata -----t-----gga-------------------gt-attgagt------------agcagcagcg---g-
Teleopsis_dalmanni -----g-----cag-------------------tt-gatgg-----------------tgtttca---g-
Haematobia_irritans -----t-----ggg-------------------at-attgtga------------agcagcagctgatg-
M. domestica -----a-----aga-------------------gt-attgagaggcagcagcagcggcggcggcc---g-
Rhagoletis_zephyria -----g-----tgc-------------------gc-attg------------------------c---g-
Belgica_antarctica -----g-----tgt-------------------gc-gctg----------taaagcgaggctgaa---g-
Themira_minor -----g-----gga-------------------at-gctg---------------------gtgt---g-
A_christyi -----a-----agc-------------------ac-gtcg---------------acagagctgc---t-
A_arabiensis --------------cccatcgtttgagtgtagcgt-gcag---------------------cagc---cg
A_coluzzii --------------cccatcgtttgagtgtagcgt-gcag---------------------cagc---c-
A_quadriannulatus --------------tgc-----------------t-gttg---------------------aagc---t-
A_merus --------------tgc-----------------t-gttg---------------------aagc---t-
A. gambiae --------------cccatcgtttgagtgtagcgt-gcag---------------------cagc---c-
A_cracens ----------------------------------------------------------------------
A_dirus ----------------------------------------------------------------------
A_albimanus -----------------------cgagaggaagac-agag---------------------agga---g-
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster ---------------t--------------a---t------gctgata-----cg---------------
D. simulans ---------------t--------------a---t------gctgata-----cg---------------
D. sechellia ---------------t--------------a---t------gctgata-----cg---------------
D. erecta ---------------t--------------a---t------gctgata-----cg---------------
D. yakuba ---------------t--------------a---t------gctgata-----cg---------------
D. ficusphila ---------------t--------------a---t------gctggta-----cg---------------
D. eugracilis ---------------t--------------a---t------gctgata-----cg---------------
D. biarmipes ---------------c--------------a---t------gctggta-----cg---------------
D. suzukii ---------------c--------------a---t------gctggta-----cg---------------
D. takahashii ---------------c--------------a---t------gctgata-----cg---------------
D. elegans ---------------c--------------a---t------gctgata-----cg---------------
D. rhopaloa ---------------c--------------a---t------gctgata-----cg---------------
D_serrata ---------------t--------------g---t------gctggta-----cg---------------
D. kikkawai ---------------t--------------g---t------gctggta-----cg---------------
D. ananassae ---------------t--------------a---t------gctgata-----cg---------------
D. bipectinata ---------------t--------------g---t------gctggta-----gg---------------
D_americana ---------------c---------cgt--a---t------gctgata-----tg---------------
D_novamexicana ---------------c---------cgt--a---t------gctgata-----tg---------------
D. virilis ---------------c---------cgt--a---t------gctgata-----tg---------------
D_montana ---------------c---------tg---a---t------gttgat-----------------------
D_arizonae ---------------c------agctgt--g---t------gctgata-----cg---------------
D. mojavensis ---------------c------agctgt--g---t------gctgata-----cg---------------
D_navojoa ---------------c------agctgt--g---t------gctgata-----cg---------------
D_hydei ---------------c------agctgt--g---t------gctgata-----gg---------------
D_busckii ---------------c------actt--------t------gatgata-----cg---------------
D. grimshawi ---------------c------a-----------t------gctgata-----cg---------------
D_athabasca ---------------t--------------g---t------gctgata-----cg---------------
D_pseudoobscura_1 ---------------t--------------g---t------gctgata-----cg---------------
D. miranda ---------------t--------------g---t------gctgata-----cg---------------
D. persimilis ---------------t--------------g---t------gctgata-----cg---------------
D. pseudoobscura ---------------t--------------g---t------gctgata-----cg---------------
D_subobscura ---------------t--------------a---t------gctggta-----cg---------------
D_obscura ---------------t--------------g---t------gctgata-----cg---------------
Zaprionus_indianus ---------------c---cgacgctga--a---t------gctgata-----cg---------------
D. albomicans ---------------c---------tgg--a---t------gctgata-----ggc------------at
Scaptodrosophila_lebanonensis ---------------t--------------a---t------gctgata-----cg---------------
Phortica_variegata ---------------t--------------a---t------gctgata-----gt---------------
D. willistoni ---------------c---------tgc--a---t------gttgata-----tg---------------
Tephritis_californica ---------------t-gtaaaatcagc--a---c------gttgat-----------------------
Stomoxys_calcitrans ---------------cggcagcagctgcagc---c------gctgacg-----cat--------------
Bactrocera_dorsalis ---------------a--------------a---t------gattatg-----cg---------------
Bactrocera_latifrons ---------------a--------------a---t------gattatg-----tg---------------
Bactrocera_tryoni ---------------a--------------a---t------gattatg-----cg---------------
Bactrocera_oleae ---------------a--------------a---t------gattgtg-----cg---------------
Zeugodacus_cucurbitae ---------------a--------------a---t------gattgtg-----cg---------------
Ceratitis_capitata ---------------a--------------g---t------gattgtg-----cg---------------
Cirrula_hians ---------------a--------------atgtt------gttggtg-----cg---------------
Ephydra_gracilis ---------------a--------------atgtt------gttgatg-----cg---------------
Glossina_austeni ---------------g--------------a---t------gatgata-----ta---------------
Glossina_morsitans_1 ---------------g--------------a---t------gatgata-----ta---------------
Glossina_morsitans_2 ---------------g--------------a---t------gatgata-----ta---------------
Glossina_pallidipes ---------------g--------------a---t------gatgata-----ta---------------
Glossina_fuscipes ---------------g--------------a---t------gatgata-----ta---------------
Glossina_palpalis_gambiensis ---------------g--------------a---t------gatgata-----ta---------------
Glossina_brevipalpis ---------------g--------------atggt------ggtgata-----ca---------------
Lucilia_cuprina ---------------c--------------a---t------gagcata-----ca---------------
Lucilia_sericata ---------------c--------------a---t------gagcata-----ca---------------
Phormia_regina ---------------c--------------a---t------gagcata-----ca---------------
Sarcophagidae_BV_2014 ---------------t--------------g---t------gagcata-----ca---------------
Paykullia_maculata ---------------c--------------a---t------gagcata-----ca---------------
Teleopsis_dalmanni ---------------t------------------t------gatgata-----ct---------------
Haematobia_irritans ---------------t--------------a---t------gaggata-----ta---------------
M. domestica ---------------a--------------a---t------gaggata-----ca---------------
Rhagoletis_zephyria ---------------a--------------g---t------gattatg-----cgtaaagtcacgctgat
Belgica_antarctica ---------------g--------------g---t------ggtgggc-----gg---------------
Themira_minor ---------------g--------------a---t------ggtggtg-----gg---------------
A_christyi ---------------c--------------a---c------ggaggtg-----ct---------------
A_arabiensis ccactatcctggctgg--------------c---cgcactgaccgtcccaaggca---------------
A_coluzzii ---------------g--------------c---c------actatcc-----tg---------------
A_quadriannulatus ---------------g--------------c---t------gctgctg-----tg---------------
A_merus ---------------g--------------c---t------gctgctg-----tg---------------
A. gambiae ---------------g--------------c---c------actatcc-----tg---------------
A_cracens ----------------------------tgg---t------gctggtg-----tg---------------
A_dirus ----------------------------tgg---t------gctggtg-----tg---------------
A_albimanus ---------------a--------------c---a------acggacg-----tt---------------
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster gatg----------------------gaac--------atc------------tggt-------g-----
D. simulans gatg----------------------gaac--------atc------------tggt-------g-----
D. sechellia gatg----------------------gaac--------att------------tggt-------g-----
D. erecta gatg----------------------gaac--------atc------------tggt-------g-----
D. yakuba gatg----------------------gaac--------atc------------tggt-------g-----
D. ficusphila gatg----------------------gaac--------atc------------tggt-------g-----
D. eugracilis ggtg----------------------gaac--------atc------------tggt-------g-----
D. biarmipes ggtg----------------------aaac--------atc------------tggt-------g-----
D. suzukii gatg----------------------gaac--------atc------------tggt-------g-----
D. takahashii gatg----------------------gaac--------atc------------tggt-------g-----
D. elegans gatg----------------------gaac--------atc------------tggt-------g-----
D. rhopaloa ggtg----------------------gaac--------atc------------tggt-------g-----
D_serrata gatg----------------------gaac--------atc------------tggt-------g-----
D. kikkawai ggtg----------------------gaac--------atc------------tggt-------g-----
D. ananassae gatg----------------------gaac--------atc------------tggt-------g-----
D. bipectinata gatg----------------------gaac--------atc------------tggt-------g-----
D_americana gatg----------------------gaac--------atc------------tggt-------g-----
D_novamexicana gatg----------------------gaac--------atc------------tggt-------g-----
D. virilis gatg----------------------gaac--------atc------------tggt-------g-----
D_montana gatg----------------------atgc--------agc------------tgct-------------
D_arizonae gatg----------------------gaac--------atc------------tggt-------g-----
D. mojavensis gatg----------------------gaac--------atc------------tggt-------g-----
D_navojoa gatg----------------------gaac--------atc------------tggt-------g-----
D_hydei gatg----------------------gaac--------atc------------tggt-------g-----
D_busckii tgtg----------------------gaac--------att------------tggt-------gtgcgc
D. grimshawi gatg----------------------aaac--------att------------tgat-------g-----
D_athabasca gatg----------------------gaac--------atc------------tgat-------g-----
D_pseudoobscura_1 gatg----------------------aaac--------att------------tgat-------g-----
D. miranda gatg----------------------aaac--------att------------tgat-------g-----
D. persimilis gatg----------------------gaac--------att------------tgat-------g-----
D. pseudoobscura gatg----------------------aaac--------att------------tgat-------g-----
D_subobscura gatg----------------------gaac--------atc------------tgat-------g-----
D_obscura gatg----------------------gaac--------atc------------tgat-------g-----
Zaprionus_indianus agtg----------------------gaac--------atc------------tggt-------g-----
D. albomicans gatg----------------------gaac--------atc------------tggt-------g-----
Scaptodrosophila_lebanonensis gatg----------------------gaac--------att------------tgat-------g-----
Phortica_variegata gatg----------------------gaac--------att------------tgtg-------a-----
D. willistoni gatg----------------------aaac--------att------------tgat-------g-----
Tephritis_californica gatg----------------------gaac--------atc------------atat-------g-----
Stomoxys_calcitrans gaga----------------------gtac--------ata------------ttgt-------g-----
Bactrocera_dorsalis tgaa----------------------atc-----------------------------------g-----
Bactrocera_latifrons tgaa----------------------atc-----------------------------------g-----
Bactrocera_tryoni tgaa----------------------atc-----------------------------------g-----
Bactrocera_oleae taaa----------------------atc-----------------------------------a-----
Zeugodacus_cucurbitae tgaa----------------------atc-----------------------------------a-----
Ceratitis_capitata taaa----------------------atc-----------------------------------a-----
Cirrula_hians ggaacatgtgattgggatttgccgcggtt-----------------------------------g-----
Ephydra_gracilis agaacatgtggttggtgtttgcagcggca-----------------------------------g-----
Glossina_austeni aatt----------------------atg-----------------------------------a-----
Glossina_morsitans_1 aatt----------------------atg-----------------------------------a-----
Glossina_morsitans_2 aatt----------------------atg-----------------------------------a-----
Glossina_pallidipes aatt----------------------atg-----------------------------------a-----
Glossina_fuscipes aatt----------------------atg-----------------------------------a-----
Glossina_palpalis_gambiensis aatt----------------------atg-----------------------------------a-----
Glossina_brevipalpis tgtg----------------------atg-----------------------------------a-----
Lucilia_cuprina tatg----------------------at------------------------------------g-----
Lucilia_sericata tatg----------------------at------------------------------------g-----
Phormia_regina tatg----------------------at------------------------------------g-----
Sarcophagidae_BV_2014 tttg----------------------at------------------------------------g-----
Paykullia_maculata tttg----------------------at------------------------------------g-----
Teleopsis_dalmanni tctg------------------------------------------------------------t-----
Haematobia_irritans tagg----------------------at------------------------------------g-----
M. domestica tgtg----------------------at------------------------------------g-----
Rhagoletis_zephyria gatg----------------------gaac--------atc------------atat-------g-----
Belgica_antarctica agtt----------------------gtacg-------atc------------ctga-------a-----
Themira_minor catg----------------------gaac--------atg------------tgat-------g-----
A_christyi ggtg----------------------gtgc----------------------------------t-----
A_arabiensis gccg----------------------tcg---------gca------------gagc-------t-----
A_coluzzii gctg----------------------gcc---------gcactgaccgtcccaaggc-------a-----
A_quadriannulatus tatg----------------------gtg---------atg------------cagc-------g-----
A_merus catg----------------------gtg---------atg------------tagc-------g-----
A. gambiae gctg----------------------gcc---------gcactgaccgtcccaaggc-------a-----
A_cracens gatg----------------------atgg--------ttc------------agggactgttgg-----
A_dirus gatg----------------------atgg--------ttc------------agggactgttgg-----
A_albimanus catt----------------------aattactgtcctgtc------------catg-------g-----
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster ----gg---------c---g-----------------------g-----tg-------------------
D. simulans ----gg---------c---g-----------------------g-----tg-------------------
D. sechellia ----gg---------c---g-----------------------g-----tg-------------------
D. erecta ----gg---------c---g-----------------------g-----tg-------------------
D. yakuba ----gg---------c---g-----------------------g-----tg-------------------
D. ficusphila ----gg---------t---g-----------------------g-----cg-------------------
D. eugracilis ----gg---------t---g-----------------------g-----tg-------------------
D. biarmipes ----gg---------t---g-----------------------g-----tc-------------------
D. suzukii ----gg---------t---g-----------------------g-----tc-------------------
D. takahashii -gctgc---------t---g-----------------------g-----tc-------------------
D. elegans ----gg---------t---g-----------------------g-----tc-------------------
D. rhopaloa ----gg---------t---g-----------------------g-----tc-------------------
D_serrata ----gc---------c---g-----------------------g-----cc-------------------
D. kikkawai ----gc---------c---g-----------------------g-----cc-------------------
D. ananassae ----gg---------c---g-----------------------g-----tg-------------------
D. bipectinata ----gg---------c---t-----------------------g-----tg-------------------
D_americana ----ag---------c---g-----------------------g-----cagacacg-------------
D_novamexicana ----agcggcagacac---g-----------------------g-----cagacacg-------------
D. virilis ----ag---------c---g-----------------------g-----cagacacg-------------
D_montana ---------------c---g-----------------------a-----ccagctc--------------
D_arizonae ----ggcagcggcagc---a-----------------------g-----cagccgag-------------
D. mojavensis ----ggcagcggcagc---a-----------------------g-----cagccgag-------------
D_navojoa ----ggcagcggcagc---a-----------------------g-----cagctgag-------------
D_hydei ----ggcagcagcggc---a-----------------------g-----cggctgaa-------------
D_busckii tggcagcggcggcggc---a-----------------------g-----cagctgaggctgaaactgaag
D. grimshawi ----ggcagcggagac---a-----------------------g-----cg-------------------
D_athabasca ----gg---------c---g-----------------------g-----ct-------------------
D_pseudoobscura_1 ----gg---------c---g-----------------------g-----ct-------------------
D. miranda ----gg---------c---g-----------------------g-----ct-------------------
D. persimilis ----gg---------c---g-----------------------g-----ct-------------------
D. pseudoobscura ----gg---------c---g-----------------------g-----ct-------------------
D_subobscura ----gg---------c---g-----------------------g-----ca-------------------
D_obscura ----gg---------c---g-----------------------g-----ct-------------------
Zaprionus_indianus ----ag---------cactg-----------------------g-----cc-------------------
D. albomicans ----ag---------c---g-----------------------g-----cagttgct-------------
Scaptodrosophila_lebanonensis ----gg---------c---g-----------------------c-----cg-------------------
Phortica_variegata ----gg---------c---g-----------------------c-----tg-------------------
D. willistoni ----tg---------c---t-----------------------g-----cc-------------------
Tephritis_californica ----cg---------c---c-----------------------g-----cc-------------------
Stomoxys_calcitrans ----cc---------c---a-----------------------g-----ca-------------------
Bactrocera_dorsalis ----cg---------t---t-----------------------g-----at-------------------
Bactrocera_latifrons ----cg---------c---t-----------------------g-----at-------------------
Bactrocera_tryoni ----cg---------c---t-----------------------g-----at-------------------
Bactrocera_oleae ----cg---------c---t-----------------------g-----at-------------------
Zeugodacus_cucurbitae ----cg---------c---t-----------------------g-----at-------------------
Ceratitis_capitata ----cg---------t---t-----------------------g-----at-------------------
Cirrula_hians ----cg---------c---t-----------------------a-----gc-------------------
Ephydra_gracilis ----cggtcgtggaat---t-----------------------g-----ac-------------------
Glossina_austeni ----tt---------t---t-----------------------gggagcat-------------------
Glossina_morsitans_1 ----tt---------t---t-----------------------gggagcat-------------------
Glossina_morsitans_2 ----tt---------t---t-----------------------gggagcat-------------------
Glossina_pallidipes ----tt---------t---t-----------------------gggagcat-------------------
Glossina_fuscipes ----tt---------t---t-----------------------gggagcat-------------------
Glossina_palpalis_gambiensis ----tt---------t---t-----------------------gggagcat-------------------
Glossina_brevipalpis ----tt---------t---t-----------------------gagccgat-------------------
Lucilia_cuprina ----ag---------c---t-----------------------g-----at-------------------
Lucilia_sericata ----gg---------c---t-----------------------g-----ag-------------------
Phormia_regina ----ag---------c---t-----------------------g-----at-------------------
Sarcophagidae_BV_2014 ----tg---------c---g-----------------------g-----aa-------------------
Paykullia_maculata ----gg---------c---c-----------------------g-----aa-------------------
Teleopsis_dalmanni ----ag---------c---a-----------------------g-----ca-------------------
Haematobia_irritans ----tc---------c---a-----------------------g-----ag-------------------
M. domestica ----ag---------c---c-----------------------g-----aa-------------------
Rhagoletis_zephyria ----cg---------c---c-----------------------g-----cc-------------------
Belgica_antarctica ----tg---------c---a-----------------------g-----tg-------------------
Themira_minor ----at---------g---t-----------------------g-----cc-------------------
A_christyi ----tg---------t---g-----------------------g-----tg-------------------
A_arabiensis ----gc---------t---g--------------------------------------------------
A_coluzzii ----gc---------c---g----------tcggcagagct--g-----ct-------------------
A_quadriannulatus ----ac---------t---gcgcgggcccatcgtttgagtgtag-----cg-------------------
A_merus ----ac---------t---gcgcggacccatcgtttgagtgtag-----cg-------------------
A. gambiae ----gc---------c---g----------tcggcagagct--g-----ct-------------------
A_cracens ----tg---------c---t-----------------------g-----ct-------------------
A_dirus ----tg---------c---t-----------------------g-----ct-------------------
A_albimanus ----ca---------t---g-----------------------g-----ca-------------------
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster --------------------------------------------------------------a---ca-t
D. simulans --------------------------------------------------------------a---ca-t
D. sechellia --------------------------------------------------------------a---ca-t
D. erecta --------------------------------------------------------------a---ca-t
D. yakuba --------------------------------------------------------------a---ca-t
D. ficusphila --------------gc-------------------------------------------c--a---cc-t
D. eugracilis --------------------------------------------------------------a---ca-t
D. biarmipes --------------------------------------------------------------a---cg-t
D. suzukii --------------------------------------------------------------a---cg-t
D. takahashii --------------------------------------------------------------a---ca-t
D. elegans --------------------------------------------------------------a---tc-t
D. rhopaloa --------------------------------------------------------------a---tc-t
D_serrata --------------------------------------------------------------a---cc-t
D. kikkawai --------------------------------------------------------------a---cc-t
D. ananassae --------------gc-------------------------------------------c--a---tc-t
D. bipectinata --------------gc-------------------------------------------c--a---tc-t
D_americana --------------gc--------ag----a----------------------------c--a---cc-t
D_novamexicana --------------gc--------ag----a----------------------------c--a---cc-t
D. virilis --------------gc--------ag----a----------------------------c--a---cc-t
D_montana --------------ac--------tg----a----------------------------t--g---ccat
D_arizonae --------------ac--------ag----a----------------------------t--a---cg-t
D. mojavensis --------------ac--------ag----a----------------------------t--a---cg-t
D_navojoa --------------ac--------ag----a----------------------------t--a---cg-t
D_hydei --------------ac--------ag----a----------------------------g--a---cg-t
D_busckii cggaggcggaggcagc--------gg----a----------------------------c--a---cc-t
D. grimshawi --------------gc--------gg----a----------------------------c--a---tc-t
D_athabasca --------------gc--------cg----a----------------------------c--a---tc-t
D_pseudoobscura_1 --------------gc--------cg----a----------------------------c--a---tc-t
D. miranda --------------gc--------cg----a----------------------------c--a---tc-t
D. persimilis --------------gc--------cg----a----------------------------c--a---tc-t
D. pseudoobscura --------------gc--------cg----a----------------------------c--a---tc-t
D_subobscura --------------gc--------cg----a----------------------------c--a---cc-t
D_obscura --------------gc--------cg----a----------------------------c--a---cc-t
Zaprionus_indianus --------------ac--------gg----a----------------------------c--acggcc-t
D. albomicans --------------gc--------cg----a-gctgggaactg---------------tc--a---cc-t
Scaptodrosophila_lebanonensis --------------gcaccaacaccg----a-caccgacactgcctagac--------tc--g---cc-t
Phortica_variegata --------------cc--------ggcaaca----------------------------t--t---cg-t
D. willistoni --------------ga-------------------------------------------c--a---tc-t
Tephritis_californica --------------ga--------gg----a-gctagcggtgttataacct------gcc--g---ca-t
Stomoxys_calcitrans --------------tt--------ag----a----------------------------a--a---tg-t
Bactrocera_dorsalis --------------gt--------gg----g----------------------------a--a---ca-t
Bactrocera_latifrons --------------gt--------gg----g----------------------------a--a---ca-t
Bactrocera_tryoni --------------gt--------gg----g----------------------------a--a---ca-t
Bactrocera_oleae --------------gt--------tg----g----------------------------a--a---ca-t
Zeugodacus_cucurbitae --------------gt--------tg----g----------------------------a--a---ca-t
Ceratitis_capitata --------------ga--------tg----g----------------------------a--a---ca-t
Cirrula_hians --------------gt--------tg------------------------------------a---ca-c
Ephydra_gracilis --------------gt--------tt------------------------------------a---cg-c
Glossina_austeni --------------gt--------ag------------------------------------a---tg-c
Glossina_morsitans_1 --------------gt--------ag------------------------------------a---tg-c
Glossina_morsitans_2 --------------gt--------ag------------------------------------a---tg-c
Glossina_pallidipes --------------gt--------ag------------------------------------a---tg-c
Glossina_fuscipes --------------gt--------ag------------------------------------a---tg-c
Glossina_palpalis_gambiensis --------------gt--------ag------------------------------------a---tg-c
Glossina_brevipalpis --------------gt--------ag------------------------------------g-------
Lucilia_cuprina --------------ga--------gg------------------------------------c---tt-g
Lucilia_sericata --------------ga--------ag------------------------------------c---tt-g
Phormia_regina --------------gc--------tg------------------------------------t---tt-g
Sarcophagidae_BV_2014 --------------gc--------ag------------------------------------t---cg-a
Paykullia_maculata --------------gc--------tg------------------------------------a---at-g
Teleopsis_dalmanni --------------gc--------ag------------------------------------t---ag-c
Haematobia_irritans --------------ta--------gg------------------------------------a---ac-t
M. domestica --------------tt--------gg------------------------------------t---tg-t
Rhagoletis_zephyria --------------gc--------ta---------------------------------ccga---cg-c
Belgica_antarctica ----------------------------------------------------------------------
Themira_minor --------------gc--------cg------------------------------------a---cg-a
A_christyi --------------gc--------ga----c----------------------------g--g---ca-t
A_arabiensis --------------ac--------gg------------------------------------a---gg-t
A_coluzzii -------------gac--------gg------------------------------------a---gg-t
A_quadriannulatus -------------tgc--------ag------------------------------------c---ag-c
A_merus -------------tgc--------ag------------------------------------c---ag-c
A. gambiae -------------gac--------gg------------------------------------a---gg-t
A_cracens --------------gc--------tg----c-tgctgctgctgagaggaaccatc-attc--g---gg-t
A_dirus --------------gc--------tg----c-tgctgctgctgagaggagccatc-attc--g---gg-t
A_albimanus --------------gc--------ta----ggggtcctcggagacttaacctacctgtac--g---ca-t
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster cc---------------------------------agag---cctgg--ctggt------cgag------
D. simulans cc---------------------------------agag---cctgg--ctggt------cgag------
D. sechellia cc---------------------------------agag---cctgg--ctggt------agag------
D. erecta cc---------------------------------agag---cctgg--ctggt------cgaa------
D. yakuba cc---------------------------------agcg---cgtgg--ctggt------cgag------
D. ficusphila cc---------------------------------agcg---cctgg--ctcgt------ggaa------
D. eugracilis cc---------------------------------agag---cctgg--ctggt------cgag------
D. biarmipes cc---------------------------------aggg---cctgg--ctcgt------ggag------
D. suzukii cc---------------------------------aggg---cctgg--ctcgt------cgag------
D. takahashii cc---------------------------------aaag---cctgg--ctcgt------cgag------
D. elegans cc---------------------------------aggg---cctgg--ctggt------cgaa------
D. rhopaloa cc---------------------------------agag---cctga--ctcgt------ggag------
D_serrata cc---------------------------------aaag---cttgg--tttgt------cgag------
D. kikkawai cc---------------------------------agag---cctga--ctcgt------cgag------
D. ananassae cc---------------------------------aggg---cctgg--ttggt------ggag------
D. bipectinata cc---------------------------------aggg---cctgg--ttggt------ggag------
D_americana cc---------------------------------aagg---cgttg--ctcgt------cgag------
D_novamexicana cc---------------------------------aagg---cgttg--ctcgt------cgaa------
D. virilis cc---------------------------------aagg---cgtta--ctcgt------cgaa------
D_montana cc---------------------------------acac---cgatg--ctcag------cgag------
D_arizonae cc---------------------------------agaa---tattg--ctcgt------cgag------
D. mojavensis cc---------------------------------agga---tattg--ctcgt------cgag------
D_navojoa cc---------------------------------agga---tgttg--ctcgt------tgag------
D_hydei cc---------------------------------agga---tattg--ctcgt------cgag------
D_busckii ca---------------------------------agcg---cattg--ctgtt------ggag------
D. grimshawi cc---------------------------------agag---cattg--ctcgt------cgaa------
D_athabasca cg---------------------------------aggg---cctgg--ctggt------ggag------
D_pseudoobscura_1 cc---------------------------------aggg---cctgg--ctggt------ggag------
D. miranda cc---------------------------------aagg---cctgg--ctggt------ggag------
D. persimilis cc---------------------------------aggg---cctgg--ctggt------ggag------
D. pseudoobscura cc---------------------------------aggg---cctgg--ctggt------ggag------
D_subobscura cc---------------------------------aggg---cctgg--ctggt------ggag------
D_obscura cc---------------------------------aggg---cctgg--ctggt------ggag------
Zaprionus_indianus cg---------------------------------agag---cggca--ctggt------ggag------
D. albomicans cc---------------------------------agag---cattg--ctcgt------cgag------
Scaptodrosophila_lebanonensis cc---------------------------------aggg---cat--------t------cgac------
Phortica_variegata cg---------------------------------agga---ctcgagcgtatt------cgag------
D. willistoni cc---------------------------------aaag---cctgg--cttgt------tgaa------
Tephritis_californica ct---------------------------------gtga---catgt-----ga------cgaa------
Stomoxys_calcitrans ta---------------------------------gaga---cttgg--gtatt------ggattcatgt
Bactrocera_dorsalis ca---------------------------------gatg---tgacg--ccgccgactcgggca------
Bactrocera_latifrons ca---------------------------------tatg---cgccg--ccgtcgactcgggca------
Bactrocera_tryoni ca---------------------------------tatg---cgcgg--ccgtcgactcgggca------
Bactrocera_oleae ca---------------------------------tatgcgccgccg--ccgccgactcgggca------
Zeugodacus_cucurbitae ca---------------------------------tatg---tgccg--ccgtcgattcgggta------
Ceratitis_capitata ca---------------------------------tatg------cg--ccgtcgcatcggcta------
Cirrula_hians ca---------------------------------gcag--ccgtta--gcgtagcctcgagat------
Ephydra_gracilis cc---------------------------------gcgg--ctgtta--gcgtagcttccagat------
Glossina_austeni tg---------------------------------cagg---agctg--ccagaga----ggta------
Glossina_morsitans_1 tg---------------------------------tagg---agctg--ccagaga----ggta------
Glossina_morsitans_2 tg---------------------------------tagg---agctg--ccagaga----ggta------
Glossina_pallidipes tg---------------------------------tagg---agctg--ccagaga----ggta------
Glossina_fuscipes tg---------------------------------tggg---acctg--ccaggga----ggta------
Glossina_palpalis_gambiensis tg---------------------------------tggg---acctg--ccaggga----ggta------
Glossina_brevipalpis tg---------------------------------taga---agctg--ttaaaga----ggta------
Lucilia_cuprina tg---------------------------------agac---ggaag--gtagcga----tgag------
Lucilia_sericata cg---------------------------------aagc---cgaag--gtagcga----tgag------
Phormia_regina tg---------------------------------agtt---agctg--gtaaaga----tgaa------
Sarcophagidae_BV_2014 ------------------------------------------aggta--ttgtcgt----agaa------
Paykullia_maculata tg---------------------------------aaga---tgttg--gtataga----tgaa------
Teleopsis_dalmanni gc---------------------------------tagc---agttg--gtgt-----------------
Haematobia_irritans ta---------------------------------tgcc---cgctg--g-------------a------
M. domestica tg---------------------------------tggc---attgg--tctg-------aaca------
Rhagoletis_zephyria ct---------------------------------cggg---tacat--gtgat------g---------
Belgica_antarctica ----------------------------------------------------------------------
Themira_minor ag---------------------------------cggc---cgccg--cagccgcaataccca------
A_christyi tg---------------------------------ttag---tgctg--gtgct------ggta------
A_arabiensis gg---------------------------------aggt---cgtg------------------------
A_coluzzii gg---------------------------------aggt---cgtg------------------------
A_quadriannulatus cgccactatcctggctagccgcactgaccgtcccaaggc---agcc------------------------
A_merus cgccactatcctggctggccgcactgaccgtcccaaggc---agcc------------------------
A. gambiae gg---------------------------------aggt---cgtg------------------------
A_cracens gg---------------------------------agcg---agcag--cag------------------
A_dirus gg---------------------------------agcg---agcag--cag------------------
A_albimanus cc---------------------------------cact---cgctg--gtcgc------cggt------
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster ctggtg--
D. simulans ctggtg--
D. sechellia ctggtg--
D. erecta ctggtg--
D. yakuba ctggtg--
D. ficusphila ctggtc--
D. eugracilis ctggtc--
D. biarmipes ctggtc--
D. suzukii ctggtg--
D. takahashii ctggtg--
D. elegans ctggtg--
D. rhopaloa ctggtg--
D_serrata ctggtg--
D. kikkawai ctggtg--
D. ananassae ctggtg--
D. bipectinata ctggtg--
D_americana ctggtg--
D_novamexicana ctggtg--
D. virilis ctggtg--
D_montana --ggca--
D_arizonae ctggtg--
D. mojavensis ctggtg--
D_navojoa ctggtg--
D_hydei ctggtg--
D_busckii caggtg--
D. grimshawi ctggtg--
D_athabasca ctggtc--
D_pseudoobscura_1 ctggtc--
D. miranda ctggtc--
D. persimilis ctggtc--
D. pseudoobscura ctggtc--
D_subobscura ctggtc--
D_obscura ctggtc--
Zaprionus_indianus cccgtg--
D. albomicans ctggtc--
Scaptodrosophila_lebanonensis gtggtc--
Phortica_variegata gtcgag--
D. willistoni gtgata--
Tephritis_californica ctt-----
Stomoxys_calcitrans cccgtc--
Bactrocera_dorsalis tttgtg--
Bactrocera_latifrons tttgtg--
Bactrocera_tryoni tttgtg--
Bactrocera_oleae tttgtg--
Zeugodacus_cucurbitae tttgtg--
Ceratitis_capitata cttgag--
Cirrula_hians tatgcg--
Ephydra_gracilis tatgcg--
Glossina_austeni atcggg--
Glossina_morsitans_1 atcggg--
Glossina_morsitans_2 atcggg--
Glossina_pallidipes atcggg--
Glossina_fuscipes agcggg--
Glossina_palpalis_gambiensis agcggg--
Glossina_brevipalpis atcggc--
Lucilia_cuprina ctagag--
Lucilia_sericata ctagag--
Phormia_regina gt------
Sarcophagidae_BV_2014 tt------
Paykullia_maculata ctagaa--
Teleopsis_dalmanni --------
Haematobia_irritans ccattg--
M. domestica ttcga---
Rhagoletis_zephyria --------
Belgica_antarctica --------
Themira_minor ctgatg--
A_christyi ctggtg--
A_arabiensis --------
A_coluzzii --------
A_quadriannulatus --------
A_merus --------
A. gambiae --------
A_cracens --------
A_dirus --------
A_albimanus ttctggca
Proctacanthus_coquilletti ========
Lutzomyia_longipalpis ========
A_farauti ========
Phlebotomus_papatasi ========
Eutreta_diana ========
Culex_quinquefasciatus ========
T. castaneum ========
Inserts between block 27 and 28 in window
Bactrocera_dorsalis 8bp
Bactrocera_latifrons 8bp
Bactrocera_tryoni 8bp
Bactrocera_oleae 8bp
Zeugodacus_cucurbitae 8bp
Ceratitis_capitata 8bp
Cirrula_hians 5bp
Ephydra_gracilis 5bp
Glossina_austeni 18bp
Glossina_morsitans_1 18bp
Glossina_morsitans_2 18bp
Glossina_pallidipes 18bp
Glossina_fuscipes 18bp
Glossina_palpalis_gambiensis 18bp
Glossina_brevipalpis 18bp
Lucilia_cuprina 15bp
Lucilia_sericata 15bp
Phormia_regina 13bp
Sarcophagidae_BV_2014 13bp
Paykullia_maculata 15bp
Teleopsis_dalmanni 11bp
Haematobia_irritans 15bp
M. domestica 13bp
Rhagoletis_zephyria 5bp
Themira_minor 2bp
A_christyi 15bp
Alignment block 28 of 252 in window, 12083621 - 12083628, 8 bps
B D D. melanogaster gagttcag
D D. simulans gagttcag
B D D. sechellia gagttcag
D. erecta gagttcag
D. yakuba gagttcaa
D. ficusphila gagttgag
D. eugracilis gagttcaa
D. biarmipes gagttcag
D. suzukii gagttcag
D. takahashii gagttcag
D. elegans gagttcag
D. rhopaloa gagttcag
D_serrata gagttcag
D. kikkawai gagttcag
D. ananassae gagttgag
D. bipectinata gagttcag
D_americana gagttcag
D_novamexicana gagttcag
D. virilis gagttcag
D_montana gcgtcttg
D_arizonae gagttgag
D. mojavensis gagttgag
D_navojoa gagttgag
D_hydei gagttgag
D_busckii gaattgag
D. grimshawi gagttgag
D_athabasca gaattcaa
D_pseudoobscura_1 gaattcaa
D. miranda gaattcaa
B D D. persimilis gaattcaa
D. pseudoobscura gaattcaa
D_subobscura gaattcag
D_obscura gagttcaa
Zaprionus_indianus gagttaag
D. albomicans gagttgag
Scaptodrosophila_lebanonensis gaattgag
Phortica_variegata gaattcaa
D. willistoni gaattgag
Eutreta_diana gagttcaa
Tephritis_californica gagttcaa
Stomoxys_calcitrans gaattcaa
Bactrocera_dorsalis gagttcaa
Bactrocera_latifrons gagtttaa
Bactrocera_tryoni gagttcaa
Bactrocera_oleae gagtttag
Zeugodacus_cucurbitae gagttcaa
Ceratitis_capitata gagtttaa
Cirrula_hians gagttgag
Ephydra_gracilis gaattcag
Glossina_austeni gaatttaa
Glossina_morsitans_1 gaatttaa
Glossina_morsitans_2 gaatttaa
Glossina_pallidipes gaatttaa
Glossina_fuscipes gagtttaa
Glossina_palpalis_gambiensis gagtttaa
Glossina_brevipalpis gaatttaa
Lucilia_cuprina gagttaag
Lucilia_sericata gagttgag
Phormia_regina gaatttaa
Sarcophagidae_BV_2014 gagtttaa
Paykullia_maculata gagttgag
Teleopsis_dalmanni gagtcgac
Haematobia_irritans gagttcaa
M. domestica gaattcag
Rhagoletis_zephyria gagttcaa
Belgica_antarctica ----gcga
Themira_minor gaagccga
A_christyi ggtgttag
A_arabiensis --gtgtac
A_coluzzii --gtgtac
A_quadriannulatus --gtcggc
A_merus --gtcggc
B D A. gambiae --gtgtac
A_cracens gcactggt
A_dirus gcactggt
A_albimanus gtgggcaa
Proctacanthus_coquilletti ========
Lutzomyia_longipalpis ========
A_farauti ========
Phlebotomus_papatasi ========
Culex_quinquefasciatus ========
T. castaneum ========
Alignment block 29 of 252 in window, 12083629 - 12083652, 24 bps
B D D. melanogaster ---c----------------------------------------------ga-----gtcctc--cggcg
D D. simulans ---c----------------------------------------------ga-----gtcctc--cggcg
B D D. sechellia ---c----------------------------------------------ga-----gtcctc--cggcg
D. erecta ---c----------------------------------------------ga-----gtcctc--cggcg
D. yakuba ---c----------------------------------------------ga-----gtcctc--cggcg
D. ficusphila ---g----------------------------------------------ga-----gtcctc--cggcg
D. eugracilis ---c----------------------------------------------ga-----gtcctc--tgggg
D. biarmipes ---c----------------------------------------------ga-----gtcctc--cggcg
D. suzukii ---c----------------------------------------------ga-----gtcctc--cggcg
D. takahashii ---c----------------------------------------------ga-----gtcctc--cgggg
D. elegans ---c----------------------------------------------ga-----gtcctc--cggcg
D. rhopaloa ---c----------------------------------------------ga-----gtcctc--cggcg
D_serrata ---c----------------------------------------------ga-----gtcctc--cgggg
D. kikkawai ---c----------------------------------------------ga-----atcctc--cggcg
D. ananassae ---c----------------------------------------------ga-----atcctc--tggcg
D. bipectinata ---c----------------------------------------------ga-----atcctc--cggcg
D_americana ---t----------------------------------------------ga-----atcctc--cggcg
D_novamexicana ---t----------------------------------------------ga-----atcctc--cggcg
D. virilis ---t----------------------------------------------ga-----atcctc--cggcg
D_montana ---t----------------------------------------------cc-----agcaccagcagcg
D_arizonae ---t----------------------------------------------ga-----atcctc--cggcg
D. mojavensis ---t----------------------------------------------ga-----atcctc--cggcg
D_navojoa ---t----------------------------------------------ga-----gtcctc--cggcg
D_hydei ---t----------------------------------------------ga-----atcctc--cggcg
D_busckii ---c----------------------------------------------ga-----atcctc--gggtg
D. grimshawi ---c----------------------------------------------ga-----atcttc--cggcg
D_athabasca ---a----------------------------------------------ga-----gtcctc--cgggg
D_pseudoobscura_1 ---a----------------------------------------------ga-----gtcttc--cgggg
D. miranda ---a----------------------------------------------ga-----gtcttc--cgggg
B D D. persimilis ---a----------------------------------------------ga-----gtcttc--cgggg
D. pseudoobscura ---a----------------------------------------------ga-----gtcttc--cgggg
D_subobscura ---g----------------------------------------------ga-----gtcctc--cggcg
D_obscura ---a----------------------------------------------ga-----gtcctc--cggcg
Zaprionus_indianus ---c----------------------------------------------ga-----atcctc--gggcg
D. albomicans ---g----------------------------------------------ga-----atcctc--gggcg
Scaptodrosophila_lebanonensis ---a----------------------------------------------ga-----gtcctc--cggcg
Phortica_variegata ---c----------------------------------------------ga-----gtcctc--tggag
D. willistoni ---c----------------------------------------------ga-----gtcctc--cggcg
Eutreta_diana ---c----------------------------------------------ga-----atcttc--gggtg
Tephritis_californica ---t----------------------------------------------ga-----atcttc--gggcg
Stomoxys_calcitrans ---g----------------------------------------------ga-----atcttc--cggtg
Bactrocera_dorsalis ---c----------------------------------------------ga-----atcctc--cggcg
Bactrocera_latifrons ---c----------------------------------------------ga-----gtcctc--cggcg
Bactrocera_tryoni ---c----------------------------------------------ga-----atcctc--cggcg
Bactrocera_oleae ---c----------------------------------------------ga-----gtcctc--cggtg
Zeugodacus_cucurbitae ---c----------------------------------------------ga-----atcctc--cggcg
Ceratitis_capitata ---g----------------------------------------------ga-----gtcctc--tggcg
Cirrula_hians ---t----------------------------------------------ga-----atcttc--tggtg
Ephydra_gracilis ---t----------------------------------------------ga-----atcctc--tggcg
Glossina_austeni ---c----------------------------------------------ga-----actctc--tggtg
Glossina_morsitans_1 ---c----------------------------------------------ga-----actctc--tggtg
Glossina_morsitans_2 ---c----------------------------------------------ga-----actctc--tggtg
Glossina_pallidipes ---t----------------------------------------------ga-----actctc--tggtg
Glossina_fuscipes ---c----------------------------------------------ga-----actctc--tggtg
Glossina_palpalis_gambiensis ---c----------------------------------------------ga-----actctc--tggtg
Glossina_brevipalpis ---c----------------------------------------------ga-----actctc--tggtg
Lucilia_cuprina ---a----------------------------------------------ga-----atcctc--tggtg
Lucilia_sericata ---agaatcttcaggtgataannnnnnnnnnnnnnnnnnnnnnnnnnnnnga-----atcttc--aggtg
Phormia_regina ---g----------------------------------------------ga-----atcttc--tggtg
Sarcophagidae_BV_2014 ---t----------------------------------------------ga-----gtcttc--tggtg
Paykullia_maculata ---g----------------------------------------------ga-----atcctc--tggcg
Teleopsis_dalmanni ---a----------------------------------------------aattaagctcttc--aggtg
Haematobia_irritans ---a----------------------------------------------ga-----atcttc--aggtg
M. domestica ---g----------------------------------------------ga-----atcctc--agggg
Rhagoletis_zephyria ---c----------------------------------------------ga-----gtcctc--tggtg
Belgica_antarctica ---t----------------------------------------------ga-----gttcga--caacg
Themira_minor ---c----------------------------------------------gatgt--gtcttc--cggtg
A_christyi ---c----------------------------------------------tt-----ggtcgc--ggtcg
A_arabiensis ---g----------------------------------------------gt-----g--tgc--cggtg
A_coluzzii ---g----------------------------------------------gt-----g--tgc--cggtg
A_quadriannulatus ---a----------------------------------------------ga-----g-ctgc--tgacg
A_merus ---a----------------------------------------------ga-----g-ctgc--tgacg
B D A. gambiae ---g----------------------------------------------gt-----g--tgc--cggtg
A_cracens ---g----------------------------------------------ga-----cacctc--ctgcg
A_dirus ---g----------------------------------------------ga-----cacctc--ctgcg
A_atroparvus ---c----------------------------------------------ga-----gtcgtc--gggcg
A_albimanus cggc----------------------------------------------ag-----agctac--cggtg
Proctacanthus_coquilletti ======================================================================
Lutzomyia_longipalpis ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Culex_quinquefasciatus ======================================================================
T. castaneum ======================================================================
D. melanogaster aa--a-gtggcg----c
D. simulans aa--a-gtggcg----c
D. sechellia aa--a-gtggcg----c
D. erecta aa--a-gtggcg----c
D. yakuba ag--a-gtggcg----c
D. ficusphila ac--a-gggggg----c
D. eugracilis aa--a-gtgggg----c
D. biarmipes ag--a-gtggcg----c
D. suzukii ag--a-gtggcg----c
D. takahashii ag--a-gtgggg----c
D. elegans ag--a-gcgggg----c
D. rhopaloa aa--a-gtgggg----c
D_serrata ag--a-gcggtg----c
D. kikkawai ag--a-gcggtg----c
D. ananassae at--a-acgggg----c
D. bipectinata ac--a-gcggag----c
D_americana ag--a-gcggcg----c
D_novamexicana ag--a-gtggcg----c
D. virilis ag--a-gcggcg----c
D_montana at--g-gcggcg----a
D_arizonae ag--a-gcggcg----c
D. mojavensis aa--a-gcggcg----c
D_navojoa ag--a-gcggcg----c
D_hydei ag--a-gcggcg----c
D_busckii ag--a-gcggcg----c
D. grimshawi ag--a-gtggtg----c
D_athabasca ag--a-gtgggg----c
D_pseudoobscura_1 ag--a-gcgggg----c
D. miranda ag--a-gcgggg----c
D. persimilis ag--a-gcgggg----c
D. pseudoobscura ag--a-gcgggg----c
D_subobscura ag--a-gtggtg----c
D_obscura ag--a-gtgggg----c
Zaprionus_indianus ac--a-gtggcg----c
D. albomicans at--a-gtgggg----c
Scaptodrosophila_lebanonensis at--a-gcggcg----c
Phortica_variegata ag--a-gtgggg----c
D. willistoni at--a-ggggag----c
Eutreta_diana ag--a-gcggtg----c
Tephritis_californica ag--a-gcggtg----c
Stomoxys_calcitrans at--a-atggag----c
Bactrocera_dorsalis ag--a-gtggtg----c
Bactrocera_latifrons ag--a-gtggcg----c
Bactrocera_tryoni ag--a-gtggtg----c
Bactrocera_oleae ag--a-gtggtg----c
Zeugodacus_cucurbitae ag--a-gaggag----c
Ceratitis_capitata ag--a-tcggtg----c
Cirrula_hians ac--a-gcggcg----c
Ephydra_gracilis ag--a-gtggcg----c
Glossina_austeni aa--a-gagatg-c---
Glossina_morsitans_1 aa--a-gagatg-----
Glossina_morsitans_2 aa--a-gagatg-----
Glossina_pallidipes aa--a-gagatgc----
Glossina_fuscipes aa--a-ggggtg--c--
Glossina_palpalis_gambiensis aa--a-ggggtg--c--
Glossina_brevipalpis aa--a-gggttg---c-
Lucilia_cuprina at--a-agggag----c
Lucilia_sericata at--a-agggag----c
Phormia_regina at--a-aaggtg----c
Sarcophagidae_BV_2014 at--a-atggag----c
Paykullia_maculata ac--a-ggggaa----c
Teleopsis_dalmanni ag--a-gtggag----c
Haematobia_irritans at--a-gaggag----c
M. domestica at--a-atggag----c
Rhagoletis_zephyria ag--a-gtggtg----c
Belgica_antarctica ga--a-gttga------
Themira_minor ag--a-ggggag----c
A_christyi aggta-gtagt------
A_arabiensis gg--t-gtgagc----t
A_coluzzii gg--t-gttagc----t
A_quadriannulatus ga--g-gtagag----g
A_merus ga--g-gtggag----g
A. gambiae gg--t-gttagc----t
A_cracens c----------------
A_dirus c----------------
A_atroparvus ga--atattacg----c
A_albimanus c----------------
Proctacanthus_coquilletti =================
Lutzomyia_longipalpis =================
A_farauti =================
Phlebotomus_papatasi =================
Culex_quinquefasciatus =================
T. castaneum =================
Inserts between block 29 and 30 in window
Glossina_austeni 90bp
Glossina_morsitans_1 1bp
Glossina_morsitans_2 1bp
Glossina_pallidipes 105bp
A_arabiensis 13bp
A_coluzzii 13bp
A_quadriannulatus 13bp
A_merus 13bp
B D A. gambiae 13bp
A_atroparvus 5bp
Alignment block 30 of 252 in window, 12083653 - 12083661, 9 bps
B D D. melanogaster -----attgg--ggc--------g
D D. simulans -----attgg--ggc--------g
B D D. sechellia -----attgg--ggc--------g
D. erecta -----attgg--ggc--------g
D. yakuba -----attgg--ggc--------g
D. ficusphila -----attgg--gac--------g
D. eugracilis -----atttg--gac--------g
D. biarmipes -----attgg--gac--------g
D. suzukii -----attgg--gac--------g
D. takahashii -----attgg--gac--------g
D. elegans -----attgg--gac--------g
D. rhopaloa -----attgg--gac--------g
D_serrata -----attgg--ggc--------g
D. kikkawai -----attgg--ggc--------g
D. ananassae -----attcg--gcc--------t
D. bipectinata -----attgg--gtc--------t
D_americana -----attgg--gac--------g
D_novamexicana -----attgg--gac--------g
D. virilis -----attgg--gac--------g
D_montana -----cttgggtgac--------g
D_arizonae -----attgg--gcc--------g
D. mojavensis -----attgg--gcc--------g
D_navojoa -----attgg--gcc--------g
D_hydei -----attgg--gtc--------g
D_busckii -----attgg--gac--------g
D. grimshawi -----attgg--gac--------g
D_athabasca -----attcg--ggc--------g
D_pseudoobscura_1 -----gttcg--ggc--------g
D. miranda -----gttcg--ggc--------g
B D D. persimilis -----gttcg--ggc--------g
D. pseudoobscura -----gttcg--ggc--------g
D_subobscura -----attcg--ggc--------g
D_obscura -----attcg--ggc--------g
Zaprionus_indianus -----attgg--gac--------g
D. albomicans -----attgg--gac--------g
Scaptodrosophila_lebanonensis -----attgg--ggc--------g
Phortica_variegata -----agacg--gacgtaca---g
D. willistoni -----atttg--gcc--------g
Eutreta_diana -----attgg--gac--------g
Tephritis_californica -----cgtgg--gtc--------g
Stomoxys_calcitrans -----cgaag--gccttgcagctg
Bactrocera_dorsalis -----tgtgg--gtc---------
Bactrocera_latifrons -----tatgg--gtc---------
Bactrocera_tryoni -----tgtgg--gtc---------
Bactrocera_oleae -----tgtgg--gtc---------
Zeugodacus_cucurbitae -----tgtgg--gtc---------
Ceratitis_capitata -----gttgg--gac---------
Cirrula_hians -----tgtgg--gac---------
Ephydra_gracilis -----tgagg--gtc---------
Glossina_morsitans_1 -----tggcg--gcc---------
Glossina_morsitans_2 -----tggcg--gcc---------
Glossina_fuscipes -----tgggg--gcc---------
Glossina_palpalis_gambiensis -----tgggg--gcc---------
Glossina_brevipalpis -----cggag--gtc---------
Lucilia_cuprina -----tgaag--gtc---------
Lucilia_sericata -----tgagg--gtc---------
Phormia_regina -----tgaag--gtc---------
Sarcophagidae_BV_2014 -----tgatg--gcc---------
Paykullia_maculata -----tgaag--gtc---------
Teleopsis_dalmanni -----attcg--gac---------
Haematobia_irritans -----tgaag--gcc---------
M. domestica -----cgagg--gtc---------
Rhagoletis_zephyria -----tgtgg--gac--------g
Belgica_antarctica ------tggt--gac---------
A_christyi -----actgc--------------
A_arabiensis -----ggtgg--------------
A_coluzzii -----ggtgg--------------
A_quadriannulatus -----tgtgc--------------
A_merus -----tgtgc--------------
B D A. gambiae -----ggtgg--------------
A_cracens ---------g--acc--------g
A_dirus ---------g--acc--------g
A_atroparvus -----attgt--gtt--------a
A_albimanus gccacgatg---------------
Proctacanthus_coquilletti ========================
Lutzomyia_longipalpis ========================
A_farauti ========================
Phlebotomus_papatasi ========================
Themira_minor ------------------------
Culex_quinquefasciatus ========================
Glossina_pallidipes ========================
T. castaneum ========================
Glossina_austeni ========================
Inserts between block 30 and 31 in window
A_arabiensis 3bp
A_coluzzii 3bp
A_quadriannulatus 36bp
A_merus 18bp
B D A. gambiae 3bp
A_cracens 3bp
A_dirus 3bp
Alignment block 31 of 252 in window, 12083662 - 12083666, 5 bps
B D D. melanogaster cagtg-
D D. simulans cagtg-
B D D. sechellia cagtg-
D. erecta cagtg-
D. yakuba cagtg-
D. ficusphila cagtg-
D. eugracilis gagtg-
D. biarmipes cagcg-
D. suzukii cagtg-
D. takahashii cagcg-
D. elegans caggg-
D. rhopaloa cagcg-
D_serrata cagcg-
D. kikkawai cagcg-
D. ananassae aaggg-
D. bipectinata gaggg-
D_americana catgc-
D_novamexicana catgc-
D. virilis catgc-
D_montana c---c-
D_arizonae catgc-
D. mojavensis catgc-
D_navojoa catgc-
D_hydei catac-
D_busckii catgc-
D. grimshawi catgc-
D_athabasca caggc-
D_pseudoobscura_1 caggc-
D. miranda caggc-
B D D. persimilis caggc-
D. pseudoobscura caggc-
D_subobscura cagac-
D_obscura caggc-
Zaprionus_indianus catgc-
D. albomicans cagac-
Scaptodrosophila_lebanonensis cagcg-
Phortica_variegata caata-
D. willistoni cattg-
Eutreta_diana tgtag-
Tephritis_californica tgtag-
Stomoxys_calcitrans aagac-
Lutzomyia_longipalpis --agg-
Bactrocera_dorsalis --gtg-
Bactrocera_latifrons --gtg-
Bactrocera_tryoni --gtg-
Bactrocera_oleae --gtg-
Zeugodacus_cucurbitae --gtg-
Ceratitis_capitata --gcg-
Cirrula_hians --gtg-
Ephydra_gracilis --gcg-
Glossina_morsitans_1 --tag-
Glossina_morsitans_2 --tag-
Glossina_fuscipes --tag-
Glossina_palpalis_gambiensis --tag-
Glossina_brevipalpis --tag-
Lucilia_cuprina --tgg-
Lucilia_sericata --tgg-
Phormia_regina --ggg-
Sarcophagidae_BV_2014 --gtt-
Paykullia_maculata --gat-
Teleopsis_dalmanni --gtc-
Haematobia_irritans --tta-
M. domestica --taa-
Rhagoletis_zephyria -tgtg-
Belgica_antarctica cagtg-
A_christyi cggtg-
A_arabiensis ta----
A_coluzzii ta----
A_quadriannulatus ta----
A_merus t-----
B D A. gambiae ta----
A_cracens ta----
A_dirus ta----
A_atroparvus caacc-
A_albimanus cagccg
Proctacanthus_coquilletti ======
A_farauti ======
Phlebotomus_papatasi ======
Themira_minor ------
Culex_quinquefasciatus ======
Glossina_pallidipes ======
T. castaneum ======
Glossina_austeni ======
Inserts between block 31 and 32 in window
Lutzomyia_longipalpis 1bp
Bactrocera_dorsalis 51bp
Bactrocera_latifrons 51bp
Bactrocera_tryoni 51bp
Bactrocera_oleae 43bp
Zeugodacus_cucurbitae 51bp
Ceratitis_capitata 143bp
Cirrula_hians 26bp
Ephydra_gracilis 26bp
Glossina_morsitans_1 41bp
Glossina_morsitans_2 41bp
Glossina_fuscipes 41bp
Glossina_palpalis_gambiensis 41bp
Glossina_brevipalpis 34bp
Lucilia_cuprina 6bp
Lucilia_sericata 6bp
Phormia_regina 5bp
Sarcophagidae_BV_2014 5bp
Paykullia_maculata 6bp
Teleopsis_dalmanni 6bp
Haematobia_irritans 6bp
M. domestica 18bp
A_christyi 2bp
A_atroparvus 2bp
Alignment block 32 of 252 in window, 12083667 - 12083673, 7 bps
B D D. melanogaster cctgc--------at
D D. simulans cctgc--------at
B D D. sechellia cctgc--------at
D. erecta cctgc--------at
D. yakuba cctgc--------at
D. ficusphila cctgc--------at
D. eugracilis cctgc--------at
D. biarmipes cctgc--------at
D. suzukii cctgc--------at
D. takahashii cctgc--------at
D. elegans cctgc--------at
D. rhopaloa cctgc--------at
D_serrata tctgc--------at
D. kikkawai tctgc--------at
D. ananassae gctgc--------at
D. bipectinata gctgc--------at
D_americana tctgc--------at
D_novamexicana tctgc--------at
D. virilis tctgc--------at
D_montana tctgc--------gg
D_arizonae tctgc--------at
D. mojavensis tctgc--------at
D_navojoa tctgc--------at
D_hydei tctgc--------at
D_busckii tgtgc--------at
D. grimshawi tgggc--------at
D_athabasca tctgc--------at
D_pseudoobscura_1 tctgc--------at
D. miranda tctgc--------at
B D D. persimilis tctgc--------at
D. pseudoobscura tctgc--------at
D_subobscura tctgc--------at
D_obscura tctgc--------at
Zaprionus_indianus tgggc--------at
D. albomicans tg-------------
Scaptodrosophila_lebanonensis ta-------------
Phortica_variegata ccggc--------at
D. willistoni ttg------------
Eutreta_diana cgcca--------at
Tephritis_californica cgcca--------at
Stomoxys_calcitrans gttgt--------ac
Bactrocera_dorsalis tccag--------ct
Bactrocera_latifrons tccag--------ct
Bactrocera_tryoni tccag--------ct
Bactrocera_oleae tgatgcattccagct
Zeugodacus_cucurbitae tccag--------ct
Cirrula_hians gtttg--------ca
Ephydra_gracilis gcaag--------tg
Glossina_morsitans_1 ttggg--------at
Glossina_morsitans_2 ttggg--------at
Glossina_fuscipes ttggg--------at
Glossina_palpalis_gambiensis ttggg--------at
Lucilia_cuprina tatgg--------ct
Lucilia_sericata tgtgg--------ct
Paykullia_maculata catga--------ct
Teleopsis_dalmanni ataaa--------gt
Haematobia_irritans acgaa--------gt
M. domestica tttgg--------gt
Rhagoletis_zephyria gctgc--------ac
Belgica_antarctica cttg-----------
Themira_minor --tcc--------at
A_christyi ggtga--------a-
A_arabiensis ctggc--------gc
A_coluzzii ctggc--------gc
A_quadriannulatus ctggc--------gc
A_merus ----c--------gc
B D A. gambiae ctggc--------gc
A_cracens cccga--------ac
A_dirus cccgc--------ac
A_atroparvus cctat--------a-
A_albimanus cctcc--------at
Proctacanthus_coquilletti ===============
Lutzomyia_longipalpis ===============
Sarcophagidae_BV_2014 ===============
A_farauti ===============
Phlebotomus_papatasi ===============
Culex_quinquefasciatus ===============
Glossina_pallidipes ===============
Ceratitis_capitata ===============
Glossina_brevipalpis ===============
Phormia_regina ===============
T. castaneum ===============
Glossina_austeni ===============
Inserts between block 32 and 33 in window
Eutreta_diana 13bp
Tephritis_californica 1113bp
Stomoxys_calcitrans 10bp
Rhagoletis_zephyria 1bp
A_cracens 1bp
A_dirus 1bp
Alignment block 33 of 252 in window, 12083674 - 12083674, 1 bps
B D D. melanogaster g
D D. simulans g
B D D. sechellia g
D. erecta g
D. yakuba g
D. ficusphila g
D. eugracilis g
D. biarmipes g
D. suzukii g
D. takahashii g
D. elegans g
D. rhopaloa g
D_serrata g
D. kikkawai c
D. ananassae g
D. bipectinata g
D_americana g
D_novamexicana g
D. virilis g
D_montana a
D_arizonae g
D. mojavensis g
D_navojoa g
D_hydei g
D_busckii g
D. grimshawi g
D_athabasca c
D_pseudoobscura_1 c
D. miranda c
B D D. persimilis c
D. pseudoobscura c
D_subobscura c
D_obscura c
Zaprionus_indianus g
Phortica_variegata t
Eutreta_diana g
Stomoxys_calcitrans g
Bactrocera_dorsalis g
Bactrocera_latifrons g
Bactrocera_tryoni g
Bactrocera_oleae a
Zeugodacus_cucurbitae g
Cirrula_hians g
Ephydra_gracilis g
Glossina_morsitans_1 a
Glossina_morsitans_2 a
Glossina_fuscipes a
Glossina_palpalis_gambiensis a
Lucilia_cuprina g
Lucilia_sericata g
Paykullia_maculata t
Teleopsis_dalmanni t
Haematobia_irritans t
M. domestica t
A_christyi g
A_arabiensis c
A_coluzzii c
A_quadriannulatus c
A_merus g
B D A. gambiae c
A_atroparvus a
A_albimanus g
D. willistoni -
D. albomicans -
A_dirus =
A_cracens =
Proctacanthus_coquilletti =
Belgica_antarctica -
Lutzomyia_longipalpis =
Sarcophagidae_BV_2014 =
Rhagoletis_zephyria =
A_farauti =
Phlebotomus_papatasi =
Themira_minor -
Tephritis_californica =
Culex_quinquefasciatus =
Glossina_pallidipes =
Ceratitis_capitata =
Glossina_brevipalpis =
Phormia_regina =
Scaptodrosophila_lebanonensis -
T. castaneum =
Glossina_austeni =
Inserts between block 33 and 34 in window
Phortica_variegata 16bp
Alignment block 34 of 252 in window, 12083675 - 12083683, 9 bps
B D D. melanogaster g---------ag------------------c-----------------t------------ccat
D D. simulans g---------ag------------------c-----------------t------------ccat
B D D. sechellia g---------ag------------------c-----------------t------------ccat
D. erecta g---------ag------------------c-----------------t------------ccag
D. yakuba g---------ag------------------c-----------------t------------ccag
D. ficusphila g---------ag------------------c-----------------t------------ccac
D. eugracilis g---------ag------------------t-----------------t------------ccat
D. biarmipes g---------ag------------------c-----------------t------------ccat
D. suzukii g---------ag------------------c-----------------t------------ccat
D. takahashii g---------ag------------------c-----------------t------------ccaa
D. elegans g---------ag------------------c-----------------t------------ccag
D. rhopaloa g---------aa------------------c-----------------t------------ccat
D_serrata g---------ag------------------c-----------------t------------ccaa
D. kikkawai g---------ag------------------c-----------------t------------ccat
D. ananassae g---------aa------------------c-----------------t------------ccag
D. bipectinata g---------aa------------------c-----------------t------------ccag
D_americana c---------tg------------------g--------------cgct------------ccag
D_novamexicana c---------tg------------------g--------------cgct------------ccag
D. virilis c---------tg------------------g--------------cgct------------ccag
D_montana c---gtgacatc------------------g--------------tccg------------tcag
D_arizonae t---------tg------------------ccagtgt--------ttgt------------ccag
D. mojavensis t---------tg------------------ccagtgt--------ttgt------------ccag
D_navojoa t---------tg------------------ccagtgt--------ttgt------------ccag
D_hydei t---------tg------------------ccagtgt--------tcgt------------ccag
D_busckii c---------cg------------------c--------------tgct------------ccag
D. grimshawi c---------tggacatgctgctgctgttattgctgt--------tgct------------ccag
D_athabasca g---------ag------------------c-----------------t------------ccag
D_pseudoobscura_1 g---------ag------------------c-----------------t------------ccag
D. miranda g---------ag------------------c-----------------t------------ccag
B D D. persimilis g---------ag------------------c-----------------t------------ccag
D. pseudoobscura g---------ag------------------c-----------------t------------ccag
D_subobscura g---------ag------------------c-----------------t------------ccag
D_obscura g---------ag------------------c-----------------t------------ccag
Zaprionus_indianus gcgctggctccg------------------c-----------------t------------ccag
D_nasuta ------------------------------------g--------cgct------------ccag
D. albomicans ------------------------------------g--------cgct------------ccag
Scaptodrosophila_lebanonensis g---------ag------------------c-----------------t------------ccag
Phortica_variegata ------------------------------------g--------tatt------------ccaa
D. willistoni ------------------------------------------------t------------ccag
Eutreta_diana g---------ag------------------g-----------------t------------tcat
Stomoxys_calcitrans g---------aa------------------c-----------------t------------ctgc
Lutzomyia_longipalpis ---------------------------------------------actc------------catg
Bactrocera_dorsalis ---------------------------------------------ccgt------------aaag
Bactrocera_latifrons ---------------------------------------------ccgt------------atag
Bactrocera_tryoni ---------------------------------------------ccgt------------atag
Bactrocera_oleae ---------------------------------------------ccgt------------atag
Zeugodacus_cucurbitae ---------------------------------------------ccgt------------atag
Cirrula_hians ------------------------------------at-------ttgg------------ccag
Ephydra_gracilis ------------------------------------at-------ttgc------------ccag
Glossina_morsitans_1 ------------------------------------a--------atgc------------tttg
Glossina_morsitans_2 ------------------------------------a--------atgc------------tttg
Glossina_fuscipes ------------------------------------a--------atgc------------cttg
Glossina_palpalis_gambiensis ------------------------------------a--------atgc------------cttg
Lucilia_cuprina ------------------------------------g--------catt------------ccag
Lucilia_sericata ------------------------------------g--------catt------------ccag
Phormia_regina ------------------------------------g--------tatt------------ccaa
Sarcophagidae_BV_2014 ------------------------------------t--------tgct------------ccaa
Paykullia_maculata ------------------------------------g--------cgtt------------ccaa
Teleopsis_dalmanni ------------------------------------g--------tagc------------tgaa
Haematobia_irritans ------------------------------------g--------tagtctgcgaattctgccag
M. domestica ------------------------------------t--------gctg------------ccag
Rhagoletis_zephyria -----------------------------------------------gc------------cgag
Belgica_antarctica ---------------------------------------------------------ggcaccat
Themira_minor ------------------------------------------------t------------ccag
A_christyi -------------------------------------c-------tgtt------------ccac
A_arabiensis -------------------------------------ggtaaagctgtt------------ccac
A_coluzzii -------------------------------------ggtaaagctgtt------------ccac
A_quadriannulatus -------------------------------------ggtaaagctgtt------------ccac
A_merus -------------------------------------gacgaggttgtc------------gtac
B D A. gambiae -------------------------------------ggtaaagctgtt------------ccac
A_cracens ------------------------------------------gagcgcc------------tcac
A_dirus ------------------------------------------gagcgcc------------tcac
A_atroparvus --------------------------------------------gcgtc------------ccac
A_albimanus -------------------------------------------------------ttggcgccag
Proctacanthus_coquilletti =================================================================
A_farauti =================================================================
Phlebotomus_papatasi =================================================================
Tephritis_californica =================================================================
Culex_quinquefasciatus =================================================================
Glossina_pallidipes =================================================================
Ceratitis_capitata =================================================================
Glossina_brevipalpis =================================================================
T. castaneum =================================================================
Glossina_austeni =================================================================
Inserts between block 34 and 35 in window
Eutreta_diana 49bp
Rhagoletis_zephyria 11bp
A_cracens 7bp
A_dirus 7bp
Alignment block 35 of 252 in window, 12083684 - 12083694, 11 bps
B D D. melanogaster c-----c----------gcc---gtaca---a
D D. simulans c-----c----------gcc---gtaca---a
B D D. sechellia c-----c----------gcc---gtaca---a
D. erecta c-----c----------gcc---gtaca---a
D. yakuba c-----c----------gcc---gtaca---a
D. ficusphila c-----c----------gcc---gtaca---a
D. eugracilis c-----c----------acc---gtata---a
D. biarmipes c-----c----------gcc---ataca---g
D. suzukii c-----c----------gcc---gtaca---g
D. takahashii c-----c----------tcc---ataca---a
D. elegans c-----c----------gcc---gtaca---a
D. rhopaloa c-----c----------ccc---gtaca---a
D_serrata c-----c----------gcc---atata---g
D. kikkawai c-----c----------acc---gtata---g
D. ananassae c-----c----------gcc---gtaga---g
D. bipectinata c-----c----------gcc---gtaga---g
D_americana c-----t----------gct---gtaga---g
D_novamexicana c-----t----------gtt---gtaga---g
D. virilis c-----t----------gct---gtaga---g
D_montana t-----tg---------gcc---ggaga---g
D_arizonae c-----t----------gct---ataga---g
D. mojavensis c-----t----------gct---ataga---g
D_navojoa c-----t----------gct---gtaga---g
D_hydei c-----t----------gct---gtaca---g
D_busckii t-----t----------gtt---ataca---g
D. grimshawi c-----t----------gct---ataga---g
D_athabasca c-----t----------gct---gtaaa---g
D_pseudoobscura_1 c-----t----------gct---gtaga---g
D. miranda c-----t----------gct---gtaga---g
B D D. persimilis c-----t----------gct---gtaga---g
D. pseudoobscura c-----t----------gct---gtaga---g
D_subobscura c-----t----------gct---gtaga---g
D_obscura c-----t----------gct---gtaga---g
Zaprionus_indianus c-----t----------gct---gtagaactg
D_nasuta t-----t----------ggt---gtaga---g
D. albomicans t-----t----------ggt---gtaga---g
Scaptodrosophila_lebanonensis c-----t----------gct---gtaga---g
Phortica_variegata g-----t----------gtt---gtagt---c
D. willistoni c-----t----------gct---ataca---g
Stomoxys_calcitrans -------cagtg-----gtt---ata------
Lutzomyia_longipalpis g-----t----------gat---ctgta---g
Bactrocera_dorsalis c-----t----------gtt---gcatt---t
Bactrocera_latifrons ct--gtt----------gc------att---t
Bactrocera_tryoni c-----t----------gtt---gcatt---t
Bactrocera_oleae t-----t----------gtt---gcatt---t
Zeugodacus_cucurbitae t-----t----------gtt---gcatt---t
Cirrula_hians c-----t----------attttggtagt---t
Ephydra_gracilis t-----t----------attttggtagc---t
Glossina_morsitans_1 c-----t----------gtt---gtata---t
Glossina_morsitans_2 c-----t----------gtt---gtata---t
Glossina_fuscipes c-----t----------gtt---gtata---t
Glossina_palpalis_gambiensis c-----t----------gtt---gtata---t
Lucilia_cuprina t-----t----------gtt---gtaga---g
Lucilia_sericata t-----t----------gtt---gtaga---g
Phormia_regina t-----t----------gtt---ataga---g
Sarcophagidae_BV_2014 t-----t----------gtt---atagt---t
Paykullia_maculata t-----t----------ttc---atata---c
Teleopsis_dalmanni t-----t-----------------tata---t
Haematobia_irritans t-----g----------act---ataat---t
M. domestica c-----t----------gtt---gtaat---g
Rhagoletis_zephyria ------------------tc---gaaga---c
Belgica_antarctica ----------gg-----gct---gtag-----
Themira_minor -----gc----------gga---gtaca---c
A_christyi -tcgaac----------gtc---aaa------
A_arabiensis ---------tcgaac--gtc---aaa------
A_coluzzii ---------tcgaac--gtc---aaa------
A_quadriannulatus ---------tcgaac--gtc---aaa------
A_merus ---------tggcgccggta---aag------
B D A. gambiae ---------tcgaac--gtc---aaa------
A_cracens ------c----------ggc---gcgta---c
A_dirus ------c----------ggc---gcgta---g
A_atroparvus -----tc----------gct---g--------
A_albimanus c-----c----------gcc---gagta---g
Proctacanthus_coquilletti ================================
A_farauti ================================
Phlebotomus_papatasi ================================
Tephritis_californica ================================
Eutreta_diana ================================
Culex_quinquefasciatus ================================
Glossina_pallidipes ================================
Ceratitis_capitata ================================
Glossina_brevipalpis ================================
T. castaneum ================================
Glossina_austeni ================================
Inserts between block 35 and 36 in window
D_americana 27bp
D_novamexicana 24bp
D. virilis 33bp
Phortica_variegata 3bp
Rhagoletis_zephyria 2bp
A_cracens 2bp
A_dirus 2bp
Alignment block 36 of 252 in window, 12083695 - 12083724, 30 bps
B D D. melanogaster ctgc---gactga-------------------------------------ctg---gcc-----------
D D. simulans ctgc---gactga-------------------------------------ctg---gcc-----------
B D D. sechellia ctgc---gactga-------------------------------------ctg---gcc-----------
D. erecta ctgg---gactga-------------------------------------ctg---gcc-----------
D. yakuba ctgc---gactga-------------------------------------ctg---gcc-----------
D. ficusphila ctgc---gactgg-------------------------------------ctg---gcc-----------
D. eugracilis ctga---gattga-------------------------------------ccg---gca-----------
D. biarmipes ctgc---gactga-------------------------------------ctg---gcc-----------
D. suzukii ctgc---gactga-------------------------------------ctg---gcg-----------
D. takahashii ctgaccggactga-------------------------------------ctg---gcc-----------
D. elegans ctgc---gactga-------------------------------------ctg---gccgcagccgct--
D. rhopaloa ctgc---gactga-------------------------------------ctg---gcc-----------
D_serrata ctga---gattga-------------------------------------ctggctgcc-----------
D. kikkawai ctgg---gattgg-------------------------------------ctggctgcc-----------
D. ananassae ctgc---gacggg-------------------------------------ttg---gcc-----------
D. bipectinata ctgc---gactga-------------------------------------ttg---gcc-----------
D_americana ctgc---ggcagttg-------------------------------------------------------
D_novamexicana ctgc---ggcagttg-------------------------------------------------------
D. virilis ctgc---ggcagttggacgc------------------tg----gcagcgacg---gca-----------
D_montana cgac---ggcagcag-------------------------------------------------------
D_arizonae ctgt---ggctggatgccattggccacgctggccacactg----gccgcactg---gcc-----------
D. mojavensis ctgt---ggctgaatgccat---------tggccgcactg----gccacactg---gcc-----------
D_navojoa ctgc---ggctggatgccattggccacgctggccacactg----gccgcactg---gcc-----------
D_hydei ctgc---ggctgcacagcac----------------------------cactg---gat-----------
D. grimshawi ttgc---gcctgctgagcat--------------------------------------------------
D_athabasca ctgt---ggttgc-------------------------------cccgcagct---gcg-----------
D_pseudoobscura_1 ctga---ggctgt-------------------------------ccagcagct---gcg-----------
D. miranda ctga---ggctgt-------------------------------cccgcagct---gcg-----------
B D D. persimilis ctga---ggctgt-------------------------------ccagcagct---gcg-----------
D. pseudoobscura ctga---ggctgt-------------------------------ccagcagct---gcg-----------
D_subobscura ctga---ggctga-------------------------------gctgcagctgccgcg-----------
D_obscura ctga---ggctga-------------------------------gccgcagct---gcg-----------
Zaprionus_indianus ctgt---ggttgc--------------------------g----cctgtgcct---gcgattgagattgc
D_nasuta ctgc---gactgc---------------------------------------------------------
D. albomicans ctgt---gactgc---------------------------------------------------------
Scaptodrosophila_lebanonensis ctgt---ggttgg-------------------------------------------gcg-----------
Phortica_variegata ctga---tgctga-------------------------------------------gca-----------
D. willistoni ttgc---ggctgt-------------------------tgttgagtaacaacc---gcc-----------
Stomoxys_calcitrans ----------------------------------------------------------------------
Lutzomyia_longipalpis ----------------------------------------------------------------------
Bactrocera_dorsalis ----------------------------------------------------------------------
Bactrocera_latifrons ----------------------------------------------------------------------
Bactrocera_tryoni ----------------------------------------------------------------------
Bactrocera_oleae ----------------------------------------------------------------------
Zeugodacus_cucurbitae ----------------------------------------------------------------------
Cirrula_hians ----------------------------------------------------------------------
Ephydra_gracilis ----------------------------------------------------------------------
Glossina_morsitans_1 ----------------------------------------------------------------------
Glossina_morsitans_2 ----------------------------------------------------------------------
Glossina_fuscipes ----------------------------------------------------------------------
Glossina_palpalis_gambiensis ----------------------------------------------------------------------
Glossina_brevipalpis ----------------------------------------------------------------------
Lucilia_cuprina ----------------------------------------------------------------------
Lucilia_sericata ----------------------------------------------------------------------
Phormia_regina ----------------------------------------------------------------------
Sarcophagidae_BV_2014 ----------------------------------------------------------------------
Paykullia_maculata ----------------------------------------------------------------------
Teleopsis_dalmanni ----------------------------------------------------------------------
Haematobia_irritans ----------------------------------------------------------------------
M. domestica ----------------------------------------------------------------------
Rhagoletis_zephyria ----------------------------------------------------------------------
Belgica_antarctica -------------------------------------------------------------------ttg
Themira_minor -----------------------------------------------------------------ttgtt
A_christyi ----------------------------------------------------------------------
A_arabiensis ----------------------------------------------------------------------
A_coluzzii ----------------------------------------------------------------------
A_quadriannulatus ----------------------------------------------------------------------
A_merus ----------------------------------------------------------------------
B D A. gambiae ----------------------------------------------------------------------
A_cracens ---------------------------------------------------------------cggtgtt
A_dirus ---------------------------------------------------------------cggtgtt
A_atroparvus --------------------------------------------------------------------gc
A_albimanus ----------------------------------------------------------------------
D_busckii ----------------------------------------------------------------------
Proctacanthus_coquilletti ======================================================================
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
Eutreta_diana ======================================================================
Culex_quinquefasciatus ======================================================================
Glossina_pallidipes ======================================================================
Ceratitis_capitata ======================================================================
T. castaneum ======================================================================
Glossina_austeni ======================================================================
D. melanogaster ------gcgatcaggtccac
D. simulans ------gcgattaggtcgac
D. sechellia ------gcgatcaagtcgac
D. erecta ------gctaccaggtccac
D. yakuba ------gcgaccaggtccac
D. ficusphila ------gccaccaggtcgac
D. eugracilis ------gcgaccaggtcgac
D. biarmipes ------gccaccagatctgc
D. suzukii ------gccagcaggtccgc
D. takahashii ------gccaccaggtccac
D. elegans gctgctgccaccagatccac
D. rhopaloa ------gccactagatccgc
D_serrata ------gccacgagatctgc
D. kikkawai ------gccacgagatcagc
D. ananassae ---------accaaatcggc
D. bipectinata ---------accaaatcggc
D_americana --------------------
D_novamexicana ---------gacact-----
D. virilis gcagcagcggccaattcggc
D_montana ----cagcggccaattcggc
D_arizonae gcactggccgccagctccgc
D. mojavensis gcactggccgccagctccgc
D_navojoa acgctggccgccagatccgc
D_hydei acgctggccgctagctccgc
D. grimshawi ----------------tcgt
D_athabasca gcggcggccaccagatcggc
D_pseudoobscura_1 gcggcggctaccagatcagc
D. miranda gcggcggccaccagatcagc
D. persimilis gcggcggctaccagatcagc
D. pseudoobscura gcggcggctaccagatcagc
D_subobscura gcggcggccaccagctcggc
D_obscura gcggcggccaccagatcagc
Zaprionus_indianus acggcagctgcaagctcggc
D_nasuta gattgggccaccagatcagc
D. albomicans gattgggccaccagatcagc
Scaptodrosophila_lebanonensis ------gccacaagatcagc
Phortica_variegata ------gagatcatggttgg
D. willistoni gaagctgacaccaaatcggc
Stomoxys_calcitrans gtgatggtgttgatgttgag
Lutzomyia_longipalpis ------------------gc
Bactrocera_dorsalis ------------------gc
Bactrocera_latifrons ------------------gc
Bactrocera_tryoni ------------------gt
Bactrocera_oleae ------------------gt
Zeugodacus_cucurbitae ------------------gt
Cirrula_hians ------------------gc
Ephydra_gracilis ------------------ac
Glossina_morsitans_1 ------------------ga
Glossina_morsitans_2 ------------------ga
Glossina_fuscipes ------------------ga
Glossina_palpalis_gambiensis ------------------ga
Glossina_brevipalpis -------------------a
Lucilia_cuprina ------------------tt
Lucilia_sericata ------------------tt
Phormia_regina ------------------tt
Sarcophagidae_BV_2014 ------------------at
Paykullia_maculata ------------------tt
Teleopsis_dalmanni ------------------tt
Haematobia_irritans ------------------at
M. domestica ------------------at
Rhagoletis_zephyria ----atgttgttgtgtcatt
Belgica_antarctica ttgttgttcgtaagaactgc
Themira_minor gttgttgctgctgttgctgc
A_christyi -------ctgctggaccggc
A_arabiensis -------ctgctcgaccggc
A_coluzzii -------ctgctcgaccggc
A_quadriannulatus -------ctgctcgaccggc
A_merus -------ctgttccac----
A. gambiae -------ctgctcgaccggc
A_cracens ccggacggtgtgagcttcgc
A_dirus ccggacggtgtgagcttcgc
A_atroparvus ggacttgctgtgcgaaatgc
A_albimanus ccaccggcggcgacggccgc
D_busckii --------------------
Proctacanthus_coquilletti ====================
A_farauti ====================
Phlebotomus_papatasi ====================
Tephritis_californica ====================
Eutreta_diana ====================
Culex_quinquefasciatus ====================
Glossina_pallidipes ====================
Ceratitis_capitata ====================
T. castaneum ====================
Glossina_austeni ====================
Inserts between block 36 and 37 in window
Stomoxys_calcitrans 10bp
Lutzomyia_longipalpis 36bp
Bactrocera_dorsalis 5bp
Bactrocera_latifrons 5bp
Bactrocera_tryoni 5bp
Bactrocera_oleae 5bp
Zeugodacus_cucurbitae 5bp
Cirrula_hians 5bp
Ephydra_gracilis 5bp
Glossina_morsitans_1 8bp
Glossina_morsitans_2 8bp
Glossina_fuscipes 8bp
Glossina_palpalis_gambiensis 8bp
Glossina_brevipalpis 1bp
Lucilia_cuprina 19bp
Lucilia_sericata 19bp
Phormia_regina 31bp
Sarcophagidae_BV_2014 31bp
Paykullia_maculata 19bp
Teleopsis_dalmanni 41bp
Haematobia_irritans 31bp
M. domestica 25bp
Rhagoletis_zephyria 33bp
A_christyi 20bp
A_arabiensis 25bp
A_coluzzii 25bp
A_quadriannulatus 25bp
A_merus 7bp
B D A. gambiae 25bp
A_atroparvus 8bp
Alignment block 37 of 252 in window, 12083725 - 12083727, 3 bps
B D D. melanogaster cga
D D. simulans cga
B D D. sechellia cga
D. erecta cga
D. yakuba cga
D. ficusphila ggt
D. eugracilis tgc
D. biarmipes cga
D. suzukii cga
D. takahashii cga
D. elegans cgt
D. rhopaloa cgt
D_serrata ggt
D. kikkawai ggt
D. ananassae ggt
D. bipectinata ggt
D_novamexicana ggc
D. virilis ggc
D_montana ggc
D_arizonae agc
D. mojavensis agc
D_navojoa agc
D_hydei cgc
D. grimshawi cgt
D_athabasca ggc
D_pseudoobscura_1 ggc
D. miranda ggc
B D D. persimilis ggc
D. pseudoobscura ggc
D_subobscura agc
D_obscura ggc
Zaprionus_indianus tgc
D_nasuta tgt
D. albomicans tgt
Scaptodrosophila_lebanonensis tgc
Phortica_variegata tga
D. willistoni tgc
Eutreta_diana tgg
Stomoxys_calcitrans tgg
Rhagoletis_zephyria tgc
Belgica_antarctica cg-
Themira_minor tga
A_christyi tg-
A_arabiensis -aa
A_coluzzii -aa
A_quadriannulatus -aa
B D A. gambiae -aa
A_cracens gga
A_dirus gga
A_atroparvus cgc
A_albimanus agc
D_busckii ---
A_merus ===
Proctacanthus_coquilletti ===
Bactrocera_tryoni ===
Lutzomyia_longipalpis ===
Sarcophagidae_BV_2014 ===
A_farauti ===
Phlebotomus_papatasi ===
Haematobia_irritans ===
Tephritis_californica ===
Bactrocera_oleae ===
Culex_quinquefasciatus ===
Glossina_pallidipes ===
Glossina_morsitans_2 ===
Glossina_morsitans_1 ===
Glossina_palpalis_gambiensis ===
Ceratitis_capitata ===
Cirrula_hians ===
Lucilia_cuprina ===
Glossina_brevipalpis ===
Bactrocera_latifrons ===
Bactrocera_dorsalis ===
Phormia_regina ===
Lucilia_sericata ===
Zeugodacus_cucurbitae ===
D_americana ---
M. domestica ===
Teleopsis_dalmanni ===
T. castaneum ===
Ephydra_gracilis ===
Paykullia_maculata ===
Glossina_fuscipes ===
Glossina_austeni ===
Inserts between block 37 and 38 in window
Rhagoletis_zephyria 5bp
A_arabiensis 1bp
A_coluzzii 1bp
A_quadriannulatus 1bp
B D A. gambiae 1bp
A_cracens 3bp
A_dirus 3bp
Alignment block 38 of 252 in window, 12083728 - 12083736, 9 bps
B D D. melanogaster t---------------------------------tccacttt
D D. simulans t---------------------------------tccacttt
B D D. sechellia t---------------------------------tccacttt
D. erecta t---------------------------------tccacctt
D. yakuba t---------------------------------tccacctt
D. ficusphila c---------------------------------tccacctt
D. eugracilis t---------------------------------tcgacctt
D. biarmipes c---------------------------------tccacctt
D. suzukii t---------------------------------tccacctt
D. takahashii t---------------------------------tccacctt
D. elegans t---------------------------------tccacctt
D. rhopaloa t---------------------------------tccacctt
D_serrata c---------------------------------tccacctt
D. kikkawai c---------------------------------tccacttt
D. ananassae c---------------------------------tccacttt
D. bipectinata c---------------------------------tccacttt
D_novamexicana cgcgacggcagcagcagcggccaattcggcggcctccacctt
D. virilis c---------------------------------tccacctt
D_montana c---------------------------------tccacctt
D_arizonae c---------------------------------tccacttt
D. mojavensis c---------------------------------tccacttt
D_navojoa c---------------------------------tccacttt
D_hydei c---------------------------------tccacttt
D_busckii c---------------------------------tccacctt
D. grimshawi c---------------------------------tccacttt
D_athabasca c---------------------------------cccacttt
D_pseudoobscura_1 c---------------------------------tccacttt
D. miranda c---------------------------------tccacttt
B D D. persimilis c---------------------------------tccacttt
D. pseudoobscura c---------------------------------tccacttt
D_subobscura c---------------------------------tccacttt
D_obscura c---------------------------------tccacttt
Zaprionus_indianus t---------------------------------tccacttt
D_nasuta c---------------------------------tccacttt
D. albomicans c---------------------------------tccacttt
Scaptodrosophila_lebanonensis c---------------------------------tccacttt
Phortica_variegata c---------------------------------tccgcctt
D. willistoni t---------------------------------tccacttt
Eutreta_diana c---------------------------------tctgattt
Stomoxys_calcitrans t---------------------------------tccgattt
Lutzomyia_longipalpis t---------------------------------tccaaggc
Bactrocera_dorsalis t---------------------------------tctgtctt
Bactrocera_latifrons t---------------------------------tctgtttt
Bactrocera_tryoni t---------------------------------tctgtctt
Bactrocera_oleae t---------------------------------tctgtctt
Zeugodacus_cucurbitae t---------------------------------tctgtctt
Cirrula_hians t---------------------------------tggtgttc
Ephydra_gracilis t---------------------------------ttctgtta
Glossina_austeni t---------------------------------tccgtttt
Glossina_morsitans_1 t---------------------------------tccgtttt
Glossina_morsitans_2 t---------------------------------tccgtttt
Glossina_fuscipes t---------------------------------tccgtttt
Glossina_palpalis_gambiensis t---------------------------------tccgtttt
Glossina_brevipalpis ----------------------------------tccagttt
Lucilia_cuprina t---------------------------------tctgattt
Lucilia_sericata t---------------------------------tctgattt
Phormia_regina t---------------------------------tccgattt
Sarcophagidae_BV_2014 t---------------------------------tctgattt
Paykullia_maculata t---------------------------------tctgattt
Teleopsis_dalmanni t---------------------------------tcggactt
Haematobia_irritans t---------------------------------tccgattt
M. domestica t---------------------------------tccgattt
Rhagoletis_zephyria c---------------------------------tctgcctt
Belgica_antarctica ------------------------------------cgtt--
Themira_minor t---------------------------------gttgttgt
A_christyi ---------------------------------atcgaagtt
A_arabiensis ---------------------------------gttgaggtt
A_coluzzii ---------------------------------gttgaggtt
A_quadriannulatus ---------------------------------gttgaggtt
A_merus -----------------------------------------t
B D A. gambiae ---------------------------------gttgaggtt
A_cracens ---------------------------------gttggcggt
A_dirus ---------------------------------gttggcggt
A_atroparvus t---------------------------------gccact--
A_albimanus ---------------------------------gtacgatt-
Proctacanthus_coquilletti ==========================================
A_farauti ==========================================
Phlebotomus_papatasi ==========================================
Tephritis_californica ==========================================
Culex_quinquefasciatus ==========================================
Glossina_pallidipes ==========================================
Ceratitis_capitata ==========================================
D_americana ------------------------------------------
T. castaneum ==========================================
Inserts between block 38 and 39 in window
Lutzomyia_longipalpis 5bp
Glossina_brevipalpis 108bp
Belgica_antarctica 4bp
A_arabiensis 1bp
A_coluzzii 1bp
A_quadriannulatus 1bp
A_merus 1bp
B D A. gambiae 1bp
A_cracens 14bp
A_dirus 14bp
Alignment block 39 of 252 in window, 12083737 - 12083750, 14 bps
B D D. melanogaster cagg---gcagccgata
D D. simulans cagg---gcagccgata
B D D. sechellia cagg---gcagccgata
D. erecta cagg---gcagacgata
D. yakuba cagg---gcggccgata
D. ficusphila caga---cccgccgaca
D. eugracilis cagg---gcagccgaaa
D. biarmipes gagg---gcagccgata
D. suzukii cagg---gcagccgata
D. takahashii caaa---gcagccgata
D. elegans gaggtcaccggccgata
D. rhopaloa cagg---cctgcggaca
D_serrata caga---gcggccgaca
D. kikkawai caga---gcggatgaca
D. ananassae aagg---gcagccgaga
D. bipectinata cagg---gcagccgaga
D_novamexicana gagc---gcggcgctaa
D. virilis gagc---gcggcgctaa
D_montana gagc---gcggcgctaa
D_arizonae gagg---gctgacgaca
D. mojavensis gagg---gctgacgata
D_navojoa gagg---cctgacgaca
D_hydei gagt---gctgccgtca
D_busckii gagt---gcagcggaca
D. grimshawi ---------------ca
D_athabasca ttgg---gcggccggca
D_pseudoobscura_1 cagt---gcggccgaca
D. miranda cagg---gcggccgaca
B D D. persimilis cagt---gcggccgaca
D. pseudoobscura cagt---gcggccgaca
D_subobscura gagc---gctgccgaca
D_obscura aagg---gcggccgaca
Zaprionus_indianus aagc---accgcgttaa
D_nasuta gaga---gcagccgaga
D. albomicans gaga---gcagccgaga
Scaptodrosophila_lebanonensis taag---gcagccgaca
Phortica_variegata tagg---acaacagaaa
D. willistoni taaa---tcagcagaga
Eutreta_diana gagt---gtactttgta
Stomoxys_calcitrans cagg---gctgcctgta
Lutzomyia_longipalpis gaga---gaatgt----
Bactrocera_dorsalis caag---gcaccttgca
Bactrocera_latifrons caag---gcactttgca
Bactrocera_tryoni caag---gca-tttgca
Bactrocera_oleae caaa---gcactttgca
Zeugodacus_cucurbitae caac---gcactttgca
Cirrula_hians gcgt---ggacggttgg
Ephydra_gracilis gagt---gtgcgcttgg
Glossina_austeni --aa---gtat------
Glossina_morsitans_1 --aa---gtat------
Glossina_morsitans_2 --aa---gtat------
Glossina_fuscipes --aa---gtat------
Glossina_palpalis_gambiensis --aa---gtat------
Lucilia_cuprina aagg---gcagcttgta
Lucilia_sericata aagg---gcagcttgta
Phormia_regina aagg---gcagcttgta
Sarcophagidae_BV_2014 aagg---gcagcctgta
Paykullia_maculata aaga---gcaacttgta
Teleopsis_dalmanni cagt---gcagcgtgta
Haematobia_irritans aaga---gcagcttgta
M. domestica caag---gcagcttgca
Rhagoletis_zephyria taat---gtgccttgta
Belgica_antarctica gaag---gtgaag----
Themira_minor tgat---ggtgctgatg
A_christyi gagg---ttaaggaaca
A_arabiensis agga---acaggtt---
A_coluzzii agga---acaggtt---
A_quadriannulatus agaa---acagatt---
A_merus a--a---actgctc---
B D A. gambiae agga---acaggtt---
A_cracens cggt---gaa-------
A_dirus cggt---gaa-------
A_atroparvus ---g---ggagttgg--
A_albimanus --gg---gcggcactg-
Proctacanthus_coquilletti =================
A_farauti =================
Phlebotomus_papatasi =================
Tephritis_californica =================
Culex_quinquefasciatus =================
Glossina_pallidipes =================
Ceratitis_capitata =================
Glossina_brevipalpis =================
D_americana -----------------
T. castaneum =================
Inserts between block 39 and 40 in window
D_athabasca 146bp
Phortica_variegata 6bp
Themira_minor 4bp
Alignment block 40 of 252 in window, 12083751 - 12083751, 1 bps
B D D. melanogaster g
D D. simulans g
B D D. sechellia g
D. erecta g
D. yakuba g
D. ficusphila g
D. eugracilis g
D. biarmipes g
D. suzukii g
D. takahashii g
D. elegans g
D. rhopaloa g
D_serrata a
D. kikkawai a
D. ananassae g
D. bipectinata g
D_novamexicana g
D. virilis g
D_montana g
D_arizonae g
D. mojavensis g
D_navojoa g
D_hydei g
D_busckii g
D. grimshawi g
D_athabasca g
D_pseudoobscura_1 g
D. miranda g
B D D. persimilis g
D. pseudoobscura g
D_subobscura g
D_obscura g
Zaprionus_indianus g
D_nasuta g
D. albomicans g
Scaptodrosophila_lebanonensis a
Phortica_variegata c
D. willistoni g
Eutreta_diana g
Stomoxys_calcitrans g
Bactrocera_dorsalis a
Bactrocera_latifrons a
Bactrocera_tryoni a
Bactrocera_oleae a
Zeugodacus_cucurbitae a
Cirrula_hians a
Ephydra_gracilis a
Lucilia_cuprina a
Lucilia_sericata a
Phormia_regina a
Sarcophagidae_BV_2014 a
Paykullia_maculata a
Teleopsis_dalmanni t
Haematobia_irritans a
M. domestica a
Rhagoletis_zephyria a
Belgica_antarctica a
Themira_minor g
A_christyi g
A_arabiensis g
A_coluzzii g
A_quadriannulatus g
A_merus g
B D A. gambiae g
A_cracens g
A_dirus g
A_albimanus a
A_atroparvus -
Proctacanthus_coquilletti =
Lutzomyia_longipalpis -
A_farauti =
Phlebotomus_papatasi =
Tephritis_californica =
Culex_quinquefasciatus =
Glossina_pallidipes =
Glossina_morsitans_2 -
Glossina_morsitans_1 -
Glossina_palpalis_gambiensis -
Ceratitis_capitata =
Glossina_brevipalpis =
D_americana -
T. castaneum =
Glossina_fuscipes -
Glossina_austeni -
Inserts between block 40 and 41 in window
A_cracens 3bp
A_dirus 3bp
Alignment block 41 of 252 in window, 12083752 - 12083765, 14 bps
B D D. melanogaster ctcctc----acttcc--------ag------
D D. simulans atcctc----acttcc--------ag------
B D D. sechellia ctcctc----acttcc--------ag------
D. erecta ctcctc----acttcc--------ag------
D. yakuba ctcctc----acttcc--------ag------
D. ficusphila ctcctc----acttcc--------ag------
D. eugracilis ctcctc----acttcc--------ag------
D. biarmipes ctcctc----acttcc--------ag------
D. suzukii ctcctc----acttcc--------ag------
D. takahashii ctcctc----acttcc--------ag------
D. elegans ctcctc----actgcc--------ag------
D. rhopaloa ctcctc----actgcc--------ag------
D_serrata ctcctc----gcttcc--------ag------
D. kikkawai ctcctc----gcttcc--------ag------
D. ananassae ctcctc----actgcc--------ag------
D. bipectinata ctcttc----actgcc--------ag------
D_novamexicana ctcctc----gctgcc--------gc------
D. virilis ctcctc----gctgcc--------gc------
D_montana ctcttc----gctgcc--------gc------
D_arizonae ctcctc----gctgcc--------tc------
D. mojavensis ctcctc----gctgcc--------tc------
D_navojoa ctcctc----gctgcc--------tc------
D_hydei ctcctc----gctgcc--------cc------
D_busckii atcttc----gctgct--------gc------
D. grimshawi ctcctc--------ca--------gc------
D_athabasca ctcctc----actccc--------gc------
D_pseudoobscura_1 ttcctc----actgcc--------ac------
D. miranda ttcctc----actgcc--------ac------
B D D. persimilis ttcctc----actgcc--------ac------
D. pseudoobscura ttcctc----actgcc--------ac------
D_subobscura ctcctc----actgcc--------gc------
D_obscura ctcctc----actgcc--------gc------
Zaprionus_indianus ctcctc----actgct--------gg------
D_nasuta atcatc----gctgt-----------------
D. albomicans atcatc----gctgt-----------------
Scaptodrosophila_lebanonensis ttcctc----gctgct--------gg------
Phortica_variegata gtcgtt----gttgcc--------gt------
D. willistoni atcttc----gctgtc--------aa------
Eutreta_diana ttcatc----aat-----------ag------
Stomoxys_calcitrans gtcctc----atgg------------------
Lutzomyia_longipalpis tgacta----atttgcgacagaga--------
Bactrocera_dorsalis ------------ttct----------------
Bactrocera_latifrons ------------ttct----------------
Bactrocera_tryoni ------------ttct----------------
Bactrocera_oleae ------------ttct----------------
Zeugodacus_cucurbitae ------------ttct----------------
Cirrula_hians ------------ttgtgg--------------
Ephydra_gracilis ------------ttgtga--------------
Rhagoletis_zephyria ttcctca---acagcg--------ga------
Belgica_antarctica ttcact----gttgat--------gg------
Themira_minor tttcgc----tcttca--------aa------
A_christyi --attc----ggtgac--------ag------
A_arabiensis ------ggcgacagtc--------gg------
A_coluzzii ------ggcgacagtc--------gg------
A_quadriannulatus ------ggcgacagtc--------gg------
A_merus ------accggctgcc---------a------
B D A. gambiae ------ggcgacagtc--------gg------
A_cracens ttccac----tcgaa-----------------
A_dirus ttccac----tcgaa-----------------
A_atroparvus -----c----gctgtc--------tg------
A_albimanus ----------tttgtc--------cgacgtga
Proctacanthus_coquilletti ================================
Sarcophagidae_BV_2014 --------------------------------
A_farauti ================================
Phlebotomus_papatasi ================================
Haematobia_irritans --------------------------------
Tephritis_californica ================================
Culex_quinquefasciatus ================================
Glossina_pallidipes ================================
Glossina_morsitans_2 --------------------------------
Glossina_morsitans_1 --------------------------------
Glossina_palpalis_gambiensis --------------------------------
Ceratitis_capitata ================================
Lucilia_cuprina --------------------------------
Glossina_brevipalpis ================================
Phormia_regina --------------------------------
Lucilia_sericata --------------------------------
D_americana --------------------------------
M. domestica --------------------------------
Teleopsis_dalmanni --------------------------------
T. castaneum ================================
Paykullia_maculata --------------------------------
Glossina_fuscipes --------------------------------
Glossina_austeni --------------------------------
Inserts between block 41 and 42 in window
Stomoxys_calcitrans 4bp
Lutzomyia_longipalpis 23bp
Bactrocera_dorsalis 7bp
Bactrocera_latifrons 7bp
Bactrocera_tryoni 7bp
Bactrocera_oleae 7bp
Zeugodacus_cucurbitae 7bp
Cirrula_hians 16bp
Ephydra_gracilis 16bp
A_arabiensis 5bp
A_coluzzii 5bp
A_quadriannulatus 5bp
A_merus 5bp
B D A. gambiae 5bp
Alignment block 42 of 252 in window, 12083766 - 12083768, 3 bps
B D D. melanogaster cac
D D. simulans cac
B D D. sechellia cac
D. erecta cac
D. yakuba cac
D. ficusphila cgc
D. eugracilis cac
D. biarmipes cac
D. suzukii cac
D. takahashii cac
D. elegans cac
D. rhopaloa cac
D_serrata cac
D. kikkawai cac
D. ananassae cac
D. bipectinata cac
D_novamexicana cgc
D. virilis cgc
D_montana cgc
D_arizonae cac
D. mojavensis cac
D_navojoa cac
D_hydei cac
D_busckii tg-
D. grimshawi ga-
D_athabasca cgc
D_pseudoobscura_1 cgc
D. miranda cgc
B D D. persimilis cgc
D. pseudoobscura cgc
D_subobscura cgc
D_obscura cgc
Zaprionus_indianus cac
Scaptodrosophila_lebanonensis cgc
Phortica_variegata tga
D. willistoni cgc
Eutreta_diana agc
Rhagoletis_zephyria cgc
Belgica_antarctica cat
A_christyi cac
A_epiroticus cac
A_cracens cgt
A_dirus cgt
A_atroparvus cgc
A_albimanus tga
D. albomicans ---
D_nasuta ---
B D A. gambiae ===
A_merus ===
A_quadriannulatus ===
A_coluzzii ===
A_arabiensis ===
Proctacanthus_coquilletti ===
Bactrocera_tryoni ===
Lutzomyia_longipalpis ===
Sarcophagidae_BV_2014 ---
A_farauti ===
Phlebotomus_papatasi ===
Haematobia_irritans ---
Themira_minor ---
Stomoxys_calcitrans ===
Tephritis_californica ===
Bactrocera_oleae ===
Culex_quinquefasciatus ===
Glossina_pallidipes ===
Glossina_morsitans_2 ---
Glossina_morsitans_1 ---
Glossina_palpalis_gambiensis ---
Ceratitis_capitata ===
Cirrula_hians ===
Lucilia_cuprina ---
Glossina_brevipalpis ===
Bactrocera_latifrons ===
Bactrocera_dorsalis ===
Phormia_regina ---
Lucilia_sericata ---
Zeugodacus_cucurbitae ===
D_americana ---
M. domestica ---
Teleopsis_dalmanni ---
T. castaneum ===
Ephydra_gracilis ===
Paykullia_maculata ---
Glossina_fuscipes ---
Glossina_austeni ---
Alignment block 43 of 252 in window, 12083769 - 12083771, 3 bps
B D D. melanogaster tgg
D D. simulans tgg
B D D. sechellia tgg
D. erecta tgg
D. yakuba tgg
D. ficusphila tgg
D. eugracilis tgg
D. biarmipes tgg
D. suzukii tgg
D. takahashii tgg
D. elegans tgg
D. rhopaloa tgg
D_serrata tgg
D. kikkawai tgg
D. ananassae tgg
D. bipectinata tgg
D_novamexicana tga
D. virilis tga
D_montana tga
D_arizonae tca
D. mojavensis tca
D_navojoa tca
D_hydei tca
D_busckii -ag
D. grimshawi -tg
D_athabasca tgg
D_pseudoobscura_1 tgg
D. miranda tgg
B D D. persimilis tgg
D. pseudoobscura tgg
D_subobscura tgg
D_obscura tgg
Zaprionus_indianus tgg
Scaptodrosophila_lebanonensis tgc
Phortica_variegata tga
D. willistoni tgg
Eutreta_diana tgg
Rhagoletis_zephyria tgt
Belgica_antarctica ttg
A_sinensis tgg
A_christyi tcg
A_arabiensis cga
A_coluzzii cga
A_quadriannulatus cga
A_merus cga
B D A. gambiae cga
A_epiroticus cgg
A_cracens cag
A_dirus cag
A_atroparvus tgg
A_albimanus tgg
D. albomicans ---
D_nasuta ---
Proctacanthus_coquilletti ===
Bactrocera_tryoni ===
Lutzomyia_longipalpis ===
Sarcophagidae_BV_2014 ---
A_farauti ===
Phlebotomus_papatasi ===
Haematobia_irritans ---
Themira_minor ---
Stomoxys_calcitrans ===
Tephritis_californica ===
Bactrocera_oleae ===
Culex_quinquefasciatus ===
Glossina_pallidipes ===
Glossina_morsitans_2 ---
Glossina_morsitans_1 ---
Glossina_palpalis_gambiensis ---
Ceratitis_capitata ===
Cirrula_hians ===
Lucilia_cuprina ---
Glossina_brevipalpis ===
Bactrocera_latifrons ===
Bactrocera_dorsalis ===
Phormia_regina ---
Lucilia_sericata ---
Zeugodacus_cucurbitae ===
D_americana ---
M. domestica ---
Teleopsis_dalmanni ---
T. castaneum ===
Ephydra_gracilis ===
Paykullia_maculata ---
Glossina_fuscipes ---
Glossina_austeni ---
Inserts between block 43 and 44 in window
Eutreta_diana 59bp
A_atroparvus 1bp
Alignment block 44 of 252 in window, 12083772 - 12083773, 2 bps
B D D. melanogaster ca-
D D. simulans ca-
B D D. sechellia ca-
D. erecta ca-
D. yakuba ca-
D. ficusphila cg-
D. eugracilis ca-
D. biarmipes ca-
D. suzukii ca-
D. takahashii ca-
D. elegans ca-
D. rhopaloa cg-
D_serrata ca-
D. kikkawai ca-
D. ananassae cg-
D. bipectinata cg-
D_novamexicana ca-
D. virilis ca-
D_montana ca-
D_arizonae ca-
D. mojavensis ca-
D_navojoa ca-
D_hydei ca-
D_busckii cg-
D. grimshawi ca-
D_athabasca ca-
D_pseudoobscura_1 ca-
D. miranda ca-
B D D. persimilis ca-
D. pseudoobscura ca-
D_subobscura ca-
D_obscura ca-
Zaprionus_indianus ca-
D_nasuta ca-
D. albomicans cg-
Scaptodrosophila_lebanonensis ca-
Phortica_variegata ca-
D. willistoni ca-
Stomoxys_calcitrans tg-
Lutzomyia_longipalpis cc-
Bactrocera_dorsalis ca-
Bactrocera_latifrons ca-
Bactrocera_tryoni ca-
Bactrocera_oleae ca-
Zeugodacus_cucurbitae cg-
Cirrula_hians cg-
Ephydra_gracilis ag-
Glossina_austeni cg-
Glossina_morsitans_1 cg-
Glossina_morsitans_2 cg-
Glossina_pallidipes cg-
Glossina_fuscipes cg-
Glossina_palpalis_gambiensis cg-
Belgica_antarctica cg-
A_sinensis ca-
A_christyi c--
A_arabiensis cg-
A_coluzzii cg-
A_quadriannulatus cg-
A_merus gt-
B D A. gambiae cg-
A_epiroticus ca-
A_cracens -a-
A_dirus -a-
A_atroparvus cg-
A_darlingi cg-
A_aquasalis cg-
A_albimanus -ga
Proctacanthus_coquilletti ===
Sarcophagidae_BV_2014 ---
Rhagoletis_zephyria ---
A_farauti ===
Phlebotomus_papatasi ===
Haematobia_irritans ---
Themira_minor ---
Tephritis_californica ===
Eutreta_diana ===
Culex_quinquefasciatus ===
Ceratitis_capitata ===
Lucilia_cuprina ---
Glossina_brevipalpis ===
Phormia_regina ---
Lucilia_sericata ---
D_americana ---
M. domestica ---
Teleopsis_dalmanni ---
T. castaneum ===
Paykullia_maculata ---
Inserts between block 44 and 45 in window
Belgica_antarctica 18bp
A_arabiensis 4bp
A_coluzzii 4bp
A_quadriannulatus 4bp
A_merus 4bp
B D A. gambiae 4bp
A_epiroticus 4bp
Alignment block 45 of 252 in window, 12083774 - 12083780, 7 bps
B D D. melanogaster ttggcca
D D. simulans ttggcca
B D D. sechellia ttggcca
D. erecta ttggcca
D. yakuba ttggcca
D. ficusphila ttgccca
D. eugracilis ttggcta
D. biarmipes ttggcca
D. suzukii ttggcca
D. takahashii ttggcca
D. elegans ttggcca
D. rhopaloa ttggcca
D_serrata ttggcca
D. kikkawai ttggcca
D. ananassae ttggcca
D. bipectinata ttggcca
D_americana ------g
D_novamexicana ttggtca
D. virilis ttggtca
D_montana ttggtca
D_arizonae ttggtca
D. mojavensis ttggtca
D_navojoa ttggtca
D_hydei ttggtca
D_busckii tctgttg
D. grimshawi gcggatg
D_athabasca ttggcca
D_pseudoobscura_1 ttgatca
D. miranda ttgatca
B D D. persimilis ttgatca
D. pseudoobscura ttgatca
D_subobscura ttggcca
D_obscura ttggcca
Zaprionus_indianus ttggcca
D_nasuta ttgacca
D. albomicans ttgacca
Scaptodrosophila_lebanonensis tttataa
Phortica_variegata ttt----
D. willistoni ttggcca
Stomoxys_calcitrans ccgttca
Lutzomyia_longipalpis tc---gg
Bactrocera_dorsalis tt---cg
Bactrocera_latifrons tt---cg
Bactrocera_tryoni tt---cg
Bactrocera_oleae tg---cg
Zeugodacus_cucurbitae tt---cg
Cirrula_hians tg---tg
Ephydra_gracilis tg---tg
Glossina_austeni t----cg
Glossina_morsitans_1 t----cg
Glossina_morsitans_2 t----cg
Glossina_pallidipes t----cg
Glossina_fuscipes t----cg
Glossina_palpalis_gambiensis t----cg
Rhagoletis_zephyria gtggcca
Culex_quinquefasciatus ttggtgg
Belgica_antarctica ttgatcg
Themira_minor ------a
A_sinensis ctagccg
A_christyi ttgccga
A_arabiensis cgagcca
A_coluzzii cgagcca
A_quadriannulatus cgagcca
A_merus atggtca
B D A. gambiae cgagcca
A_epiroticus ccggcag
A_cracens ctgctcg
A_dirus ctgctcg
A_atroparvus ---gcgg
A_darlingi ttgtcca
A_aquasalis ttgtcca
A_albimanus atggcca
Proctacanthus_coquilletti =======
Sarcophagidae_BV_2014 -------
A_farauti =======
Phlebotomus_papatasi =======
Haematobia_irritans -------
Tephritis_californica =======
Eutreta_diana =======
Ceratitis_capitata =======
Lucilia_cuprina -------
Glossina_brevipalpis =======
Phormia_regina -------
Lucilia_sericata -------
M. domestica -------
Teleopsis_dalmanni -------
T. castaneum =======
Paykullia_maculata -------
Inserts between block 45 and 46 in window
Zaprionus_indianus 9bp
A_atroparvus 16bp
A_darlingi 6bp
Alignment block 46 of 252 in window, 12083781 - 12083809, 29 bps
B D D. melanogaster gcgactgc----------ga---------------ggg-------------at---c---ggctcccgag
D D. simulans gcgaatgc----------ga---------------ggg-------------at---c---ggctgccgag
B D D. sechellia gcgaatgc----------ga---------------ggg-------------at---c---ggctgccgag
D. erecta gcgactgc----------ga---------------ggg-------------at---c---ggctcccgag
D. yakuba gcgactgc----------ga---------------ggc-------------at---c---ggctcccgag
D. ficusphila gcgactgt----------ga---------------ggg-------------at---c---ggcgcccga-
D. eugracilis gcgactgc----------ga---------------gga-------------at---c---ggcacccga-
D. biarmipes acgactgc----------ga---------------ggg-------------gt---c---gactcccgag
D. suzukii gcgactgt----------ga---------------ggg-------------at---c---gactcccgag
D. takahashii gcgactgc----------ga---------------ggg-------------at---c---ggccaccgag
D. elegans gcgactgc----------ga---------------ggg-------------at---c---ggctcccgag
D. rhopaloa gcgactgc----------ga---------------ggg-------------at---c---gacgcccgca
D_serrata gcgactgc----------ga---------------ggg-------------at---c---ggctccggaa
D. kikkawai gcgattgc----------ga---------------ggg-------------at---c---ggctccggaa
D. ananassae gcgactgt----------ga---------------ggg-------------atcggc---ggctcccg--
D. bipectinata acgactgc----------ga---------------ggg-------------atcagc---agctcccg--
D_americana acgaggtc----------gt---------------ggt-------------ct---c---gga-------
D_novamexicana gcgaggtc----------gt---------------ggt-------------ct---c---gga-------
D. virilis gcgaggtc----------gt---------------ggt-------------ct---c---gga-------
D_montana gggaggtc----------gt---------------ggt-------------ct---cagagga-------
D_arizonae gagatgtgggg-------gt---------------ggg-------------ct---c---att-------
D. mojavensis gagatgtgggg-------gt---------------gag-------------ct---c---att-------
D_navojoa gagatgtgggn-------gt---------------ngc-------------ct---c---att-------
D_hydei gagatgttgga-------gt---------------cgg-------------at---c---gtt-------
D_busckii ctgctgctggg-cg-gcagt---------------tgg-------------tt---c---agctgg----
D. grimshawi cagaggattgc-------gt---------------tgg-------------ct---c---agt-------
D_athabasca acgtctgt----------ga---------------gga-------------ct---c---gcc-------
D_pseudoobscura_1 acgactgc----------ga---------------gga-------------ct---c---gcc-------
D. miranda acgactgc----------ga---------------gga-------------ct---c---gcc-------
B D D. persimilis acgactgc----------ga---------------gga-------------ct---c---gcc-------
D. pseudoobscura acgactgc----------ga---------------gga-------------ct---c---gcc-------
D_subobscura gcgactgg----------ga---------------gga-------------ct---c---gcc-------
D_obscura acgactgt----------ga---------------gga-------------ct---c---gcc-------
Zaprionus_indianus gcgattgg----------gc---------------aga-------------ct---ccatgcc-------
D_nasuta gagaagag----------ga---------------gga-------------ag---t---ggc-------
D. albomicans gcgaagag----------ga---------------gga-------------ag---t---ggc-------
Scaptodrosophila_lebanonensis ccacctgg----------g---------------------------------t---c---gta-------
Phortica_variegata gcggttgt----------gg--------------------------------t---c---gtt-------
D. willistoni gtgattgc----------ga---------------aga-------------ct---c---agc-------
Stomoxys_calcitrans cggagtga----------gg---------------acc-------------tc---c---gcc-------
Lutzomyia_longipalpis acgccgtt----------gt---------------ggc-------------tt---c---att-------
Bactrocera_dorsalis cgccactc----------gt---------------tgc-------------gc---c---aat-------
Bactrocera_latifrons cgccactc----------gt---------------tgc-------------gc---c---aat-------
Bactrocera_tryoni cgccactc----------gt---------------tgc-------------gc---c---aat-------
Bactrocera_oleae cgccactc----------gt---------------tgc-------------gc---c---aat-------
Zeugodacus_cucurbitae aggcactc----------gt---------------tga-------------gc---c---aat-------
Cirrula_hians tgtcagtt----------gtgtgcttggcttgcagctc-------------at---c---att-------
Ephydra_gracilis tgtcagtt----------gtgtgcttagtttgcaactc-------------ct---c---att-------
Glossina_austeni tactataa----------gc---------------atc-------------ct---c---gct-------
Glossina_morsitans_1 tactgtaa----------gc---------------atc-------------ct---c---gct-------
Glossina_morsitans_2 tactgtaa----------gc---------------atc-------------ct---c---gct-------
Glossina_pallidipes tactgtaa----------gc---------------atc-------------ct---c---gct-------
Glossina_fuscipes taccgtaa----------gc---------------atc-------------tt---c---agt-------
Glossina_palpalis_gambiensis tgccgtaa----------gc---------------atc-------------tt---c---agt-------
Lucilia_cuprina -----------------------------------atc-------------tt---c---atg-------
Lucilia_sericata -----------------------------------atc-------------tt---c---atg-------
Phormia_regina -----------------------------------atc-------------tt---c---atg-------
Sarcophagidae_BV_2014 -----------------------------------atc-------------tt---c---atg-------
Paykullia_maculata -----------------------------------atc-------------tt---c---gtt-------
Teleopsis_dalmanni -----------------------------------atc-------------tt---c---att-------
Haematobia_irritans -----------------------------------atc-------------tt---c---atg-------
M. domestica -----------------------------------atc-------------tt---c---atg-------
Rhagoletis_zephyria gcaatatt----------gc---------------cgctagcattgtgctgtt---c-------------
Culex_quinquefasciatus gcggcggc----------gg---------------cgg-------------tt---t---ggc-------
Belgica_antarctica ag----------------gt---------------agg-------------cc---c---cat-------
Themira_minor cagtttgc----------aa---------------gtc-------------ct---c---agtgcatgtg
A_sinensis tcgggtagcctccg-gtgac---------------ggc-------------ag---c---agc-------
A_christyi gtgtttgtgcgaagcgctgc---------------cag-------------at---c---g---------
A_arabiensis atcgtgag----------gc---------------ggg-------------gc---a---gct-------
A_coluzzii atcgtgag----------gc---------------ggg-------------gc---a---gct-------
A_quadriannulatus atcgtgag----------gc---------------ggg-------------gc---a---gct-------
A_merus aagttgag----------gttca------------gga-------------ac---a---ggt-------
B D A. gambiae atcgtgag----------gc---------------ggg-------------gc---a---gct-------
A_epiroticus gttgtaca----------gc---------------tgg-------------tt--------ct-------
A_cracens gccactgc----------ga---------------gct-------------gc---c---act-------
A_dirus gccactgc----------ga---------------gct-------------gc---c---acc-------
A_farauti gccactgt----------ga---------------gtt-------------ga---c---ggt-------
A_koliensis gccactgt----------ga---------------gtt-------------gg---c---ggt-------
A_punctulatus gccactgt----------ga---------------gtt-------------gg---c---ggt-------
A_atroparvus gcggcggc----------gt---------------acg-------------at---t---gg--------
A_darlingi agaagtag----------tt---------------gta-------------ac---c---ggt-------
A_aquasalis gcgccatc----------ga---------------gaa-------------at---a---gtt-------
A_albimanus -tgatgat----------gg---------------gag-------------gt---c---ggc-------
Proctacanthus_coquilletti ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
Eutreta_diana ======================================================================
Ceratitis_capitata ======================================================================
Glossina_brevipalpis ======================================================================
T. castaneum ======================================================================
D. melanogaster ttg--------------------
D. simulans ttg--------------------
D. sechellia ttg--------------------
D. erecta ttg--------------------
D. yakuba tgg--------------------
D. ficusphila -----------------------
D. eugracilis -----------------------
D. biarmipes ttg--------------------
D. suzukii ttg--------------------
D. takahashii g----------------------
D. elegans ctg--------------------
D. rhopaloa gcg--------------------
D_serrata ctg--------------------
D. kikkawai ctg--------------------
D. ananassae -----------------------
D. bipectinata -----------------------
D_americana -----------------------
D_novamexicana -----------------------
D. virilis -----------------------
D_montana -----------------------
D_arizonae -----------------------
D. mojavensis -----------------------
D_navojoa -----------------------
D_hydei -----------------------
D_busckii -----------------------
D. grimshawi -----------------------
D_athabasca -----------------------
D_pseudoobscura_1 -----------------------
D. miranda -----------------------
D. persimilis -----------------------
D. pseudoobscura -----------------------
D_subobscura -----------------------
D_obscura -----------------------
Zaprionus_indianus -----------------------
D_nasuta -----------------------
D. albomicans -----------------------
Scaptodrosophila_lebanonensis -----------------------
Phortica_variegata -----------------------
D. willistoni -----------------------
Stomoxys_calcitrans -----------------------
Lutzomyia_longipalpis -----------------------
Bactrocera_dorsalis -----------------------
Bactrocera_latifrons -----------------------
Bactrocera_tryoni -----------------------
Bactrocera_oleae -----------------------
Zeugodacus_cucurbitae -----------------------
Cirrula_hians -----------------------
Ephydra_gracilis -----------------------
Glossina_austeni -----------------------
Glossina_morsitans_1 -----------------------
Glossina_morsitans_2 -----------------------
Glossina_pallidipes -----------------------
Glossina_fuscipes -----------------------
Glossina_palpalis_gambiensis -----------------------
Lucilia_cuprina -----------------------
Lucilia_sericata -----------------------
Phormia_regina -----------------------
Sarcophagidae_BV_2014 -----------------------
Paykullia_maculata -----------------------
Teleopsis_dalmanni -----------------------
Haematobia_irritans -----------------------
M. domestica -----------------------
Rhagoletis_zephyria -----------------------
Culex_quinquefasciatus -----------------------
Belgica_antarctica -----------------------
Themira_minor ttg--------------------
A_sinensis -----------------------
A_christyi -----------------------
A_arabiensis -----------------------
A_coluzzii -----------------------
A_quadriannulatus -----------------------
A_merus -----------------------
A. gambiae -----------------------
A_epiroticus -----------------------
A_cracens -----------------------
A_dirus -----------------------
A_farauti -----------------------
A_koliensis -----------------------
A_punctulatus -----------------------
A_atroparvus -----------------------
A_darlingi -----------------------
A_aquasalis -----------------------
A_albimanus ---ccgtgggagtgtggatgttg
Proctacanthus_coquilletti =======================
Phlebotomus_papatasi =======================
Tephritis_californica =======================
Eutreta_diana =======================
Ceratitis_capitata =======================
Glossina_brevipalpis =======================
T. castaneum =======================
Inserts between block 46 and 47 in window
A_arabiensis 8bp
A_coluzzii 8bp
A_quadriannulatus 8bp
A_merus 3bp
B D A. gambiae 8bp
A_epiroticus 8bp
A_cracens 13bp
A_dirus 13bp
A_farauti 10bp
A_koliensis 10bp
A_punctulatus 10bp
A_darlingi 4bp
A_aquasalis 7bp
Alignment block 47 of 252 in window, 12083810 - 12083821, 12 bps
B D D. melanogaster gccccactggag-------
D D. simulans gccccactggag-------
B D D. sechellia gccccactggag-------
D. erecta accccact---g-------
D. yakuba cccccact---g-------
D. ficusphila -----act---g-------
D. eugracilis -----att---g-------
D. biarmipes cccccact---g-------
D. suzukii cccccact---g-------
D. takahashii -------a---g-------
D. elegans cccccact---g-------
D. rhopaloa cctccact---g-------
D_serrata cctccact---g-------
D. kikkawai cctccact---g-------
D. ananassae -caccgga---g-------
D. bipectinata -ctccaga---g-------
D_americana -----------g-------
D_novamexicana -----------g-------
D. virilis -----------g-------
D_montana -----------g-------
D_arizonae -----------g-------
D. mojavensis -----------g-------
D_navojoa -----------g-------
D_hydei -----------g-------
D_busckii -----------g-------
D_athabasca -----------g-------
D_pseudoobscura_1 -----------g-------
D. miranda -----------g-------
B D D. persimilis -----------g-------
D. pseudoobscura -----------g-------
D_subobscura -----------g-------
D_obscura -----------g-------
Zaprionus_indianus -----------t-------
D_nasuta -----------t-------
D. albomicans -----------t-------
Scaptodrosophila_lebanonensis -----------g-------
Phortica_variegata -----------g-------
D. willistoni -----------t-------
Stomoxys_calcitrans -----------g-------
Lutzomyia_longipalpis -----------g-------
Bactrocera_dorsalis -----------a-------
Bactrocera_latifrons -----------a-------
Bactrocera_tryoni -----------g-------
Bactrocera_oleae -----------a-------
Zeugodacus_cucurbitae -----------g-------
Cirrula_hians -----------g-------
Ephydra_gracilis -----------g-------
Glossina_austeni -----------a-------
Glossina_morsitans_1 -----------g-------
Glossina_morsitans_2 -----------g-------
Glossina_pallidipes -----------a-------
Glossina_fuscipes -----------g-------
Glossina_palpalis_gambiensis -----------g-------
Lucilia_cuprina -----------g-------
Lucilia_sericata -----------g-------
Phormia_regina -----------a-------
Sarcophagidae_BV_2014 -----------t-------
Paykullia_maculata -----------g-------
Teleopsis_dalmanni -----------g-------
Haematobia_irritans -----------g-------
M. domestica -----------g-------
Culex_quinquefasciatus -----------g-------
Belgica_antarctica -----------g-------
Themira_minor ctgccagt---g-------
A_sinensis -----------g-------
A_culicifacies gtcccactc--g-------
A_minimus gtcccactc--g-------
A_christyi ttgccact---g-------
A_arabiensis accacact---g-------
A_coluzzii actacact---g-------
A_quadriannulatus accacact---g-------
A_merus -----gcg---a-------
B D A. gambiae actacact---g-------
A_epiroticus atcccgtt---g-------
A_cracens gcaccggt---g-------
A_dirus gcaccggt---g-------
A_farauti gcaccggt---g-------
A_koliensis gcaccggt---g-------
A_punctulatus gcaccggt---g-------
A_atroparvus gcagcact---g-------
A_darlingi gccaagtt---g-------
A_aquasalis ccagccgt---g-------
A_albimanus ----tacc---gcatgatg
D. grimshawi -------------------
Proctacanthus_coquilletti ===================
Rhagoletis_zephyria -------------------
Phlebotomus_papatasi ===================
Tephritis_californica ===================
Eutreta_diana ===================
Ceratitis_capitata ===================
Glossina_brevipalpis ===================
T. castaneum ===================
Inserts between block 47 and 48 in window
Lutzomyia_longipalpis 3bp
Bactrocera_dorsalis 27bp
Bactrocera_latifrons 27bp
Bactrocera_tryoni 25bp
Bactrocera_oleae 27bp
Zeugodacus_cucurbitae 27bp
Cirrula_hians 30bp
Ephydra_gracilis 30bp
Glossina_austeni 31bp
Glossina_morsitans_1 31bp
Glossina_morsitans_2 31bp
Glossina_pallidipes 31bp
Glossina_fuscipes 31bp
Glossina_palpalis_gambiensis 31bp
Lucilia_cuprina 27bp
Lucilia_sericata 27bp
Phormia_regina 27bp
Sarcophagidae_BV_2014 27bp
Paykullia_maculata 27bp
Teleopsis_dalmanni 27bp
Haematobia_irritans 27bp
M. domestica 29bp
Culex_quinquefasciatus 7bp
Belgica_antarctica 3bp
Themira_minor 7bp
A_sinensis 3bp
A_culicifacies 14bp
A_minimus 14bp
A_christyi 7bp
A_arabiensis 14bp
A_coluzzii 14bp
A_quadriannulatus 14bp
A_merus 13bp
B D A. gambiae 14bp
A_epiroticus 11bp
A_cracens 30bp
A_dirus 30bp
A_farauti 3bp
A_koliensis 3bp
A_punctulatus 3bp
A_atroparvus 13bp
A_darlingi 3bp
A_aquasalis 2bp
Alignment block 48 of 252 in window, 12083822 - 12083836, 15 bps
B D D. melanogaster gaggtca---------cacc------a-----------------gct
D D. simulans gaggtca---------cacc------a-----------------gct
B D D. sechellia gaggtca---------cacc------a-----------------gct
D. erecta gagctca---------ccgc------a-----------------gct
D. yakuba gaggtca---------ctcc------a-----------------gct
D. ficusphila gaggtca---------ctcc------accgc-----ccccggagggt
D. eugracilis gaggtca---------ctcc------t-----------------cct
D. biarmipes gaggtca---------gtcc------t-----------------ccg
D. suzukii gaggtca---------ctcc------t-----------------cct
D. takahashii gtggtca---------ctcc------t-----------------cct
D. elegans gaggtca---------ctcc------g-----------------cca
D. rhopaloa gaggtca---------cccc------g-----------------cca
D_serrata gaggcca---------ctcc------c-----------------gcg
D. kikkawai gaggtca---------ctcc------c-----------------gcg
D. ananassae gaggtca---------ggcc------t-----------------ccg
D. bipectinata gaggaca---------ggcc------t-----------------cca
D_americana gcaga------------gcc------g-----------------cca
D_novamexicana gcaga------------gcc------g-----------------cca
D. virilis gcgga------------gcc------a-----------------cca
D_montana gcgga------------gcc------g-----------------cca
D_arizonae ggca-------------------------------------------
D. mojavensis ggca-------------------------------------------
D_navojoa ggca-------------------------------------------
D_hydei gaca-------------------------------------------
D_busckii gcca-------------------------------------------
D_athabasca gaggg------------acc------g-----------------gct
D_pseudoobscura_1 gtggg------------acc------g-----------------gct
D. miranda gtggg------------acc------g-----------------gct
B D D. persimilis gtggg------------acc------g-----------------gct
D. pseudoobscura gtggg------------acc------g-----------------gct
D_subobscura gaggggc---------cacc------g-----------------gct
D_obscura gagggac---------cacc------a-----------------ccg
Zaprionus_indianus gcagg------------a-----------------------------
D_nasuta gcctcgt---------tgccacttgag-----------------gca
D. albomicans gcttcgt---------tgccacttgag-----------------gca
Scaptodrosophila_lebanonensis -------------------c------a-----------------tcg
Phortica_variegata attgtga----------ttc------a-----------------gtg
D. willistoni ggatttgttgcattactacc------t-----------------cca
Stomoxys_calcitrans ata--------------------------------------------
Lutzomyia_longipalpis ---------------------------------------------tt
Rhagoletis_zephyria ----------------------------------------gttgcca
Culex_quinquefasciatus ---------------------------gagt-----tgtcgttggct
Belgica_antarctica --------------------------------------gtggttcca
Themira_minor ga---------------------------------------------
A_sinensis -----------------------------gcatatgactgagcagca
A_culicifacies gtg--------------------------------------------
A_minimus gtg--------------------------------------------
A_christyi -----------------------------------gagtccataccg
A_arabiensis gacg-------------------------------------------
A_coluzzii gacg-------------------------------------------
A_quadriannulatus gaca-------------------------------------------
A_merus gacg-------------------------------------------
B D A. gambiae gacg-------------------------------------------
A_epiroticus gacg-------------------------------------------
A_cracens gtg--------------------------------------------
A_dirus gcg--------------------------------------------
A_farauti --------------------------------gaaggataggctgca
A_koliensis --------------------------------gagggataggctgca
A_punctulatus --------------------------------gaaggataggctgca
A_atroparvus gggg-------------------------------------------
A_darlingi --------------------------------------tcattgcca
A_aquasalis ----------------------------------caagttagaatcg
A_albimanus -------------------------------------ggtgttaccg
D. grimshawi -----------------------------------------------
Proctacanthus_coquilletti ===============================================
Bactrocera_tryoni ===============================================
Sarcophagidae_BV_2014 ===============================================
Phlebotomus_papatasi ===============================================
Haematobia_irritans ===============================================
Tephritis_californica ===============================================
Eutreta_diana ===============================================
Bactrocera_oleae ===============================================
Glossina_pallidipes ===============================================
Glossina_morsitans_2 ===============================================
Glossina_morsitans_1 ===============================================
Glossina_palpalis_gambiensis ===============================================
Ceratitis_capitata ===============================================
Cirrula_hians ===============================================
Lucilia_cuprina ===============================================
Glossina_brevipalpis ===============================================
Bactrocera_latifrons ===============================================
Bactrocera_dorsalis ===============================================
Phormia_regina ===============================================
Lucilia_sericata ===============================================
Zeugodacus_cucurbitae ===============================================
M. domestica ===============================================
Teleopsis_dalmanni ===============================================
T. castaneum ===============================================
Ephydra_gracilis ===============================================
Paykullia_maculata ===============================================
Glossina_fuscipes ===============================================
Glossina_austeni ===============================================
Inserts between block 48 and 49 in window
Lutzomyia_longipalpis 19bp
Rhagoletis_zephyria 1bp
Culex_quinquefasciatus 1bp
A_christyi 3bp
A_arabiensis 1bp
A_coluzzii 1bp
A_quadriannulatus 1bp
A_merus 1bp
B D A. gambiae 1bp
A_epiroticus 1bp
A_cracens 1bp
A_dirus 1bp
A_farauti 5bp
A_koliensis 5bp
A_punctulatus 5bp
A_darlingi 6bp
A_aquasalis 3bp
Alignment block 49 of 252 in window, 12083837 - 12083838, 2 bps
B D D. melanogaster cc-
D D. simulans cc-
B D D. sechellia cc-
D. erecta cc-
D. yakuba cc-
D. ficusphila cc-
D. eugracilis cc-
D. biarmipes cc-
D. suzukii gc-
D. takahashii gc-
D. elegans tt-
D. rhopaloa cc-
D_serrata cc-
D. kikkawai cc-
D. ananassae cc-
D. bipectinata cc-
D_americana cc-
D_novamexicana cc-
D. virilis cc-
D_montana cc-
D_arizonae -t-
D. mojavensis -t-
D_navojoa -t-
D_hydei -t-
D_busckii -g-
D_athabasca cc-
D_pseudoobscura_1 cc-
D. miranda cc-
B D D. persimilis cc-
D. pseudoobscura cc-
D_subobscura cc-
D_obscura cc-
Zaprionus_indianus cc-
D_nasuta cc-
D. albomicans cc-
Scaptodrosophila_lebanonensis cc-
Phortica_variegata cc-
D. willistoni cc-
Culex_quinquefasciatus c--
Themira_minor cc-
A_sinensis ct-
A_culicifacies -c-
A_minimus -c-
A_christyi ct-
A_arabiensis c--
A_coluzzii c--
A_quadriannulatus c--
A_merus c--
B D A. gambiae c--
A_epiroticus c--
A_cracens c--
A_dirus c--
A_farauti -c-
A_koliensis -c-
A_punctulatus -c-
A_darlingi cc-
A_aquasalis c--
A_albimanus -tt
D. grimshawi ---
A_atroparvus ---
Proctacanthus_coquilletti ===
Bactrocera_tryoni ===
Belgica_antarctica ---
Lutzomyia_longipalpis ===
Sarcophagidae_BV_2014 ===
Rhagoletis_zephyria ===
Phlebotomus_papatasi ===
Haematobia_irritans ===
Stomoxys_calcitrans ---
Tephritis_californica ===
Eutreta_diana ===
Bactrocera_oleae ===
Glossina_pallidipes ===
Glossina_morsitans_2 ===
Glossina_morsitans_1 ===
Glossina_palpalis_gambiensis ===
Ceratitis_capitata ===
Cirrula_hians ===
Lucilia_cuprina ===
Glossina_brevipalpis ===
Bactrocera_latifrons ===
Bactrocera_dorsalis ===
Phormia_regina ===
Lucilia_sericata ===
Zeugodacus_cucurbitae ===
M. domestica ===
Teleopsis_dalmanni ===
T. castaneum ===
Ephydra_gracilis ===
Paykullia_maculata ===
Glossina_fuscipes ===
Glossina_austeni ===
Inserts between block 49 and 50 in window
A_sinensis 2bp
A_culicifacies 1bp
A_minimus 1bp
A_farauti 1bp
A_koliensis 1bp
A_punctulatus 1bp
Alignment block 50 of 252 in window, 12083839 - 12083845, 7 bps
B D D. melanogaster actcacc
D D. simulans actcacc
B D D. sechellia actcacc
D. erecta actcacc
D. yakuba gctcacc
D. ficusphila actgacc
D. eugracilis actcacc
D. biarmipes actcacc
D. suzukii gctcacc
D. takahashii attcacc
D. elegans acccacc
D. rhopaloa actgacc
D_serrata accaccc
D. kikkawai accaccc
D. ananassae g------
D. bipectinata g------
D_americana caccacg
D_novamexicana caccacg
D. virilis caccacg
D_montana caccacg
D_arizonae aacgacg
D. mojavensis aacggcg
D_navojoa aacgacg
D_hydei gaccaca
D_busckii cacgggc
D. grimshawi accagca
D_athabasca accaaca
D_pseudoobscura_1 acccaca
D. miranda acccaca
B D D. persimilis acccaca
D. pseudoobscura acccaca
D_subobscura acccacc
D_obscura acccacc
Zaprionus_indianus aacaaca
D_nasuta cacgaca
D. albomicans cacgacg
Scaptodrosophila_lebanonensis gccaacc
Phortica_variegata accgata
D. willistoni cactact
Proctacanthus_coquilletti acccatc
Lutzomyia_longipalpis -----cc
Bactrocera_dorsalis -----cc
Bactrocera_latifrons -----cc
Bactrocera_tryoni -----cc
Bactrocera_oleae -----cc
Zeugodacus_cucurbitae -----cc
Ceratitis_capitata --ccgct
Cirrula_hians -----cc
Ephydra_gracilis -----cc
Glossina_austeni --ctgcc
Glossina_morsitans_1 --ctgcc
Glossina_morsitans_2 --ctgcc
Glossina_pallidipes --ctgcc
Glossina_fuscipes --ctgcc
Glossina_palpalis_gambiensis --ctgcc
Calliphora_vicina --acacc
Lucilia_cuprina --ttacc
Lucilia_sericata --ttacc
Phormia_regina --ttacc
Sarcophagidae_BV_2014 --ttgcc
Paykullia_maculata --tttcc
Teleopsis_dalmanni --ccacc
Haematobia_irritans --cctcc
M. domestica ----acc
Rhagoletis_zephyria ---tg--
Culex_quinquefasciatus ----gt-
Themira_minor ----acc
A_sinensis actggcc
A_culicifacies aaacact
A_minimus aaacact
A_christyi ----gcc
A_arabiensis ----acc
A_coluzzii ----acc
A_quadriannulatus ----acc
A_merus ----agc
B D A. gambiae ----acc
A_epiroticus ----ggc
A_cracens actgatt
A_dirus actgatt
A_farauti attgagc
A_koliensis attgagc
A_punctulatus attgagc
A_darlingi ----gtt
A_aquasalis ---cacc
A_albimanus gtccagc
A_atroparvus -------
Belgica_antarctica -------
Phlebotomus_papatasi =======
Stomoxys_calcitrans -------
Tephritis_californica =======
Eutreta_diana =======
Glossina_brevipalpis =======
T. castaneum =======
Inserts between block 50 and 51 in window
Lutzomyia_longipalpis 10bp
Bactrocera_dorsalis 4bp
Bactrocera_latifrons 4bp
Bactrocera_tryoni 4bp
Bactrocera_oleae 4bp
Zeugodacus_cucurbitae 4bp
Ceratitis_capitata 4bp
Cirrula_hians 4bp
Ephydra_gracilis 4bp
Calliphora_vicina 4bp
Lucilia_cuprina 4bp
Lucilia_sericata 4bp
Phormia_regina 4bp
Sarcophagidae_BV_2014 4bp
Paykullia_maculata 4bp
Teleopsis_dalmanni 4bp
Haematobia_irritans 4bp
M. domestica 4bp
Themira_minor 4bp
A_christyi 4bp
A_arabiensis 3bp
A_coluzzii 3bp
A_quadriannulatus 3bp
A_merus 2bp
B D A. gambiae 3bp
A_epiroticus 1bp
A_cracens 2bp
A_dirus 2bp
A_farauti 1bp
A_koliensis 1bp
A_punctulatus 1bp
A_aquasalis 3bp
Alignment block 51 of 252 in window, 12083846 - 12083849, 4 bps
B D D. melanogaster accg
D D. simulans accg
B D D. sechellia accg
D. erecta acag
D. yakuba acag
D. ficusphila accg
D. eugracilis acgg
D. biarmipes accg
D. suzukii accg
D. takahashii accg
D. elegans accg
D. rhopaloa acag
D_serrata acag
D. kikkawai acag
D. ananassae acgg
D. bipectinata acgg
D_americana gcgg
D_novamexicana gcgg
D. virilis gcgg
D_montana gcgg
D_arizonae gcgg
D. mojavensis gcgg
D_navojoa gcgg
D_hydei gctg
D_busckii acag
D. grimshawi gcag
D_athabasca accg
D_pseudoobscura_1 accg
D. miranda gccg
B D D. persimilis accg
D. pseudoobscura accg
D_subobscura acgg
D_obscura acgg
Zaprionus_indianus gcgg
D_nasuta acag
D. albomicans acag
Scaptodrosophila_lebanonensis acgg
Phortica_variegata acag
D. willistoni acgg
Eutreta_diana acag
Stomoxys_calcitrans actg
Proctacanthus_coquilletti atag
Lutzomyia_longipalpis ac--
Bactrocera_dorsalis acgg
Bactrocera_latifrons acgg
Bactrocera_tryoni acgg
Bactrocera_oleae acgg
Zeugodacus_cucurbitae acgg
Ceratitis_capitata gcgg
Cirrula_hians accg
Ephydra_gracilis actg
Glossina_austeni gtag
Glossina_morsitans_1 gctg
Glossina_morsitans_2 gctg
Glossina_pallidipes gttg
Glossina_fuscipes gtag
Glossina_palpalis_gambiensis gtag
Glossina_brevipalpis gcag
Calliphora_vicina gcag
Lucilia_cuprina acag
Lucilia_sericata acag
Phormia_regina acag
Sarcophagidae_BV_2014 acag
Paykullia_maculata actg
Teleopsis_dalmanni acag
Haematobia_irritans acag
M. domestica acag
Rhagoletis_zephyria acgg
Culex_quinquefasciatus ---a
Themira_minor accg
A_sinensis --ag
A_culicifacies gccg
A_minimus gccg
A_christyi gccg
A_arabiensis gccg
A_coluzzii gccg
A_quadriannulatus gccg
A_merus gc--
B D A. gambiae gccg
A_epiroticus gctg
A_cracens ac--
A_dirus ac--
A_farauti gcg-
A_koliensis gcg-
A_punctulatus gcg-
A_atroparvus ---g
A_darlingi ---g
A_aquasalis accg
A_albimanus atcg
Belgica_antarctica ----
Phlebotomus_papatasi ====
Tephritis_californica ====
T. castaneum ====
Inserts between block 51 and 52 in window
Calliphora_vicina 7bp
A_arabiensis 2bp
A_coluzzii 2bp
A_quadriannulatus 2bp
A_epiroticus 7bp
Alignment block 52 of 252 in window, 12083850 - 12083850, 1 bps
B D D. melanogaster -c
D D. simulans -c
B D D. sechellia -c
D. erecta -c
D. yakuba -c
D. ficusphila -c
D. eugracilis -c
D. biarmipes -c
D. suzukii -c
D. takahashii -c
D. elegans -c
D. rhopaloa -c
D_serrata -c
D. kikkawai -c
D. ananassae -c
D. bipectinata -c
D_americana -c
D_novamexicana -c
D. virilis -c
D_montana -c
D_arizonae -c
D. mojavensis -c
D_navojoa -c
D_hydei -c
D_busckii -c
D. grimshawi -t
D_athabasca -c
D_pseudoobscura_1 -c
D. miranda -c
B D D. persimilis -c
D. pseudoobscura -c
D_subobscura -c
D_obscura -c
Zaprionus_indianus -c
D_nasuta -c
D. albomicans -c
Scaptodrosophila_lebanonensis -c
Phortica_variegata -c
D. willistoni -c
Eutreta_diana -c
Stomoxys_calcitrans -c
Proctacanthus_coquilletti -t
Bactrocera_dorsalis -c
Bactrocera_latifrons -c
Bactrocera_tryoni -c
Bactrocera_oleae -c
Zeugodacus_cucurbitae -c
Ceratitis_capitata -t
Cirrula_hians -c
Ephydra_gracilis -c
Glossina_austeni -t
Glossina_morsitans_1 -t
Glossina_morsitans_2 -t
Glossina_pallidipes -t
Glossina_fuscipes -t
Glossina_palpalis_gambiensis -t
Glossina_brevipalpis -t
Calliphora_vicina -c
Lucilia_cuprina -c
Lucilia_sericata -c
Phormia_regina -c
Sarcophagidae_BV_2014 -c
Paykullia_maculata -c
Teleopsis_dalmanni -c
Haematobia_irritans -c
M. domestica -c
Rhagoletis_zephyria -c
Culex_quinquefasciatus -c
Themira_minor -c
A_sinensis -c
A_culicifacies -g
A_minimus -g
A_christyi -t
A_arabiensis -c
A_coluzzii -c
A_quadriannulatus -c
B D A. gambiae -c
A_epiroticus -c
A_cracens -c
A_dirus -c
A_farauti -c
A_koliensis -c
A_punctulatus -c
A_atroparvus -t
A_darlingi -t
A_aquasalis -t
A_albimanus a-
Belgica_antarctica --
Lutzomyia_longipalpis --
Phlebotomus_papatasi ==
Tephritis_californica ==
T. castaneum ==
Inserts between block 52 and 53 in window
A_culicifacies 1bp
A_minimus 1bp
A_christyi 1bp
Alignment block 53 of 252 in window, 12083851 - 12083853, 3 bps
B D D. melanogaster gga-
D D. simulans cga-
B D D. sechellia cga-
D. erecta gga-
D. yakuba gga-
D. ficusphila gga-
D. eugracilis cga-
D. biarmipes aga-
D. suzukii gga-
D. takahashii cga-
D. elegans cga-
D. rhopaloa cga-
D_serrata cga-
D. kikkawai cga-
D. ananassae aga-
D. bipectinata tga-
D_americana gga-
D_novamexicana gga-
D. virilis gga-
D_montana gga-
D_arizonae cga-
D. mojavensis cga-
D_navojoa cga-
D_hydei gga-
D_busckii gct-
D. grimshawi tga-
D_athabasca aga-
D_pseudoobscura_1 aga-
D. miranda aga-
B D D. persimilis aga-
D. pseudoobscura aga-
D_subobscura cga-
D_obscura cga-
Zaprionus_indianus gga-
D_nasuta gga-
D. albomicans gga-
Scaptodrosophila_lebanonensis tga-
Phortica_variegata cga-
D. willistoni cga-
Eutreta_diana tgt-
Stomoxys_calcitrans cga-
Proctacanthus_coquilletti gac-
Bactrocera_dorsalis ggt-
Bactrocera_latifrons ggt-
Bactrocera_tryoni ggt-
Bactrocera_oleae agt-
Zeugodacus_cucurbitae gct-
Ceratitis_capitata gtt-
Cirrula_hians tgt-
Ephydra_gracilis tgt-
Glossina_austeni tgt-
Glossina_morsitans_1 tgt-
Glossina_morsitans_2 tgt-
Glossina_pallidipes tgt-
Glossina_fuscipes tgt-
Glossina_palpalis_gambiensis tgt-
Glossina_brevipalpis tgt-
Calliphora_vicina tga-
Lucilia_cuprina tga-
Lucilia_sericata cga-
Phormia_regina tga-
Sarcophagidae_BV_2014 cga-
Paykullia_maculata aga-
Teleopsis_dalmanni aga-
Haematobia_irritans tga-
M. domestica aga-
Rhagoletis_zephyria tgt-
Culex_quinquefasciatus gaa-
Themira_minor cga-
A_sinensis gtg-
A_culicifacies gga-
A_minimus gga-
A_funestus aga-
A_christyi gga-
A_arabiensis gga-
A_coluzzii gga-
A_quadriannulatus gga-
B D A. gambiae ggc-
A_epiroticus gag-
A_cracens cga-
A_dirus gga-
A_farauti tga-
A_koliensis tga-
A_punctulatus tga-
A_atroparvus gga-
A_darlingi gga-
A_aquasalis -gc-
A_albimanus -gaa
Belgica_antarctica ----
Lutzomyia_longipalpis ----
Phlebotomus_papatasi ====
Tephritis_californica ====
T. castaneum ====
Inserts between block 53 and 54 in window
D. grimshawi 12bp
A_sinensis 4bp
A_arabiensis 1bp
A_coluzzii 1bp
B D A. gambiae 5bp
A_epiroticus 2bp
A_farauti 2bp
A_koliensis 2bp
A_punctulatus 2bp
A_aquasalis 1bp
Alignment block 54 of 252 in window, 12083854 - 12083854, 1 bps
B D D. melanogaster a
D D. simulans a
B D D. sechellia a
D. erecta a
D. yakuba g
D. ficusphila c
D. eugracilis a
D. biarmipes a
D. suzukii a
D. takahashii c
D. elegans c
D. rhopaloa g
D_serrata g
D. kikkawai g
D. ananassae c
D. bipectinata c
D_americana c
D_novamexicana c
D. virilis c
D_montana c
D_arizonae g
D. mojavensis g
D_navojoa g
D_hydei c
D_busckii g
D. grimshawi g
D_athabasca c
D_pseudoobscura_1 g
D. miranda g
B D D. persimilis g
D. pseudoobscura g
D_subobscura g
D_obscura g
Zaprionus_indianus c
D_nasuta c
D. albomicans c
Scaptodrosophila_lebanonensis t
Phortica_variegata g
D. willistoni t
Eutreta_diana t
Stomoxys_calcitrans c
Proctacanthus_coquilletti c
Lutzomyia_longipalpis c
Bactrocera_dorsalis t
Bactrocera_latifrons t
Bactrocera_tryoni t
Bactrocera_oleae t
Zeugodacus_cucurbitae t
Ceratitis_capitata c
Cirrula_hians c
Ephydra_gracilis t
Glossina_austeni c
Glossina_morsitans_1 c
Glossina_morsitans_2 c
Glossina_pallidipes c
Glossina_fuscipes t
Glossina_palpalis_gambiensis t
Glossina_brevipalpis t
Calliphora_vicina g
Lucilia_cuprina t
Lucilia_sericata t
Phormia_regina t
Sarcophagidae_BV_2014 t
Paykullia_maculata c
Teleopsis_dalmanni t
Holcocephala_fusca a
Haematobia_irritans t
M. domestica a
Rhagoletis_zephyria t
Culex_quinquefasciatus g
Themira_minor c
A_sinensis t
A_christyi t
A_farauti t
A_koliensis t
A_punctulatus t
A_atroparvus c
A_darlingi g
A_aquasalis g
A_albimanus g
A_dirus -
A_cracens -
B D A. gambiae =
A_coluzzii =
A_arabiensis =
A_funestus -
A_culicifacies -
Belgica_antarctica -
A_epiroticus =
A_minimus -
Phlebotomus_papatasi =
Tephritis_californica =
T. castaneum =
Inserts between block 54 and 55 in window
A_atroparvus 3bp
A_darlingi 3bp
Alignment block 55 of 252 in window, 12083855 - 12083859, 5 bps
B D D. melanogaster a----ggct
D D. simulans a----ggct
B D D. sechellia a----ggct
D. erecta a----ggct
D. yakuba a----ggct
D. ficusphila a----agct
D. eugracilis a----ggct
D. biarmipes a----ggct
D. suzukii a----ggct
D. takahashii a----ggct
D. elegans a----ggct
D. rhopaloa a----ggct
D_serrata a----ggct
D. kikkawai a----ggct
D. ananassae a----tgct
D. bipectinata a----gact
D_americana a----ggct
D_novamexicana a----ggct
D. virilis a----ggct
D_montana a----ggct
D_arizonae a----ggct
D. mojavensis a----ggct
D_navojoa a----ggct
D_hydei a----ggct
D_busckii a----ggct
D. grimshawi a----gact
D_athabasca a----ggct
D_pseudoobscura_1 a----ggct
D. miranda a----ggct
B D D. persimilis a----ggct
D. pseudoobscura a----ggct
D_subobscura a----ggct
D_obscura a----ggct
Zaprionus_indianus a----ggct
D_nasuta a----agct
D. albomicans a----agct
Scaptodrosophila_lebanonensis a----ggct
Phortica_variegata a----gact
D. willistoni a----gact
Eutreta_diana a----aact
Stomoxys_calcitrans a----agct
Proctacanthus_coquilletti a----gact
Lutzomyia_longipalpis a----ggct
Bactrocera_dorsalis a----aact
Bactrocera_latifrons a----aact
Bactrocera_tryoni a----aact
Bactrocera_oleae a----aact
Zeugodacus_cucurbitae a----aact
Ceratitis_capitata a----gact
Cirrula_hians a----ggct
Ephydra_gracilis a----ggct
Glossina_austeni a----agct
Glossina_morsitans_1 a----agct
Glossina_morsitans_2 a----agct
Glossina_pallidipes a----agct
Glossina_fuscipes a----agct
Glossina_palpalis_gambiensis a----agct
Glossina_brevipalpis a----agct
Calliphora_vicina aacgcaatt
Lucilia_cuprina a----aact
Lucilia_sericata a----aact
Phormia_regina a----aact
Sarcophagidae_BV_2014 a----aact
Paykullia_maculata a----aact
Teleopsis_dalmanni a----ggct
Holcocephala_fusca a----cact
Haematobia_irritans a----agct
M. domestica a----ggct
Rhagoletis_zephyria a----agct
Culex_quinquefasciatus a----ggcg
Belgica_antarctica a----ggct
Themira_minor a----ggct
A_sinensis g----gg--
A_culicifacies a----cgtt
A_minimus a----cgtt
A_funestus c----tgtt
A_christyi a----ggta
A_arabiensis c----gtcc
A_coluzzii c----gtct
A_quadriannulatus a----gggt
A_merus a----gggt
B D A. gambiae c----gcgt
A_gambiae_1 a----gggt
A_melas a----gggt
A_epiroticus a----ctgt
A_farauti -----ggcc
A_koliensis -----ggcc
A_punctulatus -----ggcc
A_atroparvus a----g---
A_darlingi a----agcg
A_aquasalis g----gaca
A_albimanus ----tagtt
A_dirus ---------
A_cracens ---------
Phlebotomus_papatasi =========
Tephritis_californica =========
T. castaneum =========
Inserts between block 55 and 56 in window
A_culicifacies 3bp
A_minimus 3bp
A_funestus 3bp
A_farauti 1bp
A_koliensis 1bp
A_punctulatus 1bp
A_atroparvus 1bp
A_darlingi 11bp
Alignment block 56 of 252 in window, 12083860 - 12083861, 2 bps
B D D. melanogaster gt
D D. simulans gt
B D D. sechellia gt
D. erecta gt
D. yakuba gt
D. ficusphila gt
D. eugracilis gt
D. biarmipes gt
D. suzukii gt
D. takahashii gt
D. elegans gt
D. rhopaloa gt
D_serrata gt
D. kikkawai gt
D. ananassae gt
D. bipectinata gt
D_americana gt
D_novamexicana gt
D. virilis gt
D_montana gt
D_arizonae gt
D. mojavensis gt
D_navojoa gt
D_hydei gt
D_busckii gt
D. grimshawi at
D_athabasca gt
D_pseudoobscura_1 gt
D. miranda gt
B D D. persimilis gt
D. pseudoobscura gt
D_subobscura gt
D_obscura gt
Zaprionus_indianus gt
D_nasuta gt
D. albomicans gt
Scaptodrosophila_lebanonensis gt
Phortica_variegata gt
D. willistoni gt
Eutreta_diana at
Stomoxys_calcitrans gt
Proctacanthus_coquilletti gt
Lutzomyia_longipalpis at
Bactrocera_dorsalis at
Bactrocera_latifrons gt
Bactrocera_tryoni at
Bactrocera_oleae at
Zeugodacus_cucurbitae at
Ceratitis_capitata at
Cirrula_hians gt
Ephydra_gracilis gt
Glossina_austeni gt
Glossina_morsitans_1 at
Glossina_morsitans_2 at
Glossina_pallidipes gt
Glossina_fuscipes gt
Glossina_palpalis_gambiensis gt
Glossina_brevipalpis at
Calliphora_vicina gt
Lucilia_cuprina gt
Lucilia_sericata gt
Phormia_regina gt
Sarcophagidae_BV_2014 gt
Paykullia_maculata at
Teleopsis_dalmanni at
Holcocephala_fusca at
Haematobia_irritans at
M. domestica at
Aedes_albopictus gt
Rhagoletis_zephyria at
Culex_quinquefasciatus gc
Belgica_antarctica gt
Themira_minor at
A_sinensis ga
A_culicifacies ac
A_minimus ac
A_funestus ta
A_christyi gt
A_arabiensis gc
A_coluzzii gc
A_quadriannulatus gt
A_merus gt
A_gambiae_1 gt
A_melas gt
A_epiroticus gg
A_cracens -t
A_dirus -t
A_farauti gt
A_koliensis gt
A_punctulatus gt
A_atroparvus g-
A_darlingi g-
A_aquasalis g-
A_albimanus at
B D A. gambiae --
Phlebotomus_papatasi ==
Tephritis_californica ==
T. castaneum ==
Inserts between block 56 and 57 in window
A_farauti 1bp
A_koliensis 1bp
A_punctulatus 1bp
Alignment block 57 of 252 in window, 12083862 - 12083863, 2 bps
B D D. melanogaster t----g
D D. simulans t----g
B D D. sechellia t----g
D. erecta t----g
D. yakuba t----g
D. ficusphila t----g
D. eugracilis t----g
D. biarmipes t----g
D. suzukii t----g
D. takahashii t----g
D. elegans t----g
D. rhopaloa t----g
D_serrata t----g
D. kikkawai t----g
D. ananassae t----g
D. bipectinata t----g
D_americana t----g
D_novamexicana t----g
D. virilis t----g
D_montana t----g
D_arizonae t----g
D. mojavensis t----g
D_navojoa t----g
D_hydei t----g
D_busckii t----g
D. grimshawi t----t
D_athabasca t----g
D_pseudoobscura_1 t----g
D. miranda t----g
B D D. persimilis t----g
D. pseudoobscura t----g
D_subobscura t----g
D_obscura t----g
Zaprionus_indianus t----g
D_nasuta t----g
D. albomicans t----g
Scaptodrosophila_lebanonensis t----g
Phortica_variegata t----g
D. willistoni t----a
Eutreta_diana t----g
Stomoxys_calcitrans t----g
Proctacanthus_coquilletti t----t
Lutzomyia_longipalpis t----g
Bactrocera_dorsalis t----g
Bactrocera_latifrons t----g
Bactrocera_tryoni t----t
Bactrocera_oleae t----g
Zeugodacus_cucurbitae t----g
Ceratitis_capitata t----c
Cirrula_hians t----t
Ephydra_gracilis t----t
Glossina_austeni t----c
Glossina_morsitans_1 t----c
Glossina_morsitans_2 t----c
Glossina_pallidipes t----c
Glossina_fuscipes t----c
Glossina_palpalis_gambiensis t----c
Glossina_brevipalpis t----t
Calliphora_vicina tcagcg
Lucilia_cuprina t----g
Lucilia_sericata t----g
Phormia_regina t----t
Sarcophagidae_BV_2014 t----t
Paykullia_maculata t----g
Teleopsis_dalmanni t----t
Holcocephala_fusca t----t
Haematobia_irritans t----g
M. domestica t----g
Aedes_albopictus t----g
Rhagoletis_zephyria t----g
Culex_quinquefasciatus t----g
Belgica_antarctica t----t
Themira_minor t----c
A_maculatus t----g
A_sinensis t----g
A_culicifacies t----g
A_minimus t----g
A_funestus c----g
A_christyi t----g
A_arabiensis c----a
A_coluzzii t----a
A_quadriannulatus t----g
A_merus t----g
A_gambiae_1 t----g
A_melas t----g
A_epiroticus t----g
A_cracens t----g
A_dirus t----g
A_farauti t----g
A_koliensis t----g
A_punctulatus t----g
A_atroparvus t----g
A_darlingi t----g
A_albimanus ----ag
A_aquasalis ------
B D A. gambiae ------
Phlebotomus_papatasi ======
Tephritis_californica ======
T. castaneum ======
Inserts between block 57 and 58 in window
A_coluzzii 5bp
A_quadriannulatus 3bp
A_merus 3bp
A_gambiae_1 3bp
A_albimanus 2bp
Alignment block 58 of 252 in window, 12083864 - 12083864, 1 bps
B D D. melanogaster g
D D. simulans g
B D D. sechellia g
D. erecta g
D. yakuba g
D. ficusphila g
D. eugracilis g
D. biarmipes g
D. suzukii g
D. takahashii g
D. elegans g
D. rhopaloa g
D_serrata g
D. kikkawai g
D. ananassae g
D. bipectinata g
D_americana g
D_novamexicana g
D. virilis g
D_montana g
D_arizonae g
D. mojavensis g
D_navojoa g
D_hydei g
D_busckii g
D. grimshawi g
D_athabasca g
D_pseudoobscura_1 g
D. miranda g
B D D. persimilis g
D. pseudoobscura g
D_subobscura g
D_obscura g
Zaprionus_indianus g
D_nasuta g
D. albomicans g
Scaptodrosophila_lebanonensis g
Phortica_variegata g
D. willistoni g
Eutreta_diana g
Stomoxys_calcitrans g
Proctacanthus_coquilletti g
Lutzomyia_longipalpis g
Bactrocera_dorsalis g
Bactrocera_latifrons g
Bactrocera_tryoni g
Bactrocera_oleae g
Zeugodacus_cucurbitae g
Ceratitis_capitata g
Cirrula_hians g
Ephydra_gracilis g
Glossina_austeni g
Glossina_morsitans_1 g
Glossina_morsitans_2 g
Glossina_pallidipes g
Glossina_fuscipes g
Glossina_palpalis_gambiensis g
Glossina_brevipalpis g
Calliphora_vicina g
Lucilia_cuprina g
Lucilia_sericata g
Phormia_regina g
Sarcophagidae_BV_2014 g
Paykullia_maculata g
Teleopsis_dalmanni g
Holcocephala_fusca g
Haematobia_irritans g
M. domestica g
Aedes_albopictus a
Rhagoletis_zephyria g
Culex_quinquefasciatus c
Belgica_antarctica g
Themira_minor g
A_maculatus g
A_sinensis g
A_culicifacies a
A_minimus c
A_funestus a
A_christyi c
A_cracens g
A_dirus g
A_farauti g
A_koliensis g
A_punctulatus g
A_atroparvus g
A_darlingi g
A_aquasalis g
A_albimanus a
A_gambiae_1 =
A_melas -
B D A. gambiae -
A_merus =
A_quadriannulatus =
A_coluzzii =
Phlebotomus_papatasi =
Tephritis_californica =
T. castaneum =
Inserts between block 58 and 59 in window
A_cracens 2bp
A_dirus 2bp
A_farauti 2bp
A_koliensis 2bp
A_punctulatus 2bp
A_darlingi 2bp
Alignment block 59 of 252 in window, 12083865 - 12083869, 5 bps
B D D. melanogaster gtg-t-----g
D D. simulans gtg-t-----g
B D D. sechellia gtg-t-----g
D. erecta gtg-t-----g
D. yakuba gcg-t-----g
D. ficusphila ggg-t-----g
D. eugracilis gtg-t-----g
D. biarmipes gag-t-----g
D. suzukii gcg-t-----g
D. takahashii gtg-t-----c
D. elegans gcg-t-----g
D. rhopaloa gtg-t-----g
D_serrata gtg-t-----g
D. kikkawai gtg-t-----g
D. ananassae ggg-t-----g
D. bipectinata gtg-t-----g
D_americana gcg-t-----g
D_novamexicana gcg-t-----g
D. virilis gcg-t-----g
D_montana gcg-t-----g
D_arizonae gcg-t-----g
D. mojavensis gtg-t-----g
D_navojoa gcg-t-----g
D_hydei gcg-t-----g
D_busckii gtg-t-----g
D. grimshawi gtg-t-----g
D_athabasca gtg-t-----g
D_pseudoobscura_1 gtg-t-----t
D. miranda gtg-t-----t
B D D. persimilis gtg-t-----t
D. pseudoobscura gtg-t-----t
D_subobscura gtg-t-----g
D_obscura gtg-t-----g
Zaprionus_indianus ggg-t-----g
D_nasuta ggg-t-----g
D. albomicans ggg-t-----g
Scaptodrosophila_lebanonensis gcg-t-----g
Phortica_variegata gtg-t-----g
D. willistoni gtg-t-----g
Eutreta_diana ggg-t-----a
Stomoxys_calcitrans ggg-t-----c
Proctacanthus_coquilletti gtg-t-----a
Lutzomyia_longipalpis gcg-t-----g
Bactrocera_dorsalis gtg-t-----t
Bactrocera_latifrons gtg-t-----t
Bactrocera_tryoni gtg-t-----t
Bactrocera_oleae gtg-t-----g
Zeugodacus_cucurbitae gtg-t-----g
Ceratitis_capitata gtg-t-----t
Cirrula_hians gcg-t-----a
Ephydra_gracilis gtg-t-----g
Glossina_austeni gag-t-----t
Glossina_morsitans_1 gag-t-----t
Glossina_morsitans_2 gag-t-----t
Glossina_pallidipes gag-t-----t
Glossina_fuscipes gag-t-----t
Glossina_palpalis_gambiensis gag-t-----t
Glossina_brevipalpis gag-t-----t
Calliphora_vicina gag-tagcgga
Lucilia_cuprina ggg-t-----g
Lucilia_sericata ggg-t-----g
Phormia_regina gtg-t-----a
Sarcophagidae_BV_2014 ggg-t-----t
Paykullia_maculata gag-t-----a
Teleopsis_dalmanni gtg-t-----c
Holcocephala_fusca gcg-t-----t
Haematobia_irritans gtg-t-----a
M. domestica gag-t-----g
Aedes_albopictus atg-t-----g
Rhagoletis_zephyria gag-t-----g
Culex_quinquefasciatus gta-c-----g
Belgica_antarctica gtg-t-----c
Themira_minor gcg-t-----c
A_maculatus tga-t-----g
A_sinensis acg-t-----g
A_culicifacies gtg-t-----t
A_minimus gtg-t-----t
A_funestus ttgag-----c
A_christyi ata-c-----g
A_melas atg--------
A_cracens gtg--------
A_dirus gtg--------
A_farauti gtg--------
A_koliensis gtg--------
A_punctulatus gtg--------
A_atroparvus gcg-t-----g
A_darlingi gtg--------
A_aquasalis gag-c-----c
A_albimanus gcg-g-----c
A_gambiae_1 ===========
B D A. gambiae -----------
A_merus ===========
A_quadriannulatus ===========
A_coluzzii ===========
Phlebotomus_papatasi ===========
Tephritis_californica ===========
T. castaneum ===========
Inserts between block 59 and 60 in window
A_christyi 4bp
Alignment block 60 of 252 in window, 12083870 - 12083917, 48 bps
B D D. melanogaster ggtggcagt-tg------------------------c-cc------------------------------
D D. simulans ggtggcagt-tg------------------------g-cc------------------------------
B D D. sechellia ggtggcagt-tg------------------------c-cc------------------------------
D. erecta ggtggcagt-tg------------------------t-cc------------------------------
D. yakuba ggtggcagt-tg------------------------g-cc------------------------------
D. ficusphila ggcggcagc-tg------------------------g-cc------------------------------
D. eugracilis ggtggcagt-tg------------------------a-cc------------------------------
D. biarmipes ggcggcaac-tg------------------------g-cc------------------------------
D. suzukii ggcggcagc-tg------------------------g-cc------------------------------
D. takahashii ggaggcagt-tg------------------------g-cc------------------------------
D. elegans ggcggcagc-tg------------------------g-cc------------------------------
D. rhopaloa ggcggcagc-tg------------------------g-cc------------------------------
D_serrata ggcggcaga-tg------------------------g-cc------------------------------
D. kikkawai ggcggcagc-tg------------------------g-cc------------------------------
D. ananassae ggaggcagc-tg------------------------a-cc------------------------------
D. bipectinata ggcggcagc-tg------------------------g-cc------------------------------
D_americana ggcggaagc-tg------------------------g-cc------------------------------
D_novamexicana ggcggaagc-tg------------------------g-cc------------------------------
D. virilis ggcggcagc-tg------------------------g-cc------------------------------
D_montana ggcggcagc-tg------------------------g-cc------------------------------
D_arizonae ggcggcagc-tg------------------------g-cc------------------------------
D. mojavensis ggcggcagc-tg------------------------g-cc------------------------------
D_navojoa ggcggcagc-tg------------------------g-cc------------------------------
D_hydei ggcggcaac-tg------------------------g-cc------------------------------
D_busckii ggcggcagc-tg------------------------g-cc------------------------------
D. grimshawi ggtggcagt-tg------------------------g-cc------------------------------
D_athabasca ggcggcagc-tg------------------------g-cc------------------------------
D_pseudoobscura_1 ggcggcagc-tg------------------------a-cc------------------------------
D. miranda ggcggcagc-tg------------------------a-cc------------------------------
B D D. persimilis ggcggcagc-tg------------------------a-cc------------------------------
D. pseudoobscura ggcggcagc-tg------------------------a-cc------------------------------
D_subobscura ggcggcagc-tg------------------------g-cc------------------------------
D_obscura ggcggcagc-tg------------------------g-cc------------------------------
Zaprionus_indianus ggaggcagc-tg------------------------a-cc------------------------------
D_nasuta ggcggcagc-tg------------------------g-cc------------------------------
D. albomicans ggcggcagc-tg------------------------g-cc------------------------------
Scaptodrosophila_lebanonensis ggtggcagc-tgtatagtg------------ttcgag-cc------------------------------
Phortica_variegata ggtggcagt-tggatgacg------------gtggcg-cc------------------------------
D. willistoni ggcggtaat-tg------------------------g-cc------------------------------
Eutreta_diana ggtggtaat-tgtataccgttattattgctattagcg-ac------------------------------
Stomoxys_calcitrans ggaggcaac-tgtatgcccgaaga------------g-cc------------------------------
Proctacanthus_coquilletti ggtggaagt-tg------------------------t-at---------------accact---------
Lutzomyia_longipalpis ggtggaagg-tt------------------------c-ac------------------------------
Bactrocera_dorsalis ggtggtaat-tg------------------------t-at---------------gccactgttattg-g
Bactrocera_latifrons ggtggtaat-tg------------------------t-at---------------gccactgttattg-g
Bactrocera_tryoni ggtggtaat-tg------------------------t-at---------------gccactattattg-g
Bactrocera_oleae ggtggtaat-tg------------------------t-at---------------gccactgttatta-g
Zeugodacus_cucurbitae ggtggtaat-tg------------------------a-at---------------gccactgttgtta-g
Ceratitis_capitata ggtggcaat-tg------------------------t-at---------------gccactattgttg-g
Cirrula_hians ggtggcaac-tg------------------------t-at---------------gccagcggtatct-g
Ephydra_gracilis ggtggcaac-tg------------------------a-at---------------accgcctgtgtct-g
Glossina_austeni ggcggcagt-tg------------------------t-gc---------------tcc------------
Glossina_morsitans_1 ggcggcaat-tg------------------------t-gc---------------tcc------------
Glossina_morsitans_2 ggcggcaat-tg------------------------t-gc---------------tcc------------
Glossina_pallidipes ggcggcaat-tg------------------------t-gc---------------tcc------------
Glossina_fuscipes ggcggcaat-tg------------------------t-gc---------------tcc------------
Glossina_palpalis_gambiensis ggcggcaat-tg------------------------t-gc---------------tcc------------
Glossina_brevipalpis ggtggtaat-tg------------------------t-gc---------------tcc------------
Calliphora_vicina gaaggcaga-ag------------------------tggt---------------gttggg---------
Lucilia_cuprina ggaggcaat-tg------------------------t-at---------------gcccga---------
Lucilia_sericata ggaggcaat-tg------------------------t-at---------------gcctga---------
Phormia_regina ggaggcaat-tg------------------------a-at---------------accaga---------
Sarcophagidae_BV_2014 ggtggcaat-tg------------------------t-at---------------acccga---------
Paykullia_maculata ggtggcaat-tg------------------------a-at---------------acccga---------
Teleopsis_dalmanni ggtggtagt-tg------------------------a-attgtgttgttgattgcatttcc---------
Holcocephala_fusca ggaggaagt-tg------------------------a-at---------------accagattgataa-c
Haematobia_irritans ggtggtaat-tg------------------------t-at---------------atttgc---------
M. domestica ggtggcaat-tg------------------------a-at---------------gttgga---------
Chaoborus_trivitattus agcagccat-tg------------------------t-ag------------------------------
Aedes_albopictus a---------cg------------------------a-gc---------------gccattgcgatgagg
Rhagoletis_zephyria ggcggaagc-tg------------------------t-at---------------gccattgctatta-c
Culex_quinquefasciatus ----------------------------------------------------------------------
Belgica_antarctica tcaggcaat-tg------------------------a-at---------------gttgtt---------
Themira_minor gggggcaac-tg------------------------a-at-----------------------------a
A_maculatus ggtggcgtg-gg------------------------c-at------------------------------
A_sinensis ----------------------------------------------------------------------
A_culicifacies ggtgtcaatgtt------------------------g-gc------------------------------
A_minimus ggtgtcaatgtt------------------------g-gc------------------------------
A_funestus ggcactaat-tt------------------------g-ac------------------------------
A_christyi agcggcact-ta------------------------t-tt------------------------------
A_arabiensis ----------------------------------------------------------------------
A_coluzzii ----------------------------------------------------------------------
A_quadriannulatus ----------------------------------------------------------------------
A_merus ----------------------------------------------------------------------
B D A. gambiae ----------------------------------------------------------------------
A_gambiae_1 ----------------------------------------------------------------------
A_melas ----------------------------------------------------------------------
A_epiroticus ----------------------------------------------------------------------
A_cracens ggtggcgtg-gg------------------------c-gt------------------------------
A_dirus ggtggcgtg-gg------------------------c-gt------------------------------
A_farauti ggtggcgtg-gg------------------------c-gt------------------------------
A_koliensis ggtggcgtg-gg------------------------c-gt------------------------------
A_punctulatus ggtggcgtg-gg------------------------c-gt------------------------------
A_atroparvus ----------------------------------------------------------------------
A_darlingi ----------------------------------------------------------------------
A_aquasalis ----------------------------------------------------------------------
A_albimanus ----------------------------------------------------------------------
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster --------------------gaaggc---ggagg-----a--cacgga-c--------tcg---ttgg-g
D. simulans --------------------gaaggc---ggagg-----a--cacgga-c--------tcg---ttgg-g
D. sechellia --------------------gaaggc---ggagg-----a--cacgga-c--------tcg---ttgg-g
D. erecta --------------------gaaggc---ggagg-----a--gacgga-c--------tcg---ttgg-g
D. yakuba --------------------aaaggc---ggagg-----a--cacgga-c--------tcg---ttgg-g
D. ficusphila --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. eugracilis --------------------aaaggc---ggacg-----a--caccga-c--------tcg---ttgg-g
D. biarmipes --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. suzukii --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. takahashii --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. elegans --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. rhopaloa --------------------aaaggc---ggagg-----a--caccga-c--------tcg---ttgg-g
D_serrata --------------------aaagcc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. kikkawai --------------------aaaccc---ggagg-----a--caccga-c--------tcg---ttgg-g
D. ananassae --------------------aaatcc---ggagg-----a--gaccga-t--------tcg---ttgg-g
D. bipectinata --------------------aaatcc---ggagg-----a--caccga-c--------tcg---ttgg-g
D_americana --------------------aaagcc---ggagg-----a--gatgga-t--------tca---ttgg-g
D_novamexicana --------------------aaagcc---ggagg-----a--gatgga-t--------tca---ttgg-g
D. virilis --------------------aaagcc---agagg-----a--gatgga-c--------tcg---ttgg-g
D_montana --------------------aaagcc---ggagg-----a--gatcga-c--------tca---ttgg-g
D_arizonae --------------------aaaggt---ggagg-----a--gatgga-c--------tca---ttgg-g
D. mojavensis --------------------aaaggt---agagg-----a--gatgga-c--------tca---ttgg-g
D_navojoa --------------------aaaggt---ggatg-----a--gatgga-c--------tca---ttgg-g
D_hydei --------------------aaagtt---ggagg-----a--gatgga-c--------tca---ttgg-g
D_busckii --------------------aaagcc---ggagg-----a--gacaga-c--------tcg---ttgg-g
D. grimshawi --------------------aaagct---ggagg-----a--gatgga-c--------tcg---ttgg-g
D_athabasca --------------------aaatcc---ggagg-----a--gacgga-c--------tca---ttgg-g
D_pseudoobscura_1 --------------------aaaacc---ggagg-----a--gacgga-c--------tcg---ttgg-g
D. miranda --------------------aaaacc---ggagg-----a--gacgga-c--------tcg---ttgg-g
D. persimilis --------------------aaaacc---ggagg-----a--gacgga-c--------tcg---ttgg-g
D. pseudoobscura --------------------aaaacc---ggagg-----a--gacgga-c--------tcg---ttgg-g
D_subobscura --------------------aaagcc---agagg-----a--gacgga-c--------tca---ttgg-g
D_obscura --------------------aaagcc---ggagg-----a--gacgga-c--------tca---ttgg-g
Zaprionus_indianus --------------------aaagccgctggagg-----a--gatgga-c--------tcg---ttgg-g
D_nasuta --------------------gaagccggtggagc-----a--gatgga-c--------tcg---ttgg-g
D. albomicans --------------------gaagccggtggagc-----a--gatgga-c--------tcg---ttgg-g
Scaptodrosophila_lebanonensis --------------------gaagtt---ggagg-----a--tgccga-c--------tca---ttgg-g
Phortica_variegata --------------------ataggc---tgatg-----a--aacaga-t--------tca---tttg-g
D. willistoni --------------------aaaagt---ggaag-----a--taccga-c--------tca---ttgg-g
Eutreta_diana --------------------aaaagc---tggcg-----a--tgccga-t--------gca---ttag-g
Stomoxys_calcitrans --------------------ataagc---ggaat-----t--gatgga-t--------tcg---ctgg-g
Proctacanthus_coquilletti -----------------------cgc---atatg-----a--attatt-c--------cca---ttag-g
Lutzomyia_longipalpis ------------------cgatgtgg---ggaag-----t--gactggct--------gct---gttg-g
Bactrocera_dorsalis c----------agtagtgccgaatgc---tggcg-----a--taccga-t--------gcg---ttgg-g
Bactrocera_latifrons c----------agtagtgccgaatgc---tggcg-----a--caccga-t--------gca---ttgg-g
Bactrocera_tryoni c----------agtagtgccgaatgc---tggcg-----a--caccga-t--------gcg---ttgg-g
Bactrocera_oleae c----------agtagtgccgaatgc---tggtg-----a--caccga-t--------gca---ttgg-g
Zeugodacus_cucurbitae c----------cgtagcgccgaatgc---tggcg-----a--caccga-t--------gtg---ttgg-g
Ceratitis_capitata c----------attactgccaaagga---gggcg-----a--aaccga-c--------tca---ttgg-g
Cirrula_hians c-------------gctgccgtatgc---ggatg-----a--aaccga-t--------tca---ttgg-g
Ephydra_gracilis c-------------gctaccgtaggc---ggacg-----a--gaccga-t--------tca---ttgg-g
Glossina_austeni ----------------------------------------------------------------------
Glossina_morsitans_1 ----------------------------------------------------------------------
Glossina_morsitans_2 ----------------------------------------------------------------------
Glossina_pallidipes ----------------------------------------------------------------------
Glossina_fuscipes ----------------------------------------------------------------------
Glossina_palpalis_gambiensis ----------------------------------------------------------------------
Glossina_brevipalpis ----------------------------------------------------------------------
Calliphora_vicina --------------caaggagtaggc---ggagc-----t--ggtgta-a--------gaa---ccgg-c
Lucilia_cuprina --------------agaaccataggc---agaat-----t--gatgga-t--------tca---ctag-g
Lucilia_sericata --------------agaaccataggc---ggagt-----t--aataga-t--------tca---ctag-g
Phormia_regina --------------tgaaccataagc---agaat-----t--aagaga-t--------tca---ctag-g
Sarcophagidae_BV_2014 --------------tgagccgtaagc---agaat-----t--atttga-t--------tca---ctag-g
Paykullia_maculata --------------tgagccataagc---agagt-----t--gaggga-t--------tcg---ctag-g
Teleopsis_dalmanni --------------agaaccataatt---tgggg-----a--taatga-t--------tcg---ttgg-g
Holcocephala_fusca c-------------tgaaccatta----------------------------------tca---ttag-g
Haematobia_irritans --------------agatccataagc---ggaat-----t--tataga-t--------tcg---cttg-g
M. domestica --------------ggaaccataggc---tgagt-----t--aatcga-t--------tca---ctgg-g
Chaoborus_trivitattus ------------------------gt---gggaa-----a--gatgag-g--------ttg---ctgg-g
Aedes_albopictus a----------gttgtcgatggaggc---g----------------ga-t--------gcg---ttgg-c
Rhagoletis_zephyria c----------gttggcgccgaaagc---tggtg-----a--taccga-t--------gca---ttgg-g
Culex_quinquefasciatus --------------------aggact---ggctg-----t--tgtcga----------tca---tggg-g
Belgica_antarctica --------------------actgcc---tgtga-----actgatcga-ca-------gag---cttg-g
Themira_minor cccaaggctccggcactgccataggc---agatg-----a--gatgga-a--------tcg---ttgg-g
A_maculatus --------------------gatgtg---gatgc-----a--gctgga-c--------atg---ttgg-g
A_sinensis ---------------ggcgtgaggat---ggtgc-----g--catgga-cctgcgcctgcg---tcgg-a
A_culicifacies --------------tgtggtcgtggc---ggatg-----g---gtaga-c---------tg---ttgc-g
A_minimus --------------agtggccgtggc---ggatg-----g---gtaga-c---------tg---ttgc-g
A_funestus --------------cggcatggtgat---gggtg-----g--cgtggg-c--------gtg---atgt-g
A_christyi -----------gacctgcgtggtgat---gggtg-----g--cgtgtg-t--------gtg---atgc-g
A_arabiensis --------ggtgttg-----atgacg---gcagc-----t--cggagc-a--------acg---c----a
A_coluzzii --------agcgtcat-accgtgcag---ggagcccccgt--cgaagg-t--------aag---ccccga
A_quadriannulatus --------ggtggcgtgggcgtgatg---tgagt-----g--caacga-c--------aca---tgtt-g
A_merus --------ggtagcgtgggcgtgatg---tgagt-----g--caacga-c--------aca---tgtt-g
A. gambiae --------ggtgttg-----atgacg---gcagc-----t--cggagc-a--------acg---c----a
A_gambiae_1 --------ggtggcgtgggcgtgatg---tgagt-----g--caacga-c--------aca---tgtt-g
A_melas --------ggtggcgtgggcatgatg---tgagt-----g--caacga-c--------aca---tgtt-g
A_epiroticus ------------gtgtgggtgtgatg---cggga-----g--cagcga-c--------aca---tgtt-g
A_cracens --------------------gatgcg---ggtgc-----a--gctgga-c--------gtg---ctgc-g
A_dirus --------------------gatgcg---ggtgc-----a--gctgga-c--------gtg---ctgc-g
A_farauti --------------------gttgcg---ggtgc-----a--gctgaa-c--------gtg---ctgc-g
A_koliensis --------------------gatgcg---ggtgc-----a--gctgaa-c--------gtg---ctgc-g
A_punctulatus --------------------gatgcg---ggtgc-----a--gctgaa-c--------atg---ctgc-g
A_atroparvus --------ggtatgaagcccctgcgc---ggcct-----g--tgccgg-g--------gtg---tggg--
A_darlingi ------------------tgtgggat---gggcg-----a--gacgga-g--------gtggaattag-c
A_aquasalis -----ggtcccggtatgtgtgggaac---tggcg-----a--aacgga-g--------------gtag-a
A_albimanus -----------------ggtggccat---tggca-----g--gttcga-c--------tca---ttgc-t
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster ---g--------ctc----------tcg
D. simulans ---g--------ctc----------tcg
D. sechellia ---g--------ctc----------tcg
D. erecta ---g--------ctc----------tcg
D. yakuba ---g--------ctc----------tcg
D. ficusphila ---a--------ctc----------tcg
D. eugracilis ---a--------ctc----------tca
D. biarmipes ---a--------ctc----------tca
D. suzukii ---a--------ctc----------tcg
D. takahashii ---a--------ctc----------tcg
D. elegans ---a--------ctc----------tcg
D. rhopaloa ---a--------ctc----------tcg
D_serrata ---g--------ctc----------tcg
D. kikkawai ---g--------ctc----------tcg
D. ananassae ---g--------ctc----------tcg
D. bipectinata ---g--------ctc----------tcg
D_americana ---g--------ctc----------gca
D_novamexicana ---g--------ctt----------gca
D. virilis ---g--------ctc----------gca
D_montana ---g--------ctc----------gca
D_arizonae ---a--------ctt----------gga
D. mojavensis ---a--------ctc----------gga
D_navojoa ---a--------ctc----------gga
D_hydei ---a--------ctc----------gga
D_busckii ---a--------ctc----------tcg
D. grimshawi ---a--------ctc----------tcg
D_athabasca ---a--------ctc----------tcg
D_pseudoobscura_1 ---a--------ctc----------tcg
D. miranda ---a--------ctc----------tcg
D. persimilis ---a--------ctc----------tcg
D. pseudoobscura ---a--------ctc----------tcg
D_subobscura ---a--------ctc----------tcg
D_obscura ---a--------ctc----------tcg
Zaprionus_indianus ---a--------ctc----------tcg
D_nasuta ---a--------ctc----------tcg
D. albomicans ---a--------ctc----------tcg
Scaptodrosophila_lebanonensis ---g--------ctc----------tcg
Phortica_variegata ---a--------ctc----------tcg
D. willistoni ---g--------ctc----------tcg
Eutreta_diana ---a--------cta----------acg
Stomoxys_calcitrans ---g--------cta----------tcg
Proctacanthus_coquilletti ---a--------ctg----------tcg
Lutzomyia_longipalpis ---g--------cta----------ttg
Bactrocera_dorsalis ---a--------ctc----------tca
Bactrocera_latifrons ---a--------ctc----------tca
Bactrocera_tryoni ---a--------ccc----------tca
Bactrocera_oleae ---a--------ctc----------tca
Zeugodacus_cucurbitae ---a--------ctg----------tcg
Ceratitis_capitata ---a--------ctt----------gca
Cirrula_hians ---g--------ctg----------gca
Ephydra_gracilis ---g--------cta----------gta
Glossina_austeni ----------------------------
Glossina_morsitans_1 ----------------------------
Glossina_morsitans_2 ----------------------------
Glossina_pallidipes ----------------------------
Glossina_fuscipes ----------------------------
Glossina_palpalis_gambiensis ----------------------------
Glossina_brevipalpis ----------------------------
Calliphora_vicina ---a--------tttg-gcgcttggtta
Lucilia_cuprina ---a--------ctt----------tca
Lucilia_sericata ---a--------ctt----------tca
Phormia_regina ---a--------ctg----------tcg
Sarcophagidae_BV_2014 ---a--------cta----------tca
Paykullia_maculata ---a--------cta----------tca
Teleopsis_dalmanni ---a--------ctt----------tca
Holcocephala_fusca ---a--------cta----------tca
Haematobia_irritans ---a--------cta----------tca
M. domestica ---a--------ctg----------tca
Chaoborus_trivitattus ---g--------ctggagctactgcttg
Aedes_albopictus ---g--------gtg----------ttg
Rhagoletis_zephyria ---a--------ctc----------tca
Culex_quinquefasciatus ---aagtagctgctg----------tag
Belgica_antarctica ---g--------ctt----------tcg
Themira_minor ---g--------ctc----------tcg
A_maculatus ---g--------gtt----------gct
A_sinensis ---g--------tat----------gcg
A_culicifacies tacg--------att----------gag
A_minimus tacg--------att----------gag
A_funestus ---g--------atg----------cag
A_christyi ---g--------atg----------c--
A_arabiensis ---g--------ccg----------ccg
A_coluzzii ---g--------ctg----------ctc
A_quadriannulatus ---g--------gtg----------ttg
A_merus ---g--------gtg----------ttg
A. gambiae ---g--------ccg----------ccg
A_gambiae_1 ---g--------gtg----------ttg
A_melas ---g--------gtg----------ttg
A_epiroticus ---g--------ggg----------ttg
A_cracens ---g--------atg----------gtg
A_dirus ---g--------atg----------gtg
A_farauti tgtg--------gtg----------gtg
A_koliensis ---a--------gtg----------gtg
A_punctulatus ---a--------gtg----------gtg
A_atroparvus ----------------------------
A_darlingi ---g--------cca----------gcg
A_aquasalis ---g--------tta----------gcg
A_albimanus ---g--------cca----------ccg
Phlebotomus_papatasi ============================
Tephritis_californica ============================
T. castaneum ============================
Inserts between block 60 and 61 in window
A_christyi 1bp
A_arabiensis 11bp
A_coluzzii 62bp
A_quadriannulatus 5bp
A_merus 5bp
B D A. gambiae 11bp
A_gambiae_1 5bp
A_melas 5bp
A_epiroticus 5bp
A_cracens 7bp
A_dirus 7bp
A_farauti 7bp
A_koliensis 7bp
A_punctulatus 7bp
A_darlingi 11bp
A_aquasalis 1bp
Alignment block 61 of 252 in window, 12083918 - 12083921, 4 bps
B D D. melanogaster t--tg--c
D D. simulans t--tg--c
B D D. sechellia t--ta--c
D. erecta t--ta--c
D. yakuba t--ta--c
D. ficusphila t--tg--c
D. eugracilis t--tg--c
D. biarmipes t--tg--c
D. suzukii t--tg--c
D. takahashii t--tg--c
D. elegans t--tg--c
D. rhopaloa t--tg--c
D_serrata t--ta--c
D. kikkawai t--tg--c
D. ananassae t--tg--c
D. bipectinata t--tg--c
D_americana t--ta--c
D_novamexicana t--ta--c
D. virilis t--ta--c
D_montana t--ta--c
D_arizonae t--ta--c
D. mojavensis t--ta--c
D_navojoa t--ta--c
D_hydei t--ta--c
D_busckii t--ta--c
D. grimshawi t--ta--c
D_athabasca t--ta--c
D_pseudoobscura_1 t--ta--c
D. miranda t--ta--c
B D D. persimilis t--ta--c
D. pseudoobscura t--ta--c
D_subobscura t--ta--c
D_obscura t--ta--c
Zaprionus_indianus t--ta--c
D_nasuta t--ta--c
D. albomicans t--ta--c
Scaptodrosophila_lebanonensis t--tg--c
Phortica_variegata t--ta--c
D. willistoni t--ta--c
Eutreta_diana t--cg--c
Stomoxys_calcitrans t--tg--c
Proctacanthus_coquilletti t--tt--c
Lutzomyia_longipalpis t--tg--c
Bactrocera_dorsalis t--ca--c
Bactrocera_latifrons t--ca--c
Bactrocera_tryoni t--ca--c
Bactrocera_oleae t--ca--c
Zeugodacus_cucurbitae t--ca--c
Ceratitis_capitata t--cg--c
Cirrula_hians t--cg--c
Ephydra_gracilis t--ct--c
Glossina_austeni t--ga--t
Glossina_morsitans_1 t--ga--t
Glossina_morsitans_2 t--ga--t
Glossina_pallidipes t--ga--t
Glossina_fuscipes t--ga--t
Glossina_palpalis_gambiensis t--ga--t
Glossina_brevipalpis t--ga--a
Calliphora_vicina gcatg--g
Lucilia_cuprina t--tg--c
Lucilia_sericata t--tg--c
Phormia_regina t--tg--c
Sarcophagidae_BV_2014 t--ta--c
Paykullia_maculata t--tg--c
Teleopsis_dalmanni t--ta--c
Holcocephala_fusca t--tg--c
Haematobia_irritans t--tg--c
M. domestica t--tg--c
Chaoborus_trivitattus t--tg--t
Aedes_albopictus t--tggcc
Rhagoletis_zephyria t--cg--c
Culex_quinquefasciatus t--ta--g
Belgica_antarctica t--tt--c
Themira_minor t--ta--c
A_maculatus g--t----
A_sinensis t--gg--t
A_culicifacies c--gg--c
A_minimus c--gg--c
A_funestus c--tg--g
A_arabiensis t--ga--c
A_quadriannulatus c--ag--c
A_merus t--ag--c
B D A. gambiae t--ga--c
A_gambiae_1 c--ag--c
A_melas t--ag--c
A_epiroticus c--ag--c
A_cracens --gtg--t
A_dirus --gtg--t
A_farauti t--tg--t
A_koliensis t--tg--t
A_punctulatus t--tg--t
A_atroparvus t--ag--t
A_darlingi t--gg--a
A_aquasalis c--gg--c
A_albimanus t--tg--c
A_coluzzii ========
A_christyi ========
Phlebotomus_papatasi ========
Tephritis_californica ========
T. castaneum ========
Inserts between block 61 and 62 in window
Lutzomyia_longipalpis 1207bp
Culex_quinquefasciatus 2bp
A_maculatus 3bp
A_cracens 13bp
A_dirus 13bp
A_farauti 13bp
A_koliensis 13bp
A_punctulatus 13bp
A_aquasalis 2bp
Alignment block 62 of 252 in window, 12083922 - 12083946, 25 bps
B D D. melanogaster gtg---gca--------t----ag-------tctggtg--------------ggtttccg-t--------
D D. simulans gtg---gca--------t----gg-------tctggtg--------------ggcttccg-t--------
B D D. sechellia gtg---gca--------t----gg-------tctggtg--------------ggcttccg-a--------
D. erecta gtg---gca--------t----cg-------tctggtg--------------ggcttccg-t--------
D. yakuba gtg---gca--------t----cg-------tttggtg--------------ggcttccg-t--------
D. ficusphila gtg---gca--------t----cg-------ccgagtg--------------ggtttccg-t--------
D. eugracilis gtg---gca--------t----gg-------tctgatg--------------ggtttccg-t--------
D. biarmipes gcg---gca--------t----cg-------tttggtt--------------ggcatcag-t--------
D. suzukii gcg---gca--------t----cg-------tctggtg--------------ggcatccg-t--------
D. takahashii gcg---gca--------t----cg-------tctggtg--------------ggcatccg-t--------
D. elegans gcg---gcatgg-----t----cg-------tctggtg--------------ggtttccg-t--------
D. rhopaloa gcg---gca--------t----cg-------tctggtg--------------ggcatccg-c--------
D_serrata gcg---gca--------tgtg-gg-------tctggtg--------------ggtctcgg-t--------
D. kikkawai gcg---gca--------tgtg-gg-------gctggtg--------------ggtctcgg-t--------
D. ananassae gag---gca--------t----cg-------actggtg--------------gacttctg-a--------
D. bipectinata gag---gca--------t----tg-------actggtg--------------gacttccg-a--------
D_americana gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_novamexicana gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D. virilis gtg---gca--------t----tg-------tctgatg--------------cggttcag-a--------
D_montana gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_arizonae gtg---gca--------t----tg-------tctgatg--------------gggctcag-a--------
D. mojavensis gtg---gca--------t----tg-------tctgatg--------------gggctcag-a--------
D_navojoa gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_hydei gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_busckii gtg---gca--------t----tg-------tctgatg--------------tggctcag-a--------
D. grimshawi gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_athabasca gtg---gca--------t----tg-------tctgatg--------------cgggtcag-a--------
D_pseudoobscura_1 gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D. miranda gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
B D D. persimilis gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D. pseudoobscura gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D_subobscura gcg---gca--------t----tg-------tctgaag--------------cggctcag-a--------
D_obscura gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
Zaprionus_indianus gtg---gca--------t----tg-------tctgatg--------------tggttcag-a--------
D_nasuta gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
D. albomicans gtg---gca--------t----tg-------tctgatg--------------cggctcag-a--------
Scaptodrosophila_lebanonensis gcg---gca--------t----tg-------tctgatt--------------tggatcgg-a--------
Phortica_variegata gtg---gca--------a----tg-------tctgatt--------------ggcgtcag-a--------
D. willistoni gtg---gca--------t----tg-------tctgatg--------------tggctcag-a--------
Eutreta_diana gtt---gtg--------t----ca-------acacctg--------------tggcgctg-a--------
Stomoxys_calcitrans gca---caa--------t----tg-------gagcagc--------------gttttcgt-t--------
Proctacanthus_coquilletti gaa---gga--------t----gg-------tctgatg--------------aggttcaaca--------
Lutzomyia_longipalpis gcg---cca--------t----tgagggctgcattgtg--------------agactccg----------
Bactrocera_dorsalis gtg---tca--------a----ca-------gctggtt--------------ggaatccg----------
Bactrocera_latifrons gtg---tca--------a----ca-------gatggtt--------------ggaatctg----------
Bactrocera_tryoni ggg---tca--------a----ca-------gctggtt--------------ggaatccg----------
Bactrocera_oleae gtg---tca--------t----ca-------gctgatt--------------ggaatctg----------
Zeugodacus_cucurbitae gag---tca--------a----ca-------attggtt--------------ggaatccg----------
Ceratitis_capitata gcg---aca--------t----ga-------gttggtt--------------cgcttccg----------
Cirrula_hians gtg---cga--------g----cg-------tttgatt--------------tgtatcgg-a--------
Ephydra_gracilis gtg---tta--------g----tg-------cttgatt--------------tgtttcgg-a--------
Glossina_austeni gta---cca--------t----aa-------gttgtta--------------gat---------------
Glossina_morsitans_1 gtg---cca--------t----aa-------gttgtta--------------ggt---------------
Glossina_morsitans_2 gta---cca--------t----aa-------gttgtta--------------ggt---------------
Glossina_pallidipes gta---cca--------t----aa-------gttgtta--------------ggt---------------
Glossina_fuscipes gta---cca--------t----aag----ttgttgtta--------------ggt---------------
Glossina_palpalis_gambiensis gta---cca--------t----aag----ttgttgtta--------------ggt---------------
Glossina_brevipalpis gca---cca--------t----ag-------gctgttaaagacgtgtcattggga---------------
Calliphora_vicina gca---tac--------g----ag-------gaactgt--------------taatgtag-t--------
Lucilia_cuprina gta---caa--------t----ag-------cagcatt--------------cgattcag-t--------
Lucilia_sericata gta---caa--------t----gg-------gagcatt--------------tgattccg-t--------
Phormia_regina gta---caatgg-----t----gg-------cggcatt--------------tgattcag-t--------
Sarcophagidae_BV_2014 gtg---caa--------c----tg-------cagaatg--------------tgtttcag-a--------
Paykullia_maculata gca---caa--------t----gg-------tgccact--------------tgattcac-t--------
Teleopsis_dalmanni gtg---gca--------t----tg-------tctgatt--------------tgtctcag-a--------
Holcocephala_fusca gaa---gaa--------g----aa-------tttgatg--------------tccttctg-t--------
Haematobia_irritans ggg---cta--------t----tg-------gagcact--------------gatttcat-t--------
M. domestica gtggaacaa--------t----tg-------gagcggt--------------ggtttcat-t--------
Chaoborus_trivitattus tca---aat--------t----ga-------gatggat--------------atggnggg-a--------
Aedes_albopictus gtg---gcg--------t----ag-------gatgcgg--------------tggttgcg-t--------
Rhagoletis_zephyria gtg---aca--------t----gg-------cttgcgc--------------cgtcaccg-t--------
Culex_quinquefasciatus gtg---gc---------t----gc-------tgcggtg--------------gagttctg-g--------
Belgica_antarctica -------ca--------t----tg-------agtgaac--------------cgttcacg-t--------
Themira_minor gtg---gca--------t----tg-------tctgatt--------------cgtgtcag-a--------
A_maculatus gca---tcg--------a----ga-------agtagtt--------------gtatccgg-t--------
A_sinensis --------a--------t----tg-------tccagca--------------tggcaaag-t--------
A_culicifacies -----------actaatt----tg-------actggca--------------tggtgatg----------
A_minimus -----------actaatt----tg-------actggca--------------tggtgatg----------
A_funestus -----------acatgtt-----------------gcg--------------ggttgctg----------
A_christyi gcg---aca--------tatgctg-------agtgctg--------------ttgtccag----------
A_arabiensis ----gcgga--------g----ca-------gccagtg-------------------ggg-a--------
A_quadriannulatus ----ataga--------g----aa-------gtagttg--------------tatcctgg-c--------
A_merus ----ataga--------g----aa-------gtagttg--------------tatcccgg-c--------
B D A. gambiae ----gcgga--------g----ca-------gctagtg--------------------gg-g--------
A_gambiae_1 ----ataga--------g----aa-------gtagttg--------------tatcctgg-c--------
A_melas ----ataga--------g----aa-------gtagttg--------------tatcccgg-c--------
A_epiroticus ----ataga--------g----aa-------gtagtta--------------tatccgga-c--------
A_cracens gta---gcc--------g----ta-------tccggac--------------ggctgcgt----------
A_dirus gta---gcc--------g----ta-------tccggac--------------gactgcgt----------
A_farauti ata---gct--------g----ta-------tccggac--------------gactgcgt----------
A_koliensis ata---gct--------g----ta-------tccggac--------------gactgcgt----------
A_punctulatus gta---gct--------g----ta-------tccggac--------------gactgcgt----------
A_atroparvus --------a--------t----tg-------tccagca--------------tggagaag-t--------
A_darlingi --------------------------------ctgacc--------------gagctcgg-t--------
A_aquasalis ggg---acg--------c----ag-------gtgggct--------------ga----------------
A_albimanus -cg---gta--------c----cg-------tgcagcg--------------agagcgag-ctggcggta
A_coluzzii ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster ------
D. simulans ------
D. sechellia ------
D. erecta ------
D. yakuba ------
D. ficusphila ------
D. eugracilis ------
D. biarmipes ------
D. suzukii ------
D. takahashii ------
D. elegans ------
D. rhopaloa ------
D_serrata ------
D. kikkawai ------
D. ananassae ------
D. bipectinata ------
D_americana ------
D_novamexicana ------
D. virilis ------
D_montana ------
D_arizonae ------
D. mojavensis ------
D_navojoa ------
D_hydei ------
D_busckii ------
D. grimshawi ------
D_athabasca ------
D_pseudoobscura_1 ------
D. miranda ------
D. persimilis ------
D. pseudoobscura ------
D_subobscura ------
D_obscura ------
Zaprionus_indianus ------
D_nasuta ------
D. albomicans ------
Scaptodrosophila_lebanonensis ------
Phortica_variegata ------
D. willistoni ------
Eutreta_diana ------
Stomoxys_calcitrans ------
Proctacanthus_coquilletti ------
Lutzomyia_longipalpis ------
Bactrocera_dorsalis ------
Bactrocera_latifrons ------
Bactrocera_tryoni ------
Bactrocera_oleae ------
Zeugodacus_cucurbitae ------
Ceratitis_capitata ------
Cirrula_hians ------
Ephydra_gracilis ------
Glossina_austeni ------
Glossina_morsitans_1 ------
Glossina_morsitans_2 ------
Glossina_pallidipes ------
Glossina_fuscipes ------
Glossina_palpalis_gambiensis ------
Glossina_brevipalpis ------
Calliphora_vicina ------
Lucilia_cuprina ------
Lucilia_sericata ------
Phormia_regina ------
Sarcophagidae_BV_2014 ------
Paykullia_maculata ------
Teleopsis_dalmanni ------
Holcocephala_fusca ------
Haematobia_irritans ------
M. domestica ------
Chaoborus_trivitattus ------
Aedes_albopictus ------
Rhagoletis_zephyria ------
Culex_quinquefasciatus ------
Belgica_antarctica ------
Themira_minor ------
A_maculatus ------
A_sinensis ------
A_culicifacies ------
A_minimus ------
A_funestus ------
A_christyi ------
A_arabiensis ------
A_quadriannulatus ------
A_merus ------
A. gambiae ------
A_gambiae_1 ------
A_melas ------
A_epiroticus ------
A_cracens ------
A_dirus ------
A_farauti ------
A_koliensis ------
A_punctulatus ------
A_atroparvus ------
A_darlingi ------
A_aquasalis ------
A_albimanus tgtggg
A_coluzzii ======
Phlebotomus_papatasi ======
Tephritis_californica ======
T. castaneum ======
Inserts between block 62 and 63 in window
Aedes_albopictus 35bp
A_maculatus 9bp
A_sinensis 10bp
A_arabiensis 10bp
A_quadriannulatus 10bp
A_merus 10bp
B D A. gambiae 10bp
A_gambiae_1 10bp
A_melas 10bp
A_epiroticus 2bp
A_atroparvus 3bp
A_darlingi 6bp
Alignment block 63 of 252 in window, 12083947 - 12083961, 15 bps
B D D. melanogaster tt---c-----------------g-------------------------------------gtg--ccgt
D D. simulans tt---c-----------------g-------------------------------------gtg--ccgt
B D D. sechellia tt---c-----------------g-------------------------------------gtg--gcgt
D. erecta tt---c-----------------g-------------------------------------gtt--ccgt
D. yakuba tt---c-----------------g-------------------------------------gtg--ccgt
D. ficusphila tt---c-----------------g-------------------------------------gtt--ccgt
D. eugracilis tt---c-----------------a-------------------------------------gtt--ccgt
D. biarmipes tt---c-----------------g-------------------------------------gtt--ccgt
D. suzukii tt---c-----------------g-------------------------------------gtt--ccgt
D. takahashii ct---c-----------------ggcc----------------------------------gct--ccat
D. elegans ct---c-----------------c-------------------------------------gtt--ccgt
D. rhopaloa tt---c-----------------g-------------------------------------gtt--ccgt
D_serrata tt---c-----------------c-------------------------------------tgg--ccgt
D. kikkawai tt---c-----------------a-------------------------------------gtg--ccgt
D. ananassae ct---c-----------------g-------------------------------------gtg--ccgt
D. bipectinata tt---c-----------------g-------------------------------------gtg--ccgt
D_americana tt---c-----------------a-------------------------------------gtg--ctgt
D_novamexicana tt---c-----------------a-------------------------------------gtg--ctgt
D. virilis tt---c-----------------a-------------------------------------gtg--ctgt
D_montana tt---c-----------------a-------------------------------------gtg--ctgt
D_arizonae tt---c-----------------a-------------------------------------gtg--ctgt
D. mojavensis tt---c-----------------a-------------------------------------gtg--ctgt
D_navojoa tt---c-----------------a-------------------------------------gtg--ctgt
D_hydei tt---c-----------------a-------------------------------------gtg--ctgt
D_busckii tt---c-----------------a-------------------------------------gtg--ctgt
D. grimshawi tt---c-----------------a-------------------------------------gtg--ctgt
D_athabasca tt---c-----------------a-------------------------------------gtg--ctgt
D_pseudoobscura_1 tt---c-----------------a-------------------------------------gtg--ctgt
D. miranda tt---c-----------------a-------------------------------------gtg--ctgt
B D D. persimilis tt---c-----------------a-------------------------------------gtg--ctgt
D. pseudoobscura tt---c-----------------a-------------------------------------gtg--ctgt
D_subobscura tt---c-----------------a-------------------------------------gtg--ctgt
D_obscura tt---c-----------------a-------------------------------------gtg--ctgt
Zaprionus_indianus tt---c-----------------a-------------------------------------gtg--ctgt
D_nasuta tg---c-----------------a-------------------------------------gtg--ctgt
D. albomicans tg---c-----------------a-------------------------------------gtg--ctgt
Scaptodrosophila_lebanonensis ct---c-----------------g-------------------------------------gtg--gtat
Phortica_variegata tt---c-----------------a-------------------------------------gtg--ctgt
D. willistoni tt---c-----------------a-------------------------------------gtg--ctgt
Eutreta_diana gt---c-----------------t-------------------------------------gtg--acgg
Stomoxys_calcitrans tt---c-----------------g-------------------------------------ttg--gcgt
Proctacanthus_coquilletti ct---c-----------------g-------------------------------------cag--ttgt
Lutzomyia_longipalpis -a---t-----------------g-------------------------------------ggg--tgta
Bactrocera_dorsalis -t---c-----------------g-------------------------------------cgt--tttc
Bactrocera_latifrons -t---c-----------------g-------------------------------------cgg--tttc
Bactrocera_tryoni -t---c-----------------g-------------------------------------cgt--tttc
Bactrocera_oleae -t---c-----------------g-------------------------------------cgg--tttc
Zeugodacus_cucurbitae -t---t-----------------g-------------------------------------cgg--tttc
Ceratitis_capitata -t---t-----------------g-------------------------------------ccg--ctgc
Cirrula_hians tt---c-----------------a-------------------------------------ccg--ttat
Ephydra_gracilis tt---c-----------------a-------------------------------------ccg--ttat
Glossina_austeni -t---c-----------------gcctcactg-----------------ggcggac--tgccat--tttt
Glossina_morsitans_1 -t---c-----------------g-------------------------------------cct--cact
Glossina_morsitans_2 -t---c-----------------g-------------------------------------cct--cact
Glossina_pallidipes -t---c-----------------g-------------------------------------cct--cact
Glossina_fuscipes -t---cgcctcactgggaggactg-------------------------------------cca--tttt
Glossina_palpalis_gambiensis -t---cgcctcactgggaggactg-------------------------------------cca--tttt
Glossina_brevipalpis -c---t-----------------g-------------------------------------tca--tttt
Calliphora_vicina tt----------------------------------------------------------------tgat
Lucilia_cuprina tt---c-----------------a-------------------------------------tgg--tgat
Lucilia_sericata tt---c-----------------a-------------------------------------tgg--tgat
Phormia_regina tt---c-----------------a-------------------------------------ctg--tgat
Sarcophagidae_BV_2014 tt---c-----------------a-------------------------------------ttt--ggat
Paykullia_maculata gt---c-----------------a-------------------------------------ttg--tggt
Teleopsis_dalmanni tt---c-----------------a-------------------------------------atg--ttgt
Holcocephala_fusca tc---c-----------------a-------------------------------------atatttgat
Haematobia_irritans ttccac-----------------a-------------------------------------gtg--tatg
M. domestica tt---c-----------------t-------------------------------------gca--gcat
Chaoborus_trivitattus ct---c-----------------a-------------------------------------ttg--tggc
Rhagoletis_zephyria ---------------------------cgcagcttctgttgcgatgtaagatagatggtgcgtg--ctat
Culex_quinquefasciatus at---c-----------------g-------------------------------------gag--agga
Belgica_antarctica tc---t-----------------g-------------------------------------ggg--tggt
Themira_minor tt---c-----------------a-------------------------------------gtg--ctgt
A_maculatus tg---t-----------------g-------------------------------------cca--ctgc
A_sinensis --------------------gtgg-------------------------------------ggt--ccgt
A_culicifacies -----------------------g-------------------------------------gtg--gcgt
A_minimus -----------------------g-------------------------------------gtg--gcgt
A_funestus -----------------------t-------------------------------------cca--acat
A_christyi ---cat-----------------g-------------------------------------gag--aagt
A_arabiensis -----c-----------------t-------------------------------------ttc--t---
A_quadriannulatus -----c-----------------a-------------------------------------ctg--ttgg
A_merus -----c-----------------a-------------------------------------ctg--ttgg
B D A. gambiae -----c-----------------t-------------------------------------ctc--t---
A_gambiae_1 -----c-----------------a-------------------------------------ctg--ttga
A_melas -----c-----------------a-------------------------------------ctg--ttgg
A_cracens tg---c-----------------g-------------------------------------ttg--ccga
A_dirus tg---c-----------------g-------------------------------------ttg--ccga
A_farauti tc---c-----------------g-------------------------------------gtg--ccag
A_koliensis tc---c-----------------a-------------------------------------gtg--ctgc
A_punctulatus tc---c-----------------g-------------------------------------ttg--ccag
A_atroparvus tg---t-----------------a-------------------------------------gcc--ttgc
A_darlingi --------------------------------------------------------------------at
A_aquasalis --------------------ccga-------------------------------------gct--cggg
A_albimanus --------------------------------------------------------------------ac
A_coluzzii ======================================================================
A_epiroticus ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
Aedes_albopictus ======================================================================
T. castaneum ======================================================================
D. melanogaster aaac-----
D. simulans aaac-----
D. sechellia aaac-----
D. erecta aaac-----
D. yakuba aaac-----
D. ficusphila aaac-----
D. eugracilis aaac-----
D. biarmipes aaac-----
D. suzukii aaac-----
D. takahashii aaac-----
D. elegans agac-----
D. rhopaloa aaac-----
D_serrata agac-----
D. kikkawai agac-----
D. ananassae agac-----
D. bipectinata agac-----
D_americana aaac-----
D_novamexicana aaac-----
D. virilis aaac-----
D_montana aaac-----
D_arizonae aaac-----
D. mojavensis aaac-----
D_navojoa aaac-----
D_hydei aaac-----
D_busckii agac-----
D. grimshawi aaat-----
D_athabasca agac-----
D_pseudoobscura_1 agac-----
D. miranda agac-----
D. persimilis agac-----
D. pseudoobscura agac-----
D_subobscura aa-------
D_obscura agac-----
Zaprionus_indianus aaac-----
D_nasuta agac-----
D. albomicans agac-----
Scaptodrosophila_lebanonensis aaac-----
Phortica_variegata aagc-----
D. willistoni aaac-----
Eutreta_diana agtc-----
Stomoxys_calcitrans a--------
Proctacanthus_coquilletti tgta-----
Lutzomyia_longipalpis agt------
Bactrocera_dorsalis tgtt-----
Bactrocera_latifrons tgtt-----
Bactrocera_tryoni tgtt-----
Bactrocera_oleae tgtt-----
Zeugodacus_cucurbitae agtt-----
Ceratitis_capitata agtt-----
Cirrula_hians tatt-----
Ephydra_gracilis tgtt-----
Glossina_austeni t--------
Glossina_morsitans_1 ag-------
Glossina_morsitans_2 ag-------
Glossina_pallidipes ag-------
Glossina_fuscipes ---------
Glossina_palpalis_gambiensis ---------
Glossina_brevipalpis ---------
Calliphora_vicina ggtt-----
Lucilia_cuprina agtt-----
Lucilia_sericata agtt-----
Phormia_regina aatt-----
Sarcophagidae_BV_2014 acgt-----
Paykullia_maculata agtt-----
Teleopsis_dalmanni aaag-----
Holcocephala_fusca gaat-----
Haematobia_irritans cggg-----
M. domestica agct-----
Chaoborus_trivitattus tgat-----
Rhagoletis_zephyria tgct-----
Culex_quinquefasciatus tgag-----
Belgica_antarctica gagt-----
Themira_minor aagt-----
A_maculatus cgac-----
A_sinensis tcgc-----
A_culicifacies gggc-----
A_minimus gggc-----
A_funestus gga------
A_christyi agt------
A_arabiensis ---c-----
A_quadriannulatus ggac-----
A_merus ggac-----
A. gambiae ---c-----
A_gambiae_1 ggac-----
A_melas ggac-----
A_cracens tgcc-----
A_dirus tgcc-----
A_farauti tgcc-----
A_koliensis tgcc-----
A_punctulatus aggc-----
A_atroparvus agat-----
A_darlingi ---------
A_aquasalis ggac-----
A_albimanus aggcgaaac
A_coluzzii =========
A_epiroticus =========
Phlebotomus_papatasi =========
Tephritis_californica =========
Aedes_albopictus =========
T. castaneum =========
Inserts between block 63 and 64 in window
Lutzomyia_longipalpis 25bp
Bactrocera_dorsalis 76bp
Bactrocera_latifrons 73bp
Bactrocera_tryoni 76bp
Bactrocera_oleae 76bp
Zeugodacus_cucurbitae 92bp
Ceratitis_capitata 71bp
Cirrula_hians 82bp
Ephydra_gracilis 82bp
Glossina_austeni 33bp
Glossina_morsitans_1 50bp
Glossina_morsitans_2 50bp
Glossina_pallidipes 50bp
Glossina_fuscipes 35bp
Glossina_palpalis_gambiensis 35bp
Glossina_brevipalpis 35bp
Calliphora_vicina 15bp
Lucilia_cuprina 22bp
Lucilia_sericata 22bp
Phormia_regina 22bp
Sarcophagidae_BV_2014 25bp
Paykullia_maculata 25bp
Teleopsis_dalmanni 22bp
Holcocephala_fusca 24bp
Haematobia_irritans 22bp
M. domestica 19bp
Chaoborus_trivitattus 13bp
Rhagoletis_zephyria 6bp
Culex_quinquefasciatus 2bp
A_maculatus 1bp
A_arabiensis 2bp
A_quadriannulatus 2bp
A_merus 2bp
B D A. gambiae 2bp
A_gambiae_1 2bp
A_melas 2bp
Alignment block 64 of 252 in window, 12083962 - 12083970, 9 bps
B D D. melanogaster tga---a--------------------------------cc--ca----a
D D. simulans aga---a--------------------------------cc--ca----a
B D D. sechellia aga---a--------------------------------cc--ca----a
D. erecta aga---a--------------------------------cc--ca----a
D. yakuba aga---a--------------------------------cc--ca----a
D. ficusphila cga---a--------------------------------ct--ta----g
D. eugracilis gga---g--------------------------------cc--ca----a
D. biarmipes cga---g--------------------------------cc--ca----g
D. suzukii cga---t--------------------------------cc--ca----g
D. takahashii cga---t--------------------------------cc--ca----a
D. elegans aga---g--------------------------------cc--ca----a
D. rhopaloa aga---g--------------------------------cc--ca----a
D_serrata gga---t--------------------------------cc--ca----a
D. kikkawai gga---t--------------------------------cc--ca----a
D. ananassae cga---a--------------------------------cc--ca----a
D. bipectinata gga---t--------------------------------cc--ca----a
D_americana gga---g--------------------------------cc--ca----g
D_novamexicana gga---g--------------------------------cc--ca----g
D. virilis gga---g--------------------------------cc--ca----g
D_montana gga---g--------------------------------cc--ca----a
D_arizonae gga---g--------------------------------cc--ca----g
D. mojavensis gga---a--------------------------------cc--ca----g
D_navojoa gga---g--------------------------------cc--ca----g
D_hydei gga---g--------------------------------cc--ca----g
D_busckii gga---g--------------------------------cc--cagct-g
D. grimshawi cga---a--------------------------------cc--ca-----
D_athabasca gga---ggatcccactccgatgctcactcccaga-----cc--ca----g
D_pseudoobscura_1 gga---ggaacccactccaatgcccactcccaag-----cc--ca----g
D. miranda gga---ggaacccactccaatgcccactcccaag-----cc--ca----g
B D D. persimilis gga---ggaacccactccaatgcccactcccaag-----cc--ca----g
D. pseudoobscura gga---ggaacccactccaatgcccactcccaag-----cc--ca----g
D_subobscura -------------------------actcccaga-----cc--ca----a
D_obscura gga---gga------------gcccactcccaga-----cc--ca----g
Zaprionus_indianus ggc---g----------------------cccaa-----ct--gg----c
D_nasuta ggc---g--------------------------------cc--ca----a
D. albomicans ggc---g--------------------------------cc--ca----a
Scaptodrosophila_lebanonensis cga---a--------------------------------gc--ca----g
Phortica_variegata gga---a--------------------------------tt--ca----a
D. willistoni gga---g--------------------------------ct--ta----t
Eutreta_diana gggcgtg--------------------------------ta--cg----t
Stomoxys_calcitrans -gg---a--------------------------------cc--ca----t
Rhagoletis_zephyria ------------------------------cgag-----tt--catttgg
Culex_quinquefasciatus ------------------------------cgca-----gc--ca----g
Belgica_antarctica --a---g--------------------------------ccggca----t
Themira_minor tga---g--------------------------------tt--ca----g
A_maculatus gga---g-----------------------ctat-----tc--ca----c
A_sinensis ----------------------------agcaga-----ac--cg----g
A_christyi ------------------------------tgta-----cc--cg----g
A_arabiensis -------------------------------tct-----ct--ct-----
A_quadriannulatus -------------------------------tga-----ct--cc----a
A_merus -------------------------------tga-----ct--cc----a
B D A. gambiae -------------------------------tcagtgctct--cc----a
A_gambiae_1 -------------------------------tga-----ct--cc----a
A_melas -------------------------------tga-----ct--cc----a
A_cracens ------------------------------cgcg-----ct--cg----t
A_dirus ------------------------------cgcg-----ct--cg----t
A_farauti ------------------------------cgtg-----cc--cg----a
A_koliensis ------------------------------agtg-----cc--cg----t
A_punctulatus ------------------------------cgtg-----cc--cg----a
A_atroparvus ------------------------------tggc-----cc--c------
A_darlingi ------------------------------cgaa-----gc--cg----g
A_aquasalis -------------------------------tca-----tc--ga----a
A_albimanus ------------------------------ggag-----gt--cg----a
A_coluzzii ==================================================
A_funestus --------------------------------------------------
A_culicifacies --------------------------------------------------
Proctacanthus_coquilletti --------------------------------------------------
Bactrocera_tryoni ==================================================
Lutzomyia_longipalpis ==================================================
Sarcophagidae_BV_2014 ==================================================
A_epiroticus ==================================================
A_minimus --------------------------------------------------
Phlebotomus_papatasi ==================================================
Haematobia_irritans ==================================================
Holcocephala_fusca ==================================================
Tephritis_californica ==================================================
Bactrocera_oleae ==================================================
Chaoborus_trivitattus ==================================================
Glossina_pallidipes ==================================================
Glossina_morsitans_2 ==================================================
Glossina_morsitans_1 ==================================================
Glossina_palpalis_gambiensis ==================================================
Ceratitis_capitata ==================================================
Cirrula_hians ==================================================
Lucilia_cuprina ==================================================
Glossina_brevipalpis ==================================================
Bactrocera_latifrons ==================================================
Bactrocera_dorsalis ==================================================
Calliphora_vicina ==================================================
Phormia_regina ==================================================
Lucilia_sericata ==================================================
Aedes_albopictus ==================================================
Zeugodacus_cucurbitae ==================================================
M. domestica ==================================================
Teleopsis_dalmanni ==================================================
T. castaneum ==================================================
Ephydra_gracilis ==================================================
Paykullia_maculata ==================================================
Glossina_fuscipes ==================================================
Glossina_austeni ==================================================
Inserts between block 64 and 65 in window
A_christyi 4bp
A_arabiensis 10bp
A_quadriannulatus 1bp
A_merus 1bp
B D A. gambiae 17bp
A_gambiae_1 1bp
A_melas 1bp
A_cracens 2bp
A_dirus 2bp
A_farauti 83bp
A_punctulatus 17bp
A_aquasalis 4bp
Alignment block 65 of 252 in window, 12083971 - 12083977, 7 bps
B D D. melanogaster --ctg---agtc
D D. simulans --ctg---cgtc
B D D. sechellia --ctg---cgta
D. erecta --ctg---cgtc
D. yakuba --ctg---cgtg
D. ficusphila --ttg---tgtc
D. eugracilis --ctg---ggtg
D. biarmipes --ctg---cgtc
D. suzukii --ctg---cgtc
D. takahashii --ttg---ggtc
D. elegans --ctg---cgtt
D. rhopaloa --ctg---cgtc
D_serrata --ctg---ggtc
D. kikkawai --ctg---ggtc
D. ananassae --ctg---ggtt
D. bipectinata --ttg---ggtt
D_americana --ctg---gctc
D_novamexicana --ctg---gctc
D. virilis --ctg---gctc
D_montana --ctg---gctc
D_arizonae --ttg---ggat
D. mojavensis --ttg---ggat
D_navojoa --ttg---ggat
D_hydei --ttg---ggat
D_busckii --ctg---gctc
D. grimshawi ----------at
D_athabasca --ctg---ggtc
D_pseudoobscura_1 --ttg---tgtc
D. miranda --ttg---tgtc
B D D. persimilis --ttg---tgtc
D. pseudoobscura --ttg---tgtc
D_subobscura --ttg---cgtc
D_obscura --ttg---tgtc
Zaprionus_indianus --tgg---tgtc
D_nasuta --ttgcgaggca
D. albomicans --ttgcgaggca
Scaptodrosophila_lebanonensis --ctg---gctt
Phortica_variegata --ttg---accg
D. willistoni --ttg---agat
Eutreta_diana --gag---gttg
Stomoxys_calcitrans --ttt---gtgg
Rhagoletis_zephyria --ttg-------
Culex_quinquefasciatus --ttg-------
Belgica_antarctica --tcg---aggc
Themira_minor --ttg---attc
A_maculatus --tcg---gta-
A_sinensis --ctg---tgtg
A_culicifacies --gtg-------
A_minimus --gtg-------
A_funestus ----g-------
A_christyi --ctg---tgtt
A_epiroticus -----------c
A_cracens --ctg---cacc
A_dirus --ctg---cacc
A_koliensis ---------gcc
A_atroparvus --ttg---tggt
A_darlingi ---tg---gac-
A_aquasalis --gtg---gac-
A_albimanus gttag---cg--
A_gambiae_1 ============
A_melas ============
B D A. gambiae ============
A_merus ============
A_quadriannulatus ============
A_coluzzii ============
A_arabiensis ============
Proctacanthus_coquilletti ------------
Bactrocera_tryoni ============
Lutzomyia_longipalpis ============
Sarcophagidae_BV_2014 ============
A_punctulatus ============
A_farauti ============
Phlebotomus_papatasi ============
Haematobia_irritans ============
Holcocephala_fusca ============
Tephritis_californica ============
Bactrocera_oleae ============
Chaoborus_trivitattus ============
Glossina_pallidipes ============
Glossina_morsitans_2 ============
Glossina_morsitans_1 ============
Glossina_palpalis_gambiensis ============
Ceratitis_capitata ============
Cirrula_hians ============
Lucilia_cuprina ============
Glossina_brevipalpis ============
Bactrocera_latifrons ============
Bactrocera_dorsalis ============
Calliphora_vicina ============
Phormia_regina ============
Lucilia_sericata ============
Aedes_albopictus ============
Zeugodacus_cucurbitae ============
M. domestica ============
Teleopsis_dalmanni ============
T. castaneum ============
Ephydra_gracilis ============
Paykullia_maculata ============
Glossina_fuscipes ============
Glossina_austeni ============
Inserts between block 65 and 66 in window
Zaprionus_indianus 1bp
Rhagoletis_zephyria 12bp
A_epiroticus 31bp
A_koliensis 32bp
Alignment block 66 of 252 in window, 12083978 - 12084006, 29 bps
B D D. melanogaster tcat-----------------------a--------g---------------------------------
D D. simulans tcat-----------------------a--------g---------------------------------
B D D. sechellia tcat-----------------------a--------g---------------------------------
D. erecta tcat-----------------------a--------g---------------------------------
D. yakuba tcat-----------------------a--------g---------------------------------
D. ficusphila tcat-----------------------a--------a---------------------------------
D. eugracilis tcat-----------------------a--------g---------------------------------
D. biarmipes tcat-----------------------a--------g---------------------------------
D. suzukii tcat-----------------------a--------g---------------------------------
D. takahashii tcat-----------------------a--------g---------------------------------
D. elegans tcat-----------------------a--------g---------------------------------
D. rhopaloa tcgt-----------------------a--------g---------------------------------
D_serrata tcgt-----------------------a--------g---------------------------------
D. kikkawai tcgt-----------------------a--------g---------------------------------
D. ananassae tcgt-----------------------a--------g---------------------------------
D. bipectinata tcgt-----------------------a--------g---------------------------------
D_americana tcat-----------------------a--------g---------------------------------
D_novamexicana tcat-----------------------a--------g---------------------------------
D. virilis tcaa-----------------------a--------g---------------------------------
D_montana tcat-----------------------a--------g---------------------------------
D_arizonae tcat-----------------------a--------g---------------------------------
D. mojavensis tcat-----------------------a--------g---------------------------------
D_navojoa tcat-----------------------a--------g---------------------------------
D_hydei tcat-----------------------a--------g---------------------------------
D_busckii tcgt-----------------------a--------g---------------------------------
D. grimshawi tcaa-----------------------a--------g---------------------------------
D_athabasca tcat-----------------------a--------g---------------------------------
D_pseudoobscura_1 tcat-----------------------a--------g---------------------------------
D. miranda tcat-----------------------a--------g---------------------------------
B D D. persimilis tcat-----------------------a--------g---------------------------------
D. pseudoobscura tcat-----------------------a--------g---------------------------------
D_subobscura tcat-----------------------a--------g---------------------------------
D_obscura tcat-----------------------a--------g---------------------------------
Zaprionus_indianus tagt-----------------------g--------g---------------------------------
D_nasuta tcgt-----------------------a--------g---------------------------------
D. albomicans tcgt-----------------------a--------g---------------------------------
Scaptodrosophila_lebanonensis tcat-----------------------a--------g---------------------------------
Phortica_variegata tcat-----------------------a--------g---------------------------------
D. willistoni tcat-----------------------a--------g---------------------------------
Eutreta_diana tgat-----------------------t--------g---------------------------------
Stomoxys_calcitrans tgat-----------------------actgtgcttg---------------------------------
Proctacanthus_coquilletti ----------------------------------------------------------------------
Lutzomyia_longipalpis ---t-----------------------t--------g---------------------------------
Bactrocera_dorsalis ---t-----------------------c--------a---------------------------------
Bactrocera_latifrons ---t-----------------------c--------a---------------------------------
Bactrocera_tryoni ---t-----------------------c--------a---------------------------------
Bactrocera_oleae ---t-----------------------c--------a---------------------------------
Zeugodacus_cucurbitae ---ttg---------------------c--------g---------------------------------
Ceratitis_capitata ---g-----------------------c--------t---------------------------------
Cirrula_hians ---c-----------------------t--------g---------------------------------
Ephydra_gracilis ---g-----------------------t--------t---------------------------------
Glossina_austeni ---t-----------------------a--------c---------------------------------
Glossina_morsitans_1 ---t-----------------------a--------c---------------------------------
Glossina_morsitans_2 ---t-----------------------a--------c---------------------------------
Glossina_pallidipes ---t-----------------------a--------c---------------------------------
Glossina_fuscipes ---t-----------------------a--------c---------------------------------
Glossina_palpalis_gambiensis ---t-----------------------a--------c---------------------------------
Glossina_brevipalpis ---t-----------------------a--------t---------------------------------
Calliphora_vicina ------------------------------------g---------------------------------
Lucilia_cuprina ---c-----------------------c--------g---------------------------------
Lucilia_sericata ---c-----------------------c--------g---------------------------------
Phormia_regina ---t-----------------------g--------a---------------------------------
Sarcophagidae_BV_2014 ---t-----------------------c--------a---------------------------------
Paykullia_maculata ---t-----------------------g--------g---------------------------------
Teleopsis_dalmanni ---t-----------------------t--------gttggtaccaactaatggtgcaatcgttggatat
Holcocephala_fusca ---t-----------------------g--------g---------------------------------
Haematobia_irritans ---g-----------------------c--------a---------------------------------
M. domestica ---t-----------------------a--------g---------------------------------
Chaoborus_trivitattus ----------------------------------------------------------------------
Culicoides_sonorensis ----------------------------------------------------------------------
Aedes_albopictus tagt-----------------------t--------g---------------------------------
Rhagoletis_zephyria ttac-----------------------t--------g---------------------------------
Culex_quinquefasciatus -----gctg--------------tgcga--------g---------------------------------
Belgica_antarctica ----------------------------------------------------------------------
Themira_minor ----------------------------------------------------------------------
A_maculatus ------ccgaagtctgcggaattggtga--------g---------------------------------
A_sinensis ----------------------------------------------------------------------
A_culicifacies ----------------------------------------------------------------------
A_minimus ----------------------------------------------------------------------
A_funestus ----------------------------------------------------------------------
A_christyi ----------------------------------------------------------------------
A_arabiensis ----------------------------------------------------------------------
A_coluzzii ----------------------------------------------------------------------
A_quadriannulatus ----------------------------------------------------------------------
A_merus ----------------------------------------------------------------------
B D A. gambiae ----------------------------------------------------------------------
A_gambiae_1 ----------------------------------------------------------------------
A_melas ----------------------------------------------------------------------
A_epiroticus ----------------------------------------------------------------------
A_cracens ----------------------------------------------------------------------
A_dirus ----------------------------------------------------------------------
A_koliensis gc--------------------------------------------------------------------
A_punctulatus gc--------------------------------------------------------------------
A_atroparvus ----------------------------------------------------------------------
A_darlingi ----------------------------------------------------------------------
A_aquasalis ----------------------------------------------------------------------
A_albimanus ----------------------------------------------------------------------
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster -ctg-----------------g------------------ag----------------------------
D. simulans -ctg-----------------g------------------ag----------------------------
D. sechellia -ctg-----------------g------------------ag----------------------------
D. erecta -ctg-----------------g------------------ag----------------------------
D. yakuba -ctg-----------------g------------------ag----------------------------
D. ficusphila -tta-----------------g------------------at----------------------------
D. eugracilis -ttg-----------------g------------------ac----------------------------
D. biarmipes -ctg-----------------g------------------ac----------------------------
D. suzukii -ctg-----------------g------------------ac----------------------------
D. takahashii -ctg-----------------g------------------ac----------------------------
D. elegans -ccg-----------------g------------------ac----------------------------
D. rhopaloa -ctg-----------------g------------------ac----------------------------
D_serrata -ctg-----------------g------------------ac----------------------------
D. kikkawai -ctg-----------------g------------------ac----------------------------
D. ananassae -cta-----------------g------------------ac----------------------------
D. bipectinata -ctg-----------------g------------------ac----------------------------
D_americana -tgc-----------------a------------------------------------------------
D_novamexicana -tgc-----------------a------------------------------------------------
D. virilis -tgc-----------------a------------------------------------------------
D_montana -tgc-----------------g------------------------------------------------
D_arizonae -tgc-----------------g------------------------------------------------
D. mojavensis -tgc-----------------g------------------------------------------------
D_navojoa -tgc-----------------g------------------------------------------------
D_hydei -tgc-----------------g------------------------------------------------
D_busckii -tgc-----------------g------------------------------------------------
D. grimshawi -tgc-----------------g------------------------------------------------
D_athabasca -ctg-----------------ggcgtgact------ccagag----------------------------
D_pseudoobscura_1 -ctg-----------------ggagtgact------ccagag----------------------------
D. miranda -ctg-----------------ggagtgact------ccagag----------------------------
D. persimilis -ctg-----------------ggagtgact------ccagag----------------------------
D. pseudoobscura -ctg-----------------ggagtgact------ccagag----------------------------
D_subobscura -ctg-----------------ggcgtcacg------ccggag----------------------------
D_obscura -ctg-----------------ggcgtcacg------ccagag----------------------------
Zaprionus_indianus -ctg--------------gccggctccacg------gcgggc----------------------------
D_nasuta -tgc-----------------t------------------------------------------------
D. albomicans -tgc-----------------t------------------------------------------------
Scaptodrosophila_lebanonensis -gtt-----------------gacgtgccggccagactggag----------------------------
Phortica_variegata -ctt-----------------g------------------------------------------------
D. willistoni -caa-----------------g------------------ag----------------------------
Eutreta_diana -ttg-----------------g------------------ag----------------------------
Stomoxys_calcitrans -ttg------------------------------------------------------------------
Proctacanthus_coquilletti -tag-----------------g------------------tc----------------------------
Lutzomyia_longipalpis -gat-----------------g------------------ag----------------------------
Bactrocera_dorsalis -gcg-----------------g------------------cg----------------------------
Bactrocera_latifrons -gcg-----------------g------------------cg----------------------------
Bactrocera_tryoni -gcg-----------------g------------------cg----------------------------
Bactrocera_oleae -gcg-----------------g------------------tg----------------------------
Zeugodacus_cucurbitae -act-----------------g------------------ta----------------------------
Ceratitis_capitata -gct-----------------g------------------ct----------------------------
Cirrula_hians -att-----------------g------------------ag----------------------------
Ephydra_gracilis -gct-----------------g------------------tg----------------------------
Glossina_austeni -gag-----------------g------------------aa----------------------------
Glossina_morsitans_1 -gaa-----------------g------------------aa----------------------------
Glossina_morsitans_2 -gaa-----------------g------------------aa----------------------------
Glossina_pallidipes -gaa-----------------g------------------aa----------------------------
Glossina_fuscipes -gaa-----------------g------------------aa----------------------------
Glossina_palpalis_gambiensis -gaa-----------------g------------------aa----------------------------
Glossina_brevipalpis -gaa-----------------g------------------ac----------------------------
Calliphora_vicina -gtg-----------------t------------------tg----------------------------
Lucilia_cuprina -gcg-----------------g------------------tg----------------------------
Lucilia_sericata -gcg-----------------g------------------ag----------------------------
Phormia_regina -gct-----------------g------------------tt----------------------------
Sarcophagidae_BV_2014 -gcg-----------------c------------------tt----------------------------
Paykullia_maculata -gcagatgaagaatacccaacg------------------tt----------------------------
Teleopsis_dalmanni tgca-----------------c------------------tt----------------------------
Holcocephala_fusca -aca-----------------c------------------tg----------------------------
Haematobia_irritans -gtg-----------------c------------------ta----------------------------
M. domestica -gtg-----------------g------------------cg----------------------------
Chaoborus_trivitattus ------------------ttga------------------gt----------------------------
Culicoides_sonorensis ------------------tgga------------------cc----------------------------
Aedes_albopictus -gag-----------------g------------------ag----------------------------
Rhagoletis_zephyria -ttg-----------------g------------------agcgcatt----------------------
Culex_quinquefasciatus -gt-------------------------------------------------------------------
Belgica_antarctica ------------------------------------------cgaattttg-------------------
Themira_minor --------------------------------------------------gccgccgtttg---gcagac
A_maculatus -gc-------------------------------------------------------------------
A_sinensis ----------------------------------------------------------------------
A_culicifacies ----------------------------------------------------------------------
A_minimus ----------------------------------------------------------------------
A_funestus ----------------------------------------------------------------------
A_christyi ----------------------------------------------------------------------
A_arabiensis ------------------------------------------------------gtgct-----------
A_coluzzii ---------------------------------------------------atggtgctggt--gatgct
A_quadriannulatus ---------------------------------------------------tggaagcttgt--ggaatt
A_merus ---------------------------------------------------tggaagcttgt--ggaatt
A. gambiae ----------------------------------------------------gggagcctat--aggccg
A_gambiae_1 ---------------------------------------------------tggaagcttgt--ggaatt
A_melas ---------------------------------------------------tggaagcttgt--ggaatt
A_epiroticus ---------------------------------------------------tggtaagttgt--ggaatt
A_cracens ------------------------------------------------ggatgactgcgtgtgggggatg
A_dirus ------------------------------------------------ggatggctgcgtgtgggggatg
A_koliensis ----------------------------------------------------------------------
A_punctulatus ----------------------------------------------------------------------
A_atroparvus ----------------------------------------------------------------------
A_darlingi ----------------------------------------------------------------------
A_aquasalis ----------------------------------------------------------------------
A_albimanus ----------------------------------------------------------------------
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster ---------------------------------------------acgatg-------------------
D. simulans ---------------------------------------------acgatg-------------------
D. sechellia ---------------------------------------------acgatg-------------------
D. erecta ---------------------------------------------acgatg-------------------
D. yakuba ---------------------------------------------acgatg-------------------
D. ficusphila ---------------------------------------------acgatg-------------------
D. eugracilis ---------------------------------------------acgatg-------------------
D. biarmipes ---------------------------------------------acgatg-------------------
D. suzukii ---------------------------------------------acgatg-------------------
D. takahashii ---------------------------------------------actagg-------------------
D. elegans ---------------------------------------------acaatg-------------------
D. rhopaloa ---------------------------------------------acgatg-------------------
D_serrata ---------------------------------------------acaata-------------------
D. kikkawai ---------------------------------------------acgatg-------------------
D. ananassae ---------------------------------------------acgata-------------------
D. bipectinata ---------------------------------------------acgata-------------------
D_americana ----------------------------------------------------------------------
D_novamexicana ----------------------------------------------------------------------
D. virilis ----------------------------------------------------------------------
D_montana ----------------------------------------------------------------------
D_arizonae ----------------------------------------------------------------------
D. mojavensis ----------------------------------------------------------------------
D_navojoa ----------------------------------------------------------------------
D_hydei ----------------------------------------------------------------------
D_busckii ----------------------------------------------------------------------
D. grimshawi ----------------------------------------------------------------------
D_athabasca ---------------------------------------------acgatg-------------------
D_pseudoobscura_1 ---------------------------------------------acgatg-------------------
D. miranda ---------------------------------------------acgatg-------------------
D. persimilis ---------------------------------------------acgatg-------------------
D. pseudoobscura ---------------------------------------------acgatg-------------------
D_subobscura ---------------------------------------------acgata-------------------
D_obscura ---------------------------------------------acgatg-------------------
Zaprionus_indianus ---------------------------------------------acaagc-------------------
D_nasuta ----------------------------------------------------------------------
D. albomicans ----------------------------------------------------------------------
Scaptodrosophila_lebanonensis ---------------------------------------------acaatg-------------------
Phortica_variegata -------------------------------------------------tg-------------------
D. willistoni ---------------------------------------------gaggac-------------------
Eutreta_diana ---------------------------------------------ttgttg-------------------
Stomoxys_calcitrans ----------------------------------------------------------------------
Proctacanthus_coquilletti ---------------------------------------------gaattg-------------------
Lutzomyia_longipalpis ---------------------------------------------gagata-------------------
Bactrocera_dorsalis ---------------------------------------------agatcg-------------------
Bactrocera_latifrons ---------------------------------------------agatag-------------------
Bactrocera_tryoni ---------------------------------------------agatcg-------------------
Bactrocera_oleae ---------------------------------------------agatcg-------------------
Zeugodacus_cucurbitae ---------------------------------------------aagtgg-------------------
Ceratitis_capitata ---------------------------------------------gctgct-------------------
Cirrula_hians ---------------------------------------------gaatag-------------------
Ephydra_gracilis ---------------------------------------------gaatac-------------------
Glossina_austeni ---------------------------------------------aggttc-------------------
Glossina_morsitans_1 ---------------------------------------------aggttc-------------------
Glossina_morsitans_2 ---------------------------------------------aggttc-------------------
Glossina_pallidipes ---------------------------------------------aggttc-------------------
Glossina_fuscipes ---------------------------------------------agattc-------------------
Glossina_palpalis_gambiensis ---------------------------------------------agattc-------------------
Glossina_brevipalpis ---------------------------------------------aggtt--------------------
Calliphora_vicina ---------------------------------------------gtg----------------------
Lucilia_cuprina ---------------------------------------------gag----------------------
Lucilia_sericata ---------------------------------------------gagtaa-------------------
Phormia_regina -gca-----------------------------------------gcatag-------------------
Sarcophagidae_BV_2014 ---------------------------------------------gtgtag-------------------
Paykullia_maculata -tat-----------------------------------------gtttag-------------------
Teleopsis_dalmanni -gtt-----------------------------------------gtgtga-------------------
Holcocephala_fusca ----------------------------------------------------------------------
Haematobia_irritans ----------------------------------------------------------------------
M. domestica ---------------------------------------------gtggaa-------------------
Chaoborus_trivitattus ---------------------------------------------gcgcta-------------------
Culicoides_sonorensis ---------------------------------------------gaactg-------------------
Aedes_albopictus ---------------------------------------------gcggtg-------------------
Rhagoletis_zephyria aact-----------------------------------------gcgata-------------------
Culex_quinquefasciatus ----------------------------------------------------------------------
Belgica_antarctica attt-----------------------------------------gcgttggctgac-------------
Themira_minor gccg-----------------------------------------ccggta-------------------
A_maculatus ----------------------------------------------------------------------
A_sinensis -----------------------------------------------------ttgcgggataggcga--
A_culicifacies ----------------------------------------------------------------------
A_minimus ----------------------------------------------------------------------
A_funestus ----------------------------------------------------------------------
A_christyi -----------------------------------------------------------------ccact
A_arabiensis ----------------------------------------------------------------------
A_coluzzii gctg-----------------------------------------ctgctg-------------------
A_quadriannulatus ggtg-----------------------------------------aaaccg-------------------
A_merus ggtg-----------------------------------------aaaccg-------------------
A. gambiae gacgcgctcgcc---------------------------------agcccg-------------------
A_gambiae_1 ggtg-----------------------------------------aaaccg-------------------
A_melas ggtg-----------------------------------------aaaccg-------------------
A_epiroticus ggcg-----------------------------------------agacag-------------------
A_cracens ggcg-----------------------------------------aggc---------------------
A_dirus ggcg-----------------------------------------aggc---------------------
A_koliensis ----------------------------------------------------------------------
A_punctulatus ----------------------------------------------------------------------
A_atroparvus ----ccgttgccagttga-------------gccgccg-------acgttg-------------------
A_darlingi -----tcatggtagcggacgttggatgcatcatcgttt-------gggc---------------------
A_aquasalis -----tcatggtggcggacgttggatgcatcatcgtttg-tgcgagcgga--------------------
A_albimanus --------------ccagcgtgggataccggtgggctgaccgagctcggt--------------------
A_farauti ======================================================================
Phlebotomus_papatasi ======================================================================
Tephritis_californica ======================================================================
T. castaneum ======================================================================
D. melanogaster -------------------atgtt---------cccg------------gt
D. simulans -------------------atgtt---------accg------------gt
D. sechellia -------------------atgtt---------ccca------------gt
D. erecta -------------------atgtt---------tccg------------gt
D. yakuba -------------------atgtt---------tccg------------gt
D. ficusphila -------------------atgtt---------tccg------------gt
D. eugracilis -------------------atgtt---------cccg------------gt
D. biarmipes -------------------atgtt---------ggcg------------gt
D. suzukii -------------------atgtt---------gccg------------gt
D. takahashii -------------------atgtt---------tcca------------gt
D. elegans -------------------atgtt---------cccg------------gt
D. rhopaloa -------------------atgtt---------gccg------------gt
D_serrata -------------------atgtt---------ctcc------------gt
D. kikkawai -------------------atgtt---------ctcc------------gt
D. ananassae -------------------atgtt---------gccg------------gt
D. bipectinata -------------------atgtt---------gccg------------gt
D_americana -------------------------------------------------cc
D_novamexicana -------------------------------------------------cc
D. virilis -------------------------------------------------cc
D_montana -------------------------------------------------cc
D_arizonae -------------------------------------------------tc
D. mojavensis -------------------------------------------------tc
D_navojoa -------------------------------------------------tc
D_hydei -------------------------------------------------tc
D_busckii -------------------------------------------------cc
D. grimshawi -------------------------------------------------tc
D_athabasca -------------------gtgtt---------gccagagcct---gaacc
D_pseudoobscura_1 -------------------atatt---------gccggag---------cc
D. miranda -------------------atatt---------gccggag---------cc
D. persimilis -------------------atatt---------gccggag---------cc
D. pseudoobscura -------------------atatt---------gccggag---------cc
D_subobscura -------------------atgtt---------gccagtg---------cc
D_obscura -------------------atgtt---------gcctgag---------cc
Zaprionus_indianus -------------------agctc---------gctgcca---------tg
D_nasuta -------------------------------------------------cg
D. albomicans -------------------------------------------------cc
Scaptodrosophila_lebanonensis -------------------atgttgggtccgccgctg------------cc
Phortica_variegata -------------------gtggc---------tgcg------------gc
D. willistoni -------------------actat---------aagg------------tt
Eutreta_diana -------------------ttgtt---------attg------------tt
Stomoxys_calcitrans ---------------------------------------------------
Proctacanthus_coquilletti -------------------atcga---------------------------
Lutzomyia_longipalpis -------------------gccag---------------------------
Bactrocera_dorsalis -------------------attga---------------------------
Bactrocera_latifrons -------------------attga---------------------------
Bactrocera_tryoni -------------------attga---------------------------
Bactrocera_oleae -------------------cttga---------------------------
Zeugodacus_cucurbitae ------------------caccaa---------------------------
Ceratitis_capitata -------------------gttgt---------------------------
Cirrula_hians -------------------cttgc---------------------------
Ephydra_gracilis -------------------gttga---------------------------
Glossina_austeni -------------------cccgt---------------------------
Glossina_morsitans_1 -------------------cccgt---------------------------
Glossina_morsitans_2 -------------------cccgt---------------------------
Glossina_pallidipes -------------------cccgc---------------------------
Glossina_fuscipes -------------------cccgt---------------------------
Glossina_palpalis_gambiensis -------------------cccgt---------------------------
Glossina_brevipalpis ---------------------cga---------------------------
Calliphora_vicina ---------------------------------------------------
Lucilia_cuprina ---------------------------------------------------
Lucilia_sericata -------------------ccaac---------------------------
Phormia_regina -------------------ttaac---------------------------
Sarcophagidae_BV_2014 -------------------ccgtt---------------------------
Paykullia_maculata ---------------------------------------------------
Teleopsis_dalmanni -------------------agcgt---------------------------
Holcocephala_fusca ---------------------------------------------------
Haematobia_irritans ---------------------------------------------------
M. domestica -------------------gtggc---------------------------
Chaoborus_trivitattus -------------------atgga---------------------------
Culicoides_sonorensis ---------------------gga---------------------------
Aedes_albopictus ---------------------gat---------------------------
Rhagoletis_zephyria -------------------tcgat---------------------------
Culex_quinquefasciatus ---------------------------------------------------
Belgica_antarctica -----------------gagtgat---------------------------
Themira_minor -------------------ctct----------------------------
A_maculatus ---------------------------------------------------
A_sinensis ggtggaggt--cgagtgggctcct---------------------------
A_culicifacies -----------------------------------------atgtggatgc
A_minimus -----------------------------------------atgtggatgc
A_funestus -----------------------------------------aagtagttgt
A_christyi gttagcaatagtgactccactgga---------------------------
A_arabiensis -------------------ct------------------------------
A_coluzzii -------------------ct------------------------------
A_quadriannulatus -------------------at------------------------------
A_merus -------------------at------------------------------
A. gambiae -------------------cc------------------------------
A_gambiae_1 -------------------at------------------------------
A_melas -------------------at------------------------------
A_epiroticus -------------------ag------------------------------
A_cracens ---------------------------------------------------
A_dirus ---------------------------------------------------
A_koliensis ---------------------------------------------------
A_punctulatus ---------------------------------------------------
A_atroparvus -------------------ttttg---------------------------
A_darlingi ---------------------------------------------------
A_aquasalis ---------------------------------------------------
A_albimanus ---------------------------------------------------
A_farauti ===================================================
Phlebotomus_papatasi ===================================================
Tephritis_californica ===================================================
T. castaneum ===================================================
Inserts between block 66 and 67 in window
Proctacanthus_coquilletti 5bp
Lutzomyia_longipalpis 9bp
Bactrocera_dorsalis 6bp
Bactrocera_latifrons 6bp
Bactrocera_tryoni 6bp
Bactrocera_oleae 6bp
Zeugodacus_cucurbitae 3bp
Ceratitis_capitata 6bp
Cirrula_hians 1bp
Ephydra_gracilis 1bp
Glossina_austeni 10bp
Glossina_morsitans_1 10bp
Glossina_morsitans_2 10bp
Glossina_pallidipes 10bp
Glossina_fuscipes 10bp
Glossina_palpalis_gambiensis 10bp
Glossina_brevipalpis 10bp
Lucilia_cuprina 1bp
Lucilia_sericata 10bp
Phormia_regina 10bp
Sarcophagidae_BV_2014 10bp
Paykullia_maculata 10bp
Teleopsis_dalmanni 10bp
Holcocephala_fusca 10bp
Haematobia_irritans 9bp
M. domestica 10bp
Chaoborus_trivitattus 25bp
Culicoides_sonorensis 26bp
A_culicifacies 20bp
A_minimus 27bp
A_funestus 19bp
A_aquasalis 1bp
Alignment block 67 of 252 in window, 12084007 - 12084007, 1 bps
B D D. melanogaster g
D D. simulans g
B D D. sechellia g
D. erecta g
D. yakuba g
D. ficusphila g
D. eugracilis g
D. biarmipes g
D. suzukii g
D. takahashii g
D. elegans g
D. rhopaloa g
D_serrata g
D. kikkawai g
D. ananassae g
D. bipectinata g
D_americana t
D_novamexicana t
D. virilis t
D_montana t
D_arizonae t
D. mojavensis t
D_navojoa t
D_hydei t
D_busckii t
D. grimshawi t
D_athabasca t
D_pseudoobscura_1 t
D. miranda t
B D D. persimilis t
D. pseudoobscura t
D_subobscura g
D_obscura g
Zaprionus_indianus g
D_nasuta g
D. albomicans g
Scaptodrosophila_lebanonensis g
Phortica_variegata a
D. willistoni g
Eutreta_diana g
Lutzomyia_longipalpis g
Bactrocera_dorsalis g
Bactrocera_latifrons g
Bactrocera_tryoni g
Bactrocera_oleae g
Ceratitis_capitata t
Cirrula_hians t
Ephydra_gracilis t
Glossina_austeni a
Glossina_morsitans_1 a
Glossina_morsitans_2 a
Glossina_pallidipes a
Glossina_fuscipes a
Glossina_palpalis_gambiensis a
Glossina_brevipalpis a
Lucilia_cuprina a
Lucilia_sericata a
Phormia_regina a
Sarcophagidae_BV_2014 a
Paykullia_maculata g
Teleopsis_dalmanni c
Holcocephala_fusca a
Haematobia_irritans t
M. domestica a
Aedes_albopictus g
Rhagoletis_zephyria g
Culex_quinquefasciatus g
Belgica_antarctica g
Themira_minor g
A_maculatus g
A_sinensis g
A_christyi a
A_arabiensis c
A_coluzzii g
A_quadriannulatus g
A_merus g
B D A. gambiae g
A_gambiae_1 g
A_melas g
A_epiroticus g
A_cracens g
A_dirus g
A_koliensis g
A_punctulatus g
A_atroparvus g
A_darlingi g
A_albimanus g
A_aquasalis =
A_funestus =
A_culicifacies =
Proctacanthus_coquilletti =
Culicoides_sonorensis =
A_minimus =
A_farauti =
Phlebotomus_papatasi =
Stomoxys_calcitrans -
Tephritis_californica =
Chaoborus_trivitattus =
Calliphora_vicina -
Zeugodacus_cucurbitae =
T. castaneum =
Inserts between block 67 and 68 in window
Eutreta_diana 202bp
Alignment block 68 of 252 in window, 12084008 - 12084018, 11 bps
B D D. melanogaster ggtg-----------------------------tggtgtt-------
D D. simulans ggtg-----------------------------tggtgtt-------
B D D. sechellia ggtg-----------------------------tggtgtt-------
D. erecta ggag-----------------------------tggtgtt-------
D. yakuba ggtg-----------------------------tggtgtt-------
D. ficusphila ggag-----------------------------tggtgtt-------
D. eugracilis ggtg-----------------------------tggtgtt-------
D. biarmipes ggtg-----------------------------tggtgtt-------
D. suzukii ggtg-----------------------------tggtgtt-------
D. takahashii ggcg-----------------------------tggtgtt-------
D. elegans ggtg-----------------------------tggtgct-------
D. rhopaloa ggtg-----------------------------tggtgtt-------
D_serrata ggcg-----------------------------tggtgtg-------
D. kikkawai ggcg-----------------------------tggtgtg-------
D. ananassae gggg-----------------------------tggtgtt-------
D. bipectinata ggag-----------------------------tggtgtt-------
D_americana gctc---------------------------ggccgaatt-------
D_novamexicana gctc---------------------------ggccgaatt-------
D. virilis gctc---------------------------ggccgaatt-------
D_montana gctc---------------------------ggccgaatt-------
D_arizonae gctc---------------------------gacattgtt-------
D. mojavensis gctc---------------------------gacattgtt-------
D_navojoa gctc---------------------------gacattgtt-------
D_hydei gctc---------------------------gacattgtt-------
D_busckii gctcca----------------------gttgctgcagtt-------
D. grimshawi gatccgacaaaagattgttgttattattattgttgttatt-------
D_athabasca gaac-----------------------------cggaacc-------
D_pseudoobscura_1 gaac-----------------------------cggaacc-------
D. miranda gaac-----------------------------cggaacc-------
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