#NEXUS [written Mon Mar 04 11:53:38 EST 2013 by Mesquite version 2.75 (build 566) at d-i191-19-46.student.eduroam.uq.edu.au/10.191.19.46] BEGIN TAXA; TITLE Taxa2; DIMENSIONS NTAX=177; TAXLABELS Branchiostoma_floridae_tyrh Branchiostoma_floridae_tyre Branchiostoma_floridae_tyrg Branchiostoma_floridae_tyrf Branchiostoma_floridae_tyrd Branchiostoma_floridae_tyrc Branchiostoma_floridae_tyri Branchiostoma_floridae_tyra Branchiostoma_floridae_tyrb Branchiostoma_floridae_tyrl Branchiostoma_floridae_tyrm Branchiostoma_floridae_tyrk Branchiostoma_floridae_tyrj Saccoglossus_kowalevskii_tyrd Saccoglossus_kowalevskii_tyrc Saccoglossus_kowalevskii_tyrb Saccoglossus_kowalevskii_tyra Branchiostoma_floridae_tyrC1 Branchiostoma_floridae_tyrB1 Branchiostoma_floridae_tyrA1 Mus_musculus_Tyr Homo_sapiens_TYR Ciona_intestinalis_tyr 'Branchiostoma floridae tyr1/2b' 'Branchiostoma floridae tyr1/2a' Mus_musculus_Tyrp1 Homo_sapiens_TYRP1 'Ciona intestinalis tyr1/2b' 'Ciona intestinalis tyr1/2a' Mus_musculus_Tyrp2 Homo_sapiens_TYRP2a Homo_sapiens_TYRP2b Capitella_teleta_tyr1 Capitella_teleta_tyr2 Clonorhis_sinensis_tyr1 Schmidtea_mediterranea_tyr Schistosoma_mansoni_tyr1 Clonorchis_sinensis_tyr2 Clonorchis_sinensis_tyr5 Clonorchis_sinensis_tyr4 Clonorchis_sinensis_tyr3 Schistosoma_japonicum_tyr Schistosoma_mansoni_tyr4 Schistosoma_mansoni_tyr2 Schistosoma_mansoni_tyr3 Suberites_domuncula_tyr Nematostella_vectensis_tyr4 Nematostella_vectensis_tyr3 Nematostella_vectensis_tyr1 Nematostella_vectensis_tyr2 Hydra_magnipapillata_tyr Dictyostelium_discoideum_tyr2 Dictyostelium_discoideum_tyr1 Candidatus_nitrosopumilus_tyr Streptomyces_tsukubaensis_tyr Streptomyces_venezuelae_tyr Nitrosomonas_europeae_tyr Polysphondylium_pallidum_tyr1 Bacillus_megaterium_tyr2 Bacillus_megaterium_tyr1 Ectocarpus_siliculosus_tyr11 Ectocarpus_siliculosus_tyr9 Ectocarpus_siliculosus_tyr10 Ectocarpus_siliculosus_tyr8 Ectocarpus_siliculosus_tyr7 Ectocarpus_siliculosus_tyr12 Ectocarpus_siliculosus_tyr13 Ectocarpus_siliculosus_tyr14 Ectocarpus_siliculosus_tyr15 Ectocarpus_siliculosus_tyr18 Ectocarpus_siliculosus_tyr16 Ectocarpus_siliculosus_tyr17 Ectocarpus_siliculosus_tyr6 Ectocarpus_siliculosus_tyr5 Ectocarpus_siliculosus_tyr4 Ectocarpus_siliculosus_tyr1 Ectocarpus_siliculosus_tyr3 Ectocarpus_siliculosus_tyr2 Pinctada_fucata_tyr2 Pinctada_fucata_tyr3 Pinctada_fucata_tyr4 Pinctada_fucata_tyr1 Lottia_gigantea_tyr Sepia_officinalis_tyr Illex_argentinus_tyr1 Illex_argentinus_tyr2 Lottia_gigantea_tyr2 Caenorhabditis_remanei_TYR5 Caenorhabditis_briggsae_TYR6 Caenorhabditis_elegans_TYR5 Brugia_malayi_TYR3 Caenorhabditis_briggsae_TYR3 Caenorhabditis_remanei_TYR3 Caenorhabditis_elegans_TYR3 Caenorhabditis_briggsae_TYR4 Caenorhabditis_remanei_TYR4 Caenorhabditis_elgans_TYR4 Brugia_malayi_TYR1 Brugia_malayi_TYR2 Caenorhabditis_remanei_TYR2 Caenorhabditis_elegans_TYR2 Caenorhabditis_briggsae_TYR2 Brugia_malayi_TYR4 Caenorhabditis_briggsae_TYR5 Caenorhabditis_briggsae_TYR1 Caenorhabditis_elegans_TYR1 Caenorhabditis_remanei_TYR1 Lottia_gigantea_Hc Neurospora_crassa_tyr3 Neurospora_tetrasperma_tyr3 Neurospora_crassa_tyr2 Neurospora_tetrasperma_tyr2 Neurospora_crassa_tyr1 Neurospora_tetrasperma_tyr1 Aspergillus_aculeatus_tyr Agaricus_bisporus_tyr Sepia_officinalis_Hc Megathura_crenulata_Hc Aplysia_californica_Hc Nucula_nucleus_Hc Ciona_intestinalis_HcD Ciona_intestinalis_HcB Ciona_intestinalis_HcC Ciona_intestinalis_HcI Ciona_intestinalis_HcH Ciona_intestinalis_HcG Ciona_intestinalis_HcF Ciona_intestinalis_HcE Glycine_max_CO2 Glycine_max_CO1 Vitis_vinifera_CO Oryza_sativa_CO Glycine_max_CO4 Glycine_max_CO3 Glycine_max_CO5 Glycine_max_CO10 Glycine_max_CO7 Glycine_max_CO6 Glycine_max_CO8 Glycine_max_CO12 Glycine_max_CO11 Glycine_max_CO9 Daphnia_pulex_tyr Aspergillus_nidulans_tyr2 Aspergillus_nidulans_tyr1 Amphimedon_queenslandica_tyr Dictyostelium_fasciculatum_tyr Polysphondylium_pallidum_tyr2 Saccoglossus_kowaleksii_Hc Ciona_intestinalis_tyr1 Ciona_intestinalis_tyr2 Ciona_intestinalis_tyr4 Ciona_intestinalis_tyr3 Epiperipatus_sp_Hc Limulus_polyphemus_HcA Euphrynichus_bacillifer_HcA Mastigoproctus_giganteus_HcA Limulus_polyphemus_HcB Euphrynichus_bacillifer_HcB Mastigoproctus_giganteus_HcB Bombyx_mori_tyr2 Drosophila_melanogaster_tyr3 Bombyx_mori_tyr1 Tribolium_castaneum_tyr2 Tribolium_castaneum_tyr3 Tribolium_castaneum_tyr1 Anopheles_gambiae_tyr1 Drosophila_melanogaster_tyr2 Drosophila_melanogaster_tyr1 Anopheles_gambiae_tyr9 Anopheles_gambiae_tyr6 Anopheles_gambiae_tyr3 Anopheles_gambiae_tyr2 Anopheles_gambiae_tyr8 Anopheles_gambiae_tyr7 Anopheles_gambiae_tyr5 'Anopheles_gambiae tyr4' ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "alignment_allin.nex"'; DIMENSIONS NCHAR=107; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX Branchiostoma_floridae_tyrh MRRHFNTEKDNATRELKSTYNFFIFLHAHSGPSFPVWHRRYMLTVEKEFQRIPYWWEGSLVFRSMHNNVHVWVGGQMDPAAVNDPIFNLHHCNFESWLKDYETYDSL Branchiostoma_floridae_tyre MRRNILEEVELYLIKAKSVYDLYTWYHAHGGPGFPTWHRYFMLLWERALQKVPYWWAGTFAFRNLHNQVHIYLNGTMSPIAPNDPIFILHHSNFEKWLRSYHDYDDI Branchiostoma_floridae_tyrg MRRNILEEVELYLIKAKSVYDFFTWFHAHSGPGFPTWHRSFIQLWEMALQKVPYWWAGTFAFRNLHNQVHLYFNGTISANAPSDPIFILHHVNLEKWLRSYNDYDDI Branchiostoma_floridae_tyrf MRRNILSEVKSYLLNAKNEYDLFVWNHAHAGPAFLTWHRAYLLLFERMIQQVPYWWSGEFSFRNSHNQVHSYMNGTMGETSPNDPMFWLHHSNMEKWIRSYVTYDNI Branchiostoma_floridae_tyrd MRRNILSEVKSYLLNAKNEYDRFVWNHAHAGPAFLTWHRAYLLLFERMIQQVPYWWSGEFSFRNSQNRVHSYLNGTMGASSPNDPMFWLHHSNMEKWIRSYVTYDNV Branchiostoma_floridae_tyrc MRRNIRQEKKRYFDRAKSVWDFFVAAHAHEGAGFPTWHRAYLLEFDRAVQEVPYWWGSVFAFRNMHNQVHIYLNGTMSPSAANDPTFFLHHCNLETWIREHEDYQEL Branchiostoma_floridae_tyri MRRNIRQEKKRYFDRAKSVWDFFVATHAHEGVGFPTWHRAYLLEFERAVQEVPYWWSSVFAFRNLHNHVHLYLDGTMSPSAANDPTFFLHHCNLETWIREHEDYQEL Branchiostoma_floridae_tyra MRRNIREEKIRYFNRAKSVYDFFVATHAHEGVGFPTWHRAYVLEIERALQEVPYWWSSAFTFRNVHNQVHIYLNGTMSPSAANDPTFFLHHCNLETWIREHEDYQQL Branchiostoma_floridae_tyrb MRRNIREEKDRYFDRAKSVWDFFVAMHAHKGPAFTTWHRAYLLEFERAVQVVPYWWSSVFAFRNMHNQVHIYLNGTMSPSAPNDPMFFLHHCNFEAWIREHKNYEEL Branchiostoma_floridae_tyrl MRRNIKEEKNCYFNRAKSVYDFLVATHAHDGSGFLTWHRAYVLEVERALQEVPYWWGSLFAFRNLHDEVHIYLNGTMSPTAPNDPMFFLHHCNLETWIREHEDYQEL Branchiostoma_floridae_tyrm MRRNIKEEKNRYFNRAKSVYDFLVAMHAHDGSGFLTWHRAYVLEVERALQEVPYWWGSLFAFRNLHDEVHIYLNGTMSPTAPNDPMFFLHHCNLETWIREHEDYQEL Branchiostoma_floridae_tyrk MRRNIRKERARYMDRAKSVYDYFVAVHAHEGAGFPTWHRAFLLEAERALQEVPYWWSSIFAFRNLHNHVHLYLNGTMSITAANDPIFLLHHSNFETWIREYEDYQEL Branchiostoma_floridae_tyrj MRRNIRKERARYMDRAKSVYDYFVAVHAHEGAGFPTWHRAFLQEAERALQEVPYWWSSSFAFRNLHNHVHLYLNGTMSITAANDPIFLLHHANFETWIREYEDYQEL Saccoglossus_kowalevskii_tyrd MRKNILEERSRYFNNTKSVWDFFMATHAHEGVGFPTWHRAYVLEFERAVQEVPYWWSSVFAFRNLHNHVHIYLDGTMSPSAANDPIFFLHHCNFETWIREYEDYQEL Saccoglossus_kowalevskii_tyrc MRRNIREDVERYFNAAKSVYNYFVATHAHEGSGFPTWHRAFLLDLERALQEVPYWWTSLFAFRNLHNHVHLYLDGTMSPSSANDPIFFLHHCFFEKWIREYADYEDV Saccoglossus_kowalevskii_tyrb MRKNVMEDRVTYLNRAKSVYDLLVWMHAHDAVGFLTWHRGYLLEMERSIQEVPYWWTSAFAFRNLHNHVHLYLNGTMSPSSANDPIFWLHHAFFEKWLREYDDFEGV Saccoglossus_kowalevskii_tyra MRKNVTEDRVTYLNRAKSVYDLLVWMHAHDAVGFLTWHRGYLLEMERLIQEVPYWWTSAFAFRNLHNHVHLYLNGTMSPSSANDPIFWLHHAFFEKWLREYDDFEGV Branchiostoma_floridae_tyrC1 MRKNVLEEKAAYINNTKSAYDFFVYLQSQGSAGFATWNRAFLVAFELAVQVVPYYWTSVFSFRNLNEQVHQSLGGTMSWQASNDPIFYLHRCFFEKWMRENADYADI Branchiostoma_floridae_tyrB1 MRRNALEEKARVFDLAKSVYDYLVHVHAHNGPGFLTWHRLYLMMMEREMGRVPYWWSSPFSFRNMHIQVHSFFRGTISSSSPDDPLFFFHHTYFEVWLRDVDDYDQT Branchiostoma_floridae_tyrA1 MRRNIFSEKNSYLTLAKNIYDLFVWMHAHEAPGFLPWHRLFLLLWEQEIRELPYWWRSFFSFRNMHNALHIFMNGTMSQGSANDPIFLLHHAFFEQWLRSYDDYSYL Mus_musculus_Tyr MRRNIFPEKDAYLTLAKNIYDLFVWMHAHEAPAFLPWHRLFLLRWEQEIQKLPYWWRSFFSFRNMHNALHIYMNGTMSQGSANDPIFLLHHAFFEQWLRSYDDYSYL Homo_sapiens_TYR MRRNIFWERTRALDESKTTYDALVWMHAHEGPAFLPWHRLYLLLLERELAKIPYWWRSFLSFRNLHAAVHVWMNGTVSAASPNDPVFFLHHAFYEVWLRSYDDYDFM Ciona_intestinalis_tyr MRRNIFWERRRALDESKTTYNVLAWMHAHEGPVFLPWHRLFLLLWERELARFPYWWRTVFSFVNLHNAVHRFMNGTLSGSSANDPIFIIHHAYYEVWLRSYDEYDYL 'Branchiostoma floridae tyr1/2b' MRRNIFWERRRALDESKTTYNVLAWMHAHEGPVFLPWHRLFLLLWERELARFPYWWRTVFSFVNLHNAVHRFMNGTLSGSSANDPIFIIHHAYYEVWLRSYDEYDYL 'Branchiostoma floridae tyr1/2a' MRRNFTTDIQTILDESKSVYNLFVWMHAHEGPAFLPWHRYYLLKWEQELRDVPYWWRSPISFRNLHNAVHLFMNGTMSATSANDPIFVLHHAYYELWLRDFRVYDYM Mus_musculus_Tyrp1 MRRNLLEEKSRALDMAKSVYNYFVWTHSHEGPAFLTWHRYHLLQLERDMQEMPYWFASVFSFRNLHNLAHLFLNGTGGHLSPNDPIFVLLHTFFDEWLRYNNAYEVQ Homo_sapiens_TYRP1 MRRNLLEEKNRALDMAKSIYNYFVWTHSHEGPAFLTWHRYHLLRLEKDMQEMPYWFASVFSFRNLHNLAHLFLNGTGGHLSPNDPIFVLLHTFFDEWLRYNNTYEIQ 'Ciona intestinalis tyr1/2b' MRQNIMEERNDILDLSKSIYDLFVWVHSHEGPAFLTWHRMHLLGLENDLQDLPYWFASRFAFRNLHNLAHLFLNGTGGHASANDPIFVLLHTFFEEWMLFNQSYAVQ 'Ciona intestinalis tyr1/2a' MRQNIMEEREDVLDLSKTIYDLFVWVHSHEGPAFLTWHRMHLMGLENDLQVLPYWFASTFAFRNLHNLAHLFLNGTGGHASANDPVFVLLHTFFDEWMKFNQSYAVQ Mus_musculus_Tyrp2 MRKNIKEERRDALDQAKTIYNLFVWMHAHEGPAYNTWHRMHLLWLEREMQKMHYWWASPFSFRNLHNLAHLFLNGTGGHASANDPIFVLLHSYFDAWLRNTDAYDV- Homo_sapiens_TYRP2a MRKNIKEERRDALDQAKTIYNLFVWMHAHEGPAYNTWHRMHLLWLEREIQKMHYWWASPFSFRNLHNLAHLFLNGTASHASANDPIFVLLHSYFDAWLLNTDAFDA- Homo_sapiens_TYRP2b MRRNIHQEREGALDLAKSVYDFFVWLHSHQGPAFVTWHRYHLLWLERELQRLPYWFASRFSFRNLHNLAHSFLNGTNAHSAANDPVFVVLHSFFDEWLKYNQNYAVD Capitella_teleta_tyr1 MRQNIHQEREGALDLAKSVYDFFVWLHSHQGPAFVTWHRYHLLCLERDLQRLPYWFASRFSFRNLHNLVHSFLNGTNAHSAANDPIFVVLHSFFDEWMKYNQSYAID Capitella_teleta_tyr2 MRQNIHQEREGALDLAKSVYDFFVWLHSHQGPAFVTWHRYHLLCLERDLQRLPYWFASRFSFRNLHNLVHSFLNGTNAHSAANDPIFVVLHSFFDEWMKYNQSYAID Clonorhis_sinensis_tyr1 -----------------SIYDYFVFLHAHKGPGFPTWHRAYVLFVEEELGRLPYWWTSPFAFRDMHNLVHSYFNGSWFATSPNDPIFFLHHTFFELWIR-------- Schmidtea_mediterranea_tyr ------YDVFSVLNISKSIYDTMVYLHAHKGPAFFTWHRHYLLMFEDLLRSIPYWWTSTFFFRNMHNMVHSFINGTWMTTSPNDPLFLLHHTFFEIWLLDFEAYDNN Schistosoma_mansoni_tyr1 MRKNALAEKKDTLTKLKSIYDTLTFLHAHNGPGFPTWHRRFLLEFERELQRAPYWWTSDFWFRNLHGQGHTFFSGSVNPISPSDPLFYLHHAYLEVWLRDYEDYDDM Clonorchis_sinensis_tyr2 MRKNQAAEKKDAVLEVKGIYDEFVAAHGHFGPSFLPWHRKYLIDFERELQKIPYWWTGPFAFRSMHNRVHTWVWGQMESVSPNDPVFWLHHAFWADWHAETQIY--- Clonorchis_sinensis_tyr5 MRKNQADEKRNALLELKGRYDTFVTTHGHRSPSFLPWHRRFLIEFEQALQSVPYWWTGPFAFRNLHNRVHVWVGGQMGGVSPNDPVFWLHHAFWADWQADTRTFDT- Clonorchis_sinensis_tyr4 MRKNVLTEKRRTVLILKGIYDRYIAWHAHMSSAFLPWHREYLLRFERDLQSIPYWWEGPFAFRNLHNRVHRWVGGQMGPTAPNDPVFFLHHANWAVWQIDPKVYDIE Clonorchis_sinensis_tyr3 MRKNVLTEKRRTVLILKGIYDRYIAWHAHMSSAFLPWHREYLLRFERDLQSIPYWWEGPFAFRNLHNRVHRWVGGQMGPTAPNDPVFFLHHANWAVWQIDPKVYDIE Schistosoma_japonicum_tyr MRKDANAERAAAIRVLKGIYDRFVLRHIHRCSAFLPWHRRFIYDLELELQRVPYWWPGPFRFRNLHNRGHVWVGGSMLMTSPNDPVFFMHHCMWHEWQLDPAVYDDA Schistosoma_mansoni_tyr4 MRRDIRDELNDVLARSWSVQYYITFLHSHDGPEFPTWHRYLMLIWERLLAEIPYWWVSIFYFHMMHNKVHNMIDGAMRATATNDPFFILHHNFLSMWYRAFNDYDQP Schistosoma_mansoni_tyr2 MRRDIRDELNDVLARSWSVQYYITFLNNHDGPTFPTWHRYLMLIWERMLAEIPYWWVSIFYFHMTNNKVHNMIEGSMQATATNDPIYILHQVFLSMWYRAFNDYDKP Schistosoma_mansoni_tyr3 MRRNIRDELEDVMYRSQSVQYWAAFIHSHDGVTFPTWHRYFQLIWERMLSNIPYWMISAFTFHMMHNRLHRMINGSMCSTATNDPIFIVLHNFFNAWLRAFQDYDN- Suberites_domuncula_tyr MRRDIKKELHTVIVLSQSIQYYLTYVHNHDGVCFPTWHRYYILLWERLMSRIPYWWVSPFHFHMFHNKVHVLIDGSMCGTASNDPIFVLHHALFDCWLRSFYFYDT- Nematostella_vectensis_tyr4 MRRDIRKELHTVIVLSQSVQYYITYLHNHDGVCFPTWHRYYGLLWERLMSKIPYWWTSPFSFNIFHNKLHVLVDGSMCGTASNDPLFILHHTFFECWLKSFNYYDN- Nematostella_vectensis_tyr3 MRRDIRKELHTVIVLSQSVQYYITYLHNHDGVCFPTWHRYYGLLWERLMSKIPYWWTSPFSFNIFHNKLHVLVDGSMCGTASNDPLFILHHTFFECWLKSFNYYDN- Nematostella_vectensis_tyr1 MRRDIRKELHTVIVLSQSVQYYITYLHNHDGVCFPTWHRYYGLLWERLMSKIPYWWTSPFSFNIFHNKLHVLVDGSMCGTASNDPLFILHHTFFVLVKDSFNYYDN- Nematostella_vectensis_tyr2 MRYNILKKRKNVVTRMLDVQYLFSFIHNHEVVGFLTWHRYYMLFWERHLRKIPYWWVSPFYFHQMHNKVHNVVSGTFCATSPNDPLFLVHHTQFQLWFMCNLTYDN- Hydra_magnipapillata_tyr MRRNVMKEKRDIVAHMPHLQYLIAYLHNHHVLGFATWHRYFMLVWERQLRKIPYWWISPFSFHQMHNKVHNMVHGSFCSTAANDPLFLLHHSQMQVWFECNQYYDN- Dictyostelium_discoideum_tyr2 MRKNAAEERNVAIVGLKSVYDQFVILHGHGNPAFLSWHRMLLNKFEKALQTIPYWWTSVFTFRIAHNPTHDWYISTMTACSNNDPIFWLHHCNWADWQDDPSQYDTS Dictyostelium_discoideum_tyr1 MRKNAAEERNVAIVGLKSVYDQFVILHGHGNPAFLSWHRMLLNKFENALQTIPYWWTSVFTFRIAHNPTHDWYISTMTACSNNDPIFWLHHCNWADWQDDPSQYDTS Candidatus_nitrosopumilus_tyr MRKNASIEREKAVLTLKNRYDEFVAIHAHGNSGFLPWHREFLCRFEHALKSVPYWWSGYFSFRSPHNHVHGVTQGHMGMTSPNDPIFFLHHANWAEWQRDPCDTDPI Streptomyces_tsukubaensis_tyr MRKNQAAEKKDAVLEVKGIYDEFVAAHGHFGPSFLPWHRKYLIDFERELQKIPYWWTGPFAFRSMHNRVHTWVWGQMESVSPNDPVFWLHHAFWADWHAETQIY--- Streptomyces_venezuelae_tyr MRRELRNYPELYLLGMRDSYYQVAGIHTHSSILFITWHRPYLALYEQALYASPYFWAINNPLEDVHNEIHDRTNGHMSEVSAFDPLFWLHHVNWSIWQDTPTAYPET Nitrosomonas_europeae_tyr MRKDANAERAAAIRVLKGIYDRFVLRHIHRCSAFLPWHRRFIYDLELELQRVPYWWPGPFRFRNLHNRGHVWVGGSMLMTSPNDPVFFMHHCMWHEWQLDPAVYDDA Polysphondylium_pallidum_tyr1 MRQEILQDKELYILGLSVSWYGITGIHTHSSILFPTWHRPYLALYEVLLYNIPYWWRIANPLEAIHDTVHNLAGGHMIPYSSFDPIFFLHHAIFAIWQATPYTYPEL Bacillus_megaterium_tyr2 MRKNVLTEKRRTVLILKGIYDRYIAWHAHMSSAFLPWHREYLLRFERDLQSIPYWWEGPFAFRNLHNRVHRWVGGQMGPTAPNDPVFFLHHANWAVWQIDPKVYDIE Bacillus_megaterium_tyr1 MRRNINPQWDLALSEMQLSYFSLAGIHPHGETIFAPWHRPYVALFEQTLVSHPFWWANTNGFEDPHNTVHNNANGTMAAWSAFDPLFMLHHANIALWQASPTTYPEL Ectocarpus_siliculosus_tyr11 MRREIRDEREDAMFALWADIYAINRLHFHDGLGFLTSHSMISNTFEFSLQKVPYWFTGRWAWVWPHGPVHIWVGGVLDASSSLDPSFWSTHPTYVVLTGSDAVYDTF Ectocarpus_siliculosus_tyr9 MRREIRDEREDAMFTLWADIYAINRLHFHDGLGFLTSHSLISNTFEYSLQRVPYWFTGRWAWVWPHGPVHTWIGGVLNAGSSLDPTFWPMHPTFARLTGSDQVYDTF Ectocarpus_siliculosus_tyr10 MRREIREDREDAMLELWSDIWAINRLHFHDGLGFLTNHGLISNTFENSLQQVPYWFTGRWAWVWPHGPVHIWIGGVMDSSSSLDPSFWSTHPTYSVLTGSDAVYDTF Ectocarpus_siliculosus_tyr8 MRREIRDEREDAMFTIWADIYAINRLHFHDGLGFLVSHSVLTNTFEYSLQAVPYWFTGRWAWVWPHAPLHLWLGGTMDSSSSYDPLFWPIHPTFPVLTGSDSVYDKF Ectocarpus_siliculosus_tyr7 MRGEFTEERARAFYKATDDFEKLLIEHHHMPQIFFPWHRWYLSKIESFLKMIPYWWTGIFRFERFHNRFHDCVGRLMHVTASDTPEFPLHHAFWDMWEKEYNMYEDY Ectocarpus_siliculosus_tyr12 MRREFSEERDNTFKEFSEIYEKFVMSHIHEAKQFYPWHRSYILKFESLLRVIPFWWAGIFNFERWHNTIHKAIGGHMGEYASYSPEFWSHHAMWFEWQKDYGVYDSI Ectocarpus_siliculosus_tyr13 MRKEYREERQSALNRLKGDYDKIAQWHAHSGPAFLPWHREYIKRLEIALRLIPYWSTGFISLEYSHANALVWIGGDMFITSANDPLFFLHHVFWEYWRQNSEKYAPR Ectocarpus_siliculosus_tyr14 MRKEYRDERLNALNVLKGEYDRISMEHAHSGPGFLPWHREYIKRFEIALRLIPYWSVGPFALEYSHSNVHLWIGGHMKEQSSNDPIFFSHHAFWELWRQALDRFAPR Ectocarpus_siliculosus_tyr15 MRREIRQDRENAMAVMQYSKDYLTRLHWHQGAGFVTSHMALTLMFEQSLQAIPYWFTGRFGFSMAHGHIHETVGGSWNATSTNDITFWVLHPSWHLKRLADDVYDNF Ectocarpus_siliculosus_tyr18 MRKEYRDERRNALNTLKGEYDRLSRQHAHSGPGFLPWHREYLKRVEIALRMVPYWSVGPFAIEYSHSNIHLWIGGDMKSTSANEPIFFMHHSFWELWRQAPDRYAPR Ectocarpus_siliculosus_tyr16 MRKEYRDERRNALNTLKGEYDRLSRQHAHSGPGFLPWHREYLKRVEIALRMVPYWSVGPFAIEYSHSNIHLWIGGDMKSTSANEPIFFMHHSFWELWRQAPDRYAPR Ectocarpus_siliculosus_tyr17 MRKEYRNERVNAIMQLKGEYDRLSVMHAHSGPGFLVWHREYMKRMEIALRMIPYWSVGPFALEYTHASIHLWMGGDMKSTSANDPIFFLHHTFWEMWRQAQDHYAPR Ectocarpus_siliculosus_tyr6 MRRELREDRTAAMREFYSNAKHVAAYHFHNGMHFLNAHAAFDLWVEKNLQKIPQWYMGWFSWASVHASIHGMIGGGFDGAAPLDPIFWTLHSGQHILQLDDKLYEAF Ectocarpus_siliculosus_tyr5 MRRELRADRTSAMREFYANSKIISTYHFHSGMHFLNAHASFDLWAERSLQMIHYWFTGWFAWNEVHAANHGMMGGAFNGPSILDPVFWALHPITQILQLDERVYDKF Ectocarpus_siliculosus_tyr4 MRKEYRNERTNAIIQLKGEYDRLSVMHAHSGPGFLVWHREYMKRMEIALRMIPYWSVGPFALEYTHASIHLWMGGDMKSTSANDPVFFLHHTFWEMWRQAQDHYAPR Ectocarpus_siliculosus_tyr1 MRREIRRDREDAMLIWYSNYQVITAYHYHIGLQFLTSHAAFDLTMERYLQMIPMWFMSRFGWESVHGDIHGLLGGAFSLASPLDPLFYMLHSMLHIVWLTDAIYEDF Ectocarpus_siliculosus_tyr3 MRREIRGDREDAMETWYSNYMSIAAIHYHQGMQFLTSHAAFDLIVERYLQMIPVWYMGRFGWEEIHGDIHGLLGGAFDAASPVDPIFWVLHPLMHVLLLTD------ Ectocarpus_siliculosus_tyr2 MRREIRRDREDAMQTWYSNYMPVTAIHYHQGMQFLTSHAAFDLTMERYLQMIPVWYMGRFGWEYIHGDIHGLLGGAFDTASPVDPLFWVLHPLMHILLLTDAVYTDL Pinctada_fucata_tyr2 MRKEYRDERQQAFRTLKGEYDRLARVHAHSGPAFLPWHREFVKRMEFLIRQVPYWSSGPFRPEYTHGNPHIYVGGDMLSTAANDPIFWMHHSFWEMYRQAFDSYAPR Pinctada_fucata_tyr3 MRKEYRDERNQALRTLKGEYDRLSRVHAHSGPAFLPWHREFVKRMEFLIRQVPYWSTGPFRPEYTHGNPHIYVGGDMLSTAANDPIFWMHHSFWEQYRQAFDTFAPR Pinctada_fucata_tyr4 MRKEYRDERNAAFRALKGEYDRIGRIHAHSGPAFLPWHREFVKRVEFALRQVPYWSTGPFTLEYTHGNVHIFVGGDMFATSSNDPSFFLHHSFWEMWRLSPDSYAPR Pinctada_fucata_tyr1 MRKEYRDERNAAFRALKGEYERIGRIHAHSGPAFLPWHREFVKRVEFALRQVPYWSTGPFTLEYTHGNVHIFVGGDMFATSSNDPSFFLHHAFWEMWRLSPDSYAPR Lottia_gigantea_tyr MRKEYRDERNAAFRALKGEYERIGRIHAHSGPAFLPWHREFVKRVEFALRQVPYWSTGPFTLEYTHGNVHIFVGGDMFATSSNDPSFFLHHAFWEEWRLSPDSYAPR Sepia_officinalis_tyr MRQECRGARGGAIVDLKSRYDTIAGMHAHLGPSFLGWHRVYLIMYEEALQEICYWSTGAFAWEQEHDNTHVWVGEIMRVAAPGDPVFFFHHTFWELFRQAP------ Illex_argentinus_tyr1 MRQECRGARGGAIVDLKSRYDTIAGMHAHLGPSFLGWHREYLIMYEEALQEICYWSTGAFAWEQEHDNTHVWVGEIMQVAAPGDPVFFFHHTFWELFRQAPRMYAPH Illex_argentinus_tyr2 MRQECRPDRNGAIVTLKSRYNTLAAMHAHNGPNFLGWHRVYLNMYEEALQEICYWSTSQFAWEREHDNTHVWVGGIMVERSPEDPVFWFHHLYWELFRRQTRMYAPH Lottia_gigantea_tyr2 MRRECREEWRNAIRRLKNRFDTMARIHAHDGSSILGWHRVFLYLFENALRRKCYWSTGPFALEAEHNNAHVAVGALMAPNAAWDPLFYFHHCYWQLFRRAPQRYHFH Caenorhabditis_remanei_TYR5 MRRDCRDELSGAVQDAKNVLDAFSFLHAHGGVGFLPFHRVFLYLYEKLLRQYCFWPTGFAASENLHNHVHLYIGGLMAETAAYDPIFWFYHVYFEEFREEPGFFSDR Caenorhabditis_briggsae_TYR6 MRRELREDRRDAWNAMKGLYNKIGRVHVHSGPAFTLWHREFLKRLELALRDHPFWSTGPYHLEFSHDYVHFFVNGDMSYSSSNDVCFVYHHGMFENWRQNSDEYYPR Caenorhabditis_elegans_TYR5 MRRELRDDRINAWNAMKGLYNKIGRVHVHSGPAFTLWHREFLKRLELALRDHPFWSTGPYHLEFSHDYVHFFVNGDMSYSSSNDVCFVYHHGMFEHWRQNSDEYYPR Brugia_malayi_TYR3 MRKEIRSELRIAMNGLKTAWDLHTLVHAHWGPAFLPWHREFLRQFEIALQTEPYWSTGPFAFESMHGLSHVWVGGFMYRVSPNDPTFYMHHAFWEKFRQVQDEYQPV Caenorhabditis_briggsae_TYR3 MRKEYRAERDNAINALKNMYDAVAMFHAHGGPGFLGWHRMYLVMYERALQSKPYINTGPFALEHHHGSYHIHVGGLMEDTASFDPVFFMHHAYWEQFRQNVLEYQPS Caenorhabditis_remanei_TYR3 MRKEYREERDRAIVMLKNKFEIIADLHAHGGPGFLPWHRIYMMIWEEGLREQPYWVTGPFAFELYHNNIHDWIGGTVSAWASFDPAFMLIHGYWYRFQEGENYEEAQ Caenorhabditis_elegans_TYR3 MRKEYREERDRAIVMLKNKFEIIADLHAHGGPGFLPWHRIYMMIWEEGLREQPYWVTGPFAFELYHNNIHDWIGGTVSAWASFDPAFMLIHGYWYRFQEGENYEEAQ Caenorhabditis_briggsae_TYR4 MHKEYREEREQAIIMLKNKFEVIADLHAHGGPGFLPWHRIYMMIWEEGLREQPYWVTGPFAFELYHNNIHDWIGGTVSAWASFDPAFMLIHGYWYRFQEADNYEEAP Caenorhabditis_remanei_TYR4 MRKNVDDEILIALRNMQTGYQAISAYHLHGMPTFPMWHRLYMVQFEQAVAGHPYWWTENRVFEVAHNPIHYLVTHSMSEYTSYDPLFFLHHSNFALWQASPHEYDDL Caenorhabditis_elgans_TYR4 MRKNVDDEVLKALDDLQQGYQAIAGYHLHGMPSFPLWHRLYVVQLERALIRKPYWWTLNKKFEIAHNAIHYLVTYSMSEYTSYDPLFFLHHSNFAIWQRTPRQYDDL Brugia_malayi_TYR1 MRKDVDAEVLEALKEVQTGYQAIAAYHIHGMPTFPQWHRLFTTQMEQALRQKPYWWTAGTTFEIAHNDIHYLVGKSMSEYTSYDPIFFLHHSNFAIWQATPNQYHDL Brugia_malayi_TYR2 MRKSVDEEILKSLREVNLGYAAIASYHLHGSPVFPQWHRLYVVQMEQALKAKPYWWTDGQVFEVAHNTIHYLVKYSMSEYTSYDPIFFLHHSNLAVKLATPTSYDDL Caenorhabditis_remanei_TYR2 MRKNLLEELHQGFTKFKFGYLNIAKWHWHNHPMFLPWHRLIMVQLELGLSRHPYWWTHPLVFDMAHGQVHNCMTYSMLAYSCFDSAFFLHHSQYALYQKWPLKYDSF Caenorhabditis_elegans_TYR2 MRKNLLEELHQGFTKFKFGYLNTVKWHWHQHPMFLPWHRLIMVQLELGLSRHPYWWTHAPVFDMSHSQIHNCMTYSMLEYSCFDPTFFLHHSQYALYQKWPLKYDTF Caenorhabditis_briggsae_TYR2 MRKEYRAERANALNTLKGEYDRLSRQHAHSGPGFLPWHREYLKRFEIALRMVPYWSVGPFAIEYSHSNIHLWIGGDMKSTSANEPIFFMHHSFWELWRQAPDRYAPR Brugia_malayi_TYR4 MRKEYRDERLNALNVLKGEYDRISMEHAHSGPGFLPWHREYIKRFEIALRLIPYWSVGPFALEYSHSNVHLWIGGHMKEQSSNDPIFFSHHAFWELWRQALDRFAPR Caenorhabditis_briggsae_TYR5 MRKEYRNERVNAIMQLKGEYDRLSVMHAHSGPGFLVWHREYMKRMEIALRMIPYWSVGPFALEYTHASIHLWMGGDMKSTSANDPIFFLHHTFWEMWRQAQDHYAPR Caenorhabditis_briggsae_TYR1 MRKNIREETFQAMAQFKNGYTNIVSWHWHSDLRFCAWHRLIMVQLEMGLSKYPYWWTHKPIFDDPHNQIHRCFDYGMPTYAGWDPAFLLHHSQYALYRLMPLRYDNF Caenorhabditis_elegans_TYR1 MRKEYRNERQNALIQLKGEYDRLSVMHAHSGPGFLVWHREYMKRMEIALRMIPYWSVGPFALEYTHASIHLWMGGDMKSTSANDPVFFLHHTFWEMWRQAQDHYAPR Caenorhabditis_remanei_TYR1 MRKEYRNERTNAIIQLKGEYDRLSVMHAHSGPGFLVWHREYMKRMEIALRMIPYWSVGPFALEYTHASIHLWMGGDMKSTSANDPVFFLHHTFWEMWRQAQDHYAPR Lottia_gigantea_Hc MRQDLAVQVSRALDKLQLSYFRLAGIHHHNDYLFPTWHRPYMLLYEQCLHDIPYWWAFKFVLEMVHNNIHEWSQGHMAPVSSFDPVFWMHHCNLAIWQYSVQNYPEL Neurospora_crassa_tyr3 MRLNILKFFTRALQVLQSSFFQLGGIHTHGTVLFPTWHRAYESTWEQTLCEAPFWWGGDFALEMVHNTVHFLIPGHMGPHAAFDPIFWMHHCNLALWQTSPTSYPDF Neurospora_tetrasperma_tyr3 MRREVREDREDAMEKLYKGISFFVQMHWHDDAGIMTHHVGYTMLFEQALQVVPYWYTGRWALFNTHGPVHIKMGGEWNSSAPYDPLFWVIHPTWRRKLGDDDMYNEY Neurospora_crassa_tyr2 MRREIRKDREDAMETLYKGINFFVQMHWHDDAGIMTHHVGYTLLFEQALQVVPYWYTGRWAMNNTHGPVHIKVGGEWNSSAPYDPLFWVIHPTWKRKLAGDEMYDSF Neurospora_tetrasperma_tyr2 MRREIRRDRENAVSVLQYSKDYFNRLHWHDGAGFVTSHIALSLMYEQALQSVPYWFTGRFGLTEAHGHIHELLGGAWSGTSTNDVTFWVLHPTWHLNRLADSMYAHF Neurospora_crassa_tyr1 MRREIRRDRENAVSIMQYSKDFFNRIHWHAGAGFVTSHIAVSLMYEQSLQAIPYWFTGRFGLTEAHGEIHELLGGAWSATSTNDPTFWLIHPTWHLRRLDDDVYDNF Neurospora_tetrasperma_tyr1 MRREIRRDRENAVAVLQYSKDYFNRMHWHAGAGFVTSHIAITLMYEQALQAVPYWVTGRFALTEAHGNIHGLLGGTWSATSTNDVTFWVLHPTWHLSRLDDQMYDNF Aspergillus_aculeatus_tyr MRREIRRDRENAVSVLQYSMDYFTRMHWHEGTGFMNAHMGFTLMFEQALQSVPYWFTGRFGLSAAHGHIHEIVGGAWSATSTIDPIFWVIHPTWQLRRLGDEVYDNF Agaricus_bisporus_tyr MRLNILKFFTRALQVLQSSFFQLGGIHTHGTVLFPTWHRAYESTWEQTLCEAPFWWGGDFALEMVHNTVHFLIPGHMGPHAAFDPIFWMHHCNLALWQTSPTSYPDF Sepia_officinalis_Hc MRREIRDERDDAMKVLWLDVWTIDQFHLHDGIGFGITHSMVTMMFENSLQLVPYWFTGRWGYTWPHGPVHVWVGGNVDSSSPLDPTFWSMHPTFKLLAGSDAIYDNF Megathura_crenulata_Hc MRKNVDDEVLKALDDLQQGYQAIAGYHLHGMPSFPLWHRLYVVQLERALIRKPYWWTLNKKFEIAHNAIHYLVTYSMSEYTSYDPLFFLHHSNFAIWQRTPRQYDDL Aplysia_californica_Hc MRKSVDEEILKSLREVNLGYAAIASYHLHGSPVFPQWHRLYVVQMEQALKAKPYWWTDGQVFEVAHNTIHYLVKYSMSEYTSYDPIFFLHHSNLAVKLATPTSYDDL Nucula_nucleus_Hc MRKDVDAEVLEALKEVQTGYQAIAAYHIHGMPTFPQWHRLFTTQMEQALRQKPYWWTAGTTFEIAHNDIHYLVGKSMSEYTSYDPIFFLHHSNFAIWQATPNQYHDL Ciona_intestinalis_HcD MRKNIREETFQAMAQFKNGYTNIVSWHWHSDLRFCAWHRLIMVQLEMGLSKYPYWWTHKPIFDDPHNQIHRCFDYGMPTYAGWDPAFLLHHSQYALYRLMPLRYDNF Ciona_intestinalis_HcB MRRELRADREDAMEAYYFDYQLLASYHYHAGVQFLTAHAAFGLMLERSLQKIPFWYMGRFGWEHVHGDMHGLLGGAFKGVSPMDPLFWVLHPMLHVLWMDDRVFEKF Ciona_intestinalis_HcC MRKNIREETFQAMARFKDGYTNIVSWHWHVDLRFCAWHRIFMVQVEMGINKYPYWWTHKPI---------------------------------------------- Ciona_intestinalis_HcI ---------------------------------FLPWHRLIMVQLELGLSRHPYWWTHAPVFDFSHDDIHNCVTYSMVDFAAFDALFFLHHSQFALFAHWPLKYDTF Ciona_intestinalis_HcH -----------------------------------------------SLSRHPYWWTHAKVFDDSHDQIHNCVTYSMDDYSAFDAMFFLHHSQYALFGHWPLKYDTF Ciona_intestinalis_HcG -----------------------------------------------GLSRHPYWWTHTLVYDDSHDQIHNCMTYSFDGFSAFEPAFLLHHSQYALYQKWPLKYDTF Ciona_intestinalis_HcF MRKNLLEELHQGFTKFKFGYLNIAKWHWHNHPMFLPWHRLIMVQLELGLSRHPYWWTHPLVFDMAHGQVHNCMTYSMLAYSCFDSAFFLHHSQYALYQKWPLKYDSF Ciona_intestinalis_HcE MAPQFQQVPQIAPNHVFKWWREDPHWNDRQGELFVFMHRQMVARYDCEIESLPFGNTGTHPYGNLNKQAHNLMLGIMGIGAFRDPLFWRWHKHFHRFEIQPPEINVE Glycine_max_CO2 MSPHFQQVPQIAPSHVFKWWREDPHWNDRQGELFVFMHRQMVARYDCELQPIQFGNSGTPPYGNLNKQAHNLMIGIMGIGAFRDPMFWRWHKHFHRFELKQPEISVL Glycine_max_CO1 MRYSLRKKKNKAWKLVKNSFWSIASYHQHSNVLFPTWHRFYCLRMEQALQTVHYWTTGYTTFSNPHNDIHLSINGEMGEVAAFDPIFFSHHSNFWIWQRDTQTYSRG Vitis_vinifera_CO MRRAAHDYIANAVSIMKRSFLSQANLHVHRSWLFFPWHRMMLYFHERILGSLPFWWDEMYVIELPHNTLHDWTREDMGYSAGRDPIFYGHHGNWEVWRREWRAYEEV Oryza_sativa_CO MRPAAHAYLARAVSLMKRSFEQQWRVHIHSCWLFFPWHRMYLYFHERILGKLPFWWDAMYAVESPHNPVHRWTGEDMGYSAARDPVFFAHHGNWHIRRGDWATYQDV Glycine_max_CO4 MRPAAHEYLAKALDLMKRNFTQQANVHIHNSWLFFPFHRWYLYFYEKILGSLPFWWDSIYAVENPHGSVHLWTIEDMGYSAARDPIFFSHHSNWSIWKTDWKVYQDV Glycine_max_CO3 MRPAAHEYLAKALDLMKRNFTQQANVHVHNSWLFFPFHRWYLYFYERILGSLPFWWDSIYAVENPHGPVHLWTIENMGYSAARDPIFYSHHSNWSIWKTDWKVYQDV Glycine_max_CO5 MRPAAHNYLAKAIDLMKRNFMQQANVHVHSSWLFFPYHRWFLYFYERILGSLPFWWDSIYAVEGPHGPVHLWTIENMGYSAARDPIFYSHHSNWSIWKTDWKVYQDV Glycine_max_CO10 MRSAAHDYLAKAVNLMKRSFAQQAKVHVHFSWLFFPYHRWYLYFHERILASLPFWWDSMYAVESPHGPVHAWTMEDMGYAAARDPIFYCHHSNWSIWKTDWKVYQDV Glycine_max_CO7 MRPAAHVYIAEALKRMKRNFTQQANVHVHNCWLFFPYHRWYLYFYERILGNLPFWWDSFYVLENPHGPVHSWTRENMGYSAARDPIFFSHHANWSIWKTDWKVYQDV Glycine_max_CO6 MRPPAQEYLELALKRMRRSFKQQADIHVHFSWLFFPFHRWYLYFYERILGSLPYWWDLIYRVELPHTALHRWTKEDMGYSAGRDPIFYSHHANWNIWKTDWKVYQDV Glycine_max_CO8 MRPPAQEYLELALKRMRRSFKQQADIHVHFSWIFFPFHRWYLYFYERILGSLPYWWDSIFAVELPHTAVHRWTKEDMGYSAGRDPAFYSHHANWNIWKTDWKVYQDV Glycine_max_CO12 MRPAAHDYIAEAVRRMQRSFMQQANVHVHGSWIFFPWHRWYLYFYEKILGKMPFWWDPIFTLESLHNTVHSWTHHDMGATAAKDPIFFAHHSNWNIWKTDWKDYQRV Glycine_max_CO11 MRPAAHDYIAEAVRRMQRSFMQQANVHVHGSWIFFPWHRWYLYFYEKILGKMPFWWDPIFTLESLHNTVHSWTNHDMGATAARDPIFFAHHSNWNIWKTEWKDYQRV Glycine_max_CO9 MRRPAQDYLNEAVRLMRRNFMQQAKIHVHGNWLFAPFHRWYLYFHERILGSLPFWWDAIYTLEKPHNNVHRWTRIDMGAWAARDPIFFAHHSNWNIWKTDWKDYEYV Daphnia_pulex_tyr MRQDSRIFPGEAQTTVQSYFREDLHWHDRRGELFYYMHQQILARYDAELARVSYHWDAYFPYGDLHNFGHIAMMGVMGVTAMRDPIFYRWHKFFQQFKATPDRIQVT Aspergillus_nidulans_tyr2 MRKPAHEYIAKGIALMKRNFIQQAKVHIHRSWFFFPFHRWYIYFFERILGSLPFWWDPYFAIEAPHNTVHKWVQEDMGYTAARDPVFYPHHTNWGIWKKDWRVYEDV Aspergillus_nidulans_tyr1 MRQDTQSFPDEEATVVPAYFREDLHWHNRRGELFYYMHQQIIARYNFELKRARFNFNAYFPYGDLHNMGHVFIFGVMGATAMRDPIFYRWHSYFQEYKAGSPKITVN Amphimedon_queenslandica_tyr MRQDTQSFPDEEATVVPAYFREDLHWHNRRGELFYYMHQQIIARYNFELKRARFNFNAYFPYGDLHNMGHVFIFGVMGATAMRDPIFYRWHSYFQEYKAGSPKITVN Dictyostelium_fasciculatum_tyr MRPDTQVFPDEEAHIVPAYWREDIHWHNRRGEIFYYMHQQIIARFNIELKRVKLSWRAYFPYGDFHNMGHILIFGVMAAVDLRDPLFFRWHAYFQEFKAGSDKITVN Polysphondylium_pallidum_tyr2 MRPDTQTFPDEESFVVQWYFREDLHWHDRRGELFYYMHQQVIARYNAELARVPFNLRGYFPYGDLHNNGHTFIFGVMGSTAMRDPVFYKWHSYFQEHKSGNPTISLN Saccoglossus_kowaleksii_Hc MRKDTHVFPDEEATVVPWYFREDIHWHDRRGELFYYMHQQLVARYNFELQRVRLNLRGYFPYGDMHNMGHVFIFGVMGATAMRDPVFYRWHSYFQEHKNGNPTIMIE Ciona_intestinalis_tyr1 MRPDTKTFPDEESFVVEWYFREDLHWHDRRGELFYYMHQQIIARYNAEMARVPFNLDGYFPYGDFHNMGHILIAGVMGSTAMRDPIFYKWHAFFQEHKRGHETIKVE Ciona_intestinalis_tyr2 MRPDTKSFPDEVSSVVPAYFREDIHWHDRRGELFYYMHQQIIARYNVELSRVRYNFRGYFPYGDLHNMGHVFIFGVMGATAMRDPVFYRWHAYFHLYKYGSEVIEVN Ciona_intestinalis_tyr4 MRRDTRVFPSETAAVIPAYWREDIHYHDRRGELFFYMHQQVIARFNCELKRVKFSWRAYFPYGSIHNNGHSFTFGVIAATTMRDPFFYRWHAYFQKHKEGPHRINVN Ciona_intestinalis_tyr3 MRPDTRIFPSQEASVIGAYFREDIHWHDRRGELFYYMHHQILARYNVELKKVPLNLRGYFPYGNLHNEGHNIIFGVMGTTAMRDPIFYRWHGFFNKFKTRNPTFNVT Epiperipatus_sp_Hc MRPDTKLFPDEEGSIVLAFFREDIHWHDRRGELFYYMHQQLLARYQIDLGRIPLALRAYYPYGDVHNMGHVLLSGVMGATAMRDPIFYRWHKFFLRNKAGSPRLRIN Limulus_polyphemus_HcA MRSDTSLFPDEEGRAVLAYFREDIHWHDRRGELFYYMHQQMIARYQVELGRVPLDLRPYYPYGDTHNSGHVLLFGVMGTTAMRDPVFYRWHTFFQRHKQGSARLQV- Euphrynichus_bacillifer_HcA MRDDTRLFPDEESNLLDAYWREDIHWHDRRGELFYHMHQQTIARYNIELARTSFSLRAYFPYGDYHQNGHVMLVGVMGTTTMRDPLFYRWHQHFVRHKQGNPRIQAT Mastigoproctus_giganteus_HcA MRTDTRLFPDEEGTLVDAYWREDIHWHDRRGELFYYMHQQTMARYNIEMPRVAFRFRAYFPYGDLHNNGHNILFGVVGTTAMRDPVFYRWHQHFVRHKQGNPRIRVN Limulus_polyphemus_HcB MRPDTKLFPDEEGAVVNAYFREDIHWHDRRGELFYYMHQQLIARYNVDLSRVPLTLRGYFPYGNYHGHMHNLIYGVVGQTAMRDPAFYRLHAQFHRYKRGNPRFAVN Euphrynichus_bacillifer_HcB MRPDTKLFPDEEGAIVQAYFREDIHWHDRRGELFYYMHQQLIARYNVELARVPLTLRGYFPYGNYHGNLHNIIYGVVGQTAMRDPSFYRLHAQFHRYKRGNPRLTVN Mastigoproctus_giganteus_HcB MREDTKLFPDEEGAAVQAYFREDIHWHDRRGELFFYMHSQLIARYNADLKKVNLTYRGYYPYGSLHNMGHNVIYGVMGTTAMRDPIFYRWHGMFRRHKEGNPRVEVN Bombyx_mori_tyr2 MRKDTGMFPTEEGFVVQAYFREDIHWHDRRGELFYYMHRQTVARYNVELPAVPLKLRAYFPYGNYHSLGHVLIHGVMGTTAMRDPTFYRFHGHFDMHKQGNPQIMVQ Drosophila_melanogaster_tyr3 MRPDTRIFPSQEASVIGAYFREDIHWHDRRGELFYYMHHQILARYNVELKKVPLNLRGYFPYGNLHNEGHNIIFGVMGTTAMRDPIFYRWHGFFNKFKTRNPTFNVT Bombyx_mori_tyr1 MSPHTTTMPYGIIESTKSYFREDIHWHNRKGELFYYMHEQMLARYDAEMRRVSLHYDGYYPYGDLHNTGHVMLDGVMGQTALRDPLFYRWHKHLQNHKRQSENIKVN Tribolium_castaneum_tyr2 MRDDCKIFPDKEATLKPAYYREDIHWHDRKGELFFYMHQQMCARYDCEMNRMPFHFEGYAPYGSLHNWGHVMMPGVMSSTALRDPIFYRWHRFFQDYKAHKPSITVN Tribolium_castaneum_tyr3 MRDDCKIFPDKEVYRNPAYYREDIHWHDRKGELFYYMHQQMCARYDCEMNRMPFHFEGYAPYGSLHNWGHVMMPGVMSSTSLRDPIFYRWHRFFKDYKSHSPSIDVQ Tribolium_castaneum_tyr1 MRDDCRVFPDKADLKRTAYFREDIHWHDRKGELFYYMHQQMCARYDCELRRMPFHFHGYAPYGSLHNWGHVILPGVMSSTALRDPIFYRYHRFFQEYKIGSPSIGVE Anopheles_gambiae_tyr1 MRSDCDIFPDKADINRTAYFREDIHWHDRKGELFYYMHQQMCARYDCDLRRLPFHFHGYNPYGSLHNWGHVIIPGVMSSTSLRDPIFYRYHRFFQELKAGSPNISVE Drosophila_melanogaster_tyr2 MRDDCKIFPDKDDHHRKAYFREDIHWHDRKGELFYYMHQQMCARYDCDLQRMPFQFEGYSAYGSLHNWGHVMLPGVMSSTSLRDPIFYRYHRFFQEYKAGSAEIQVE Drosophila_melanogaster_tyr1 MRPDCKIFPDKEFWQNPAYYREDIHWHDRKGELFYYMHQQMCARYDCEMPRMPFHFHGYSSYGSIHNWGHVISPGVMSATSLRDPIFYRWHRFFQDYKEGADKIQVE Anopheles_gambiae_tyr9 MSKDAQFFSTCTADTLHSYWRDDYHYYDRHGEVFLYVHSQMVARYETELPLVPWNYDGYAPYGNLHNYGLGKFYGLTIFGAPRDPCFWRWYKHLQYYGRGPPNVQVK Anopheles_gambiae_tyr6 MSKDAQFFSTCTADTLHSYWRDDYHYYDRHGEVFLYVHSQMVARYETELPLVPWNYDGYAPYGNLHNYGLGKFYGLTIFGAPRDPCFWRWYKHLQYYGRGPPNVQVK Anopheles_gambiae_tyr3 MSKEAQEFAMEVTPTIPSYWREDYHYHDRQGELFLYMHSQMLARYNAEDIGLDPWYDSYTPYGTLHNLGHDKFWGVMGSVAVRDPVFWIWHRHRQSIVKDTPVVKVE Anopheles_gambiae_tyr2 MHSLARKVPEMSTHAMVDYWRHDAHRHDRQGELFVYMHRQMLARYNAELEPVPWEFTGSDAYGSLHNSGHGVFSTYMAAHAVRDHIFFRWHKFVEEYHQDLAHLRIR Anopheles_gambiae_tyr8 MSKRAKQYPVISNAAMTNYWRNDAHRHFRQGELFGYMHAQMLARYNAELPVVAWQYNGYNTLGSIHNNGHGVISSYMSVTAMRDPIFYRWHKRWQEWSSGPPHIRFQ Anopheles_gambiae_tyr7 MSKLCKKHNVTQSAAMTNYWRCDAHNHTRQGELFGYMHAQMLARFNADLEPVAYEDEGFDAFGGFHNMGHMAFTTYMGLCAVRDPIFFRWHQHYQMWNDREPHIRLK Anopheles_gambiae_tyr5 MSKLCKKHNVTQSAAMTNYWRCDAHNHTRQGELFGYMHAQMLARFNADLEPVAYEDEGFDAFGGFHNMGHMAFTTYMGLCAVRDPIFFRWHQHYQMWNDREPHIRLK 'Anopheles_gambiae tyr4' MSKLCKKHNVTQSAAMTNYWRCDAHNHTRQGELFGYMHAQMLARFNADLEPVAYEDEGFDAFGSFHNMGHMAFTTYMGLCAVRDPIFFRWHQHYQMWNDREPHIRLK ; END; BEGIN TREES; Title Type_3_copper_proteins_Neighbor_Joining_tree; LINK Taxa = Taxa2; TRANSLATE 1 Branchiostoma_floridae_tyrh, 2 Branchiostoma_floridae_tyre, 3 Branchiostoma_floridae_tyrg, 4 Branchiostoma_floridae_tyrf, 5 Branchiostoma_floridae_tyrd, 6 Branchiostoma_floridae_tyrc, 7 Branchiostoma_floridae_tyri, 8 Branchiostoma_floridae_tyra, 9 Branchiostoma_floridae_tyrb, 10 Branchiostoma_floridae_tyrl, 11 Branchiostoma_floridae_tyrm, 12 Branchiostoma_floridae_tyrk, 13 Branchiostoma_floridae_tyrj, 14 Saccoglossus_kowalevskii_tyrd, 15 Saccoglossus_kowalevskii_tyrc, 16 Saccoglossus_kowalevskii_tyrb, 17 Saccoglossus_kowalevskii_tyra, 18 Branchiostoma_floridae_tyrC1, 19 Branchiostoma_floridae_tyrB1, 20 Branchiostoma_floridae_tyrA1, 21 Mus_musculus_Tyr, 22 Homo_sapiens_TYR, 23 Ciona_intestinalis_tyr, 24 'Branchiostoma floridae tyr1/2b', 25 'Branchiostoma floridae tyr1/2a', 26 Mus_musculus_Tyrp1, 27 Homo_sapiens_TYRP1, 28 'Ciona intestinalis tyr1/2b', 29 'Ciona intestinalis tyr1/2a', 30 Mus_musculus_Tyrp2, 31 Homo_sapiens_TYRP2a, 32 Homo_sapiens_TYRP2b, 33 Capitella_teleta_tyr1, 34 Capitella_teleta_tyr2, 35 Clonorhis_sinensis_tyr1, 36 Schmidtea_mediterranea_tyr, 37 Schistosoma_mansoni_tyr1, 38 Clonorchis_sinensis_tyr2, 39 Clonorchis_sinensis_tyr5, 40 Clonorchis_sinensis_tyr4, 41 Clonorchis_sinensis_tyr3, 42 Schistosoma_japonicum_tyr, 43 Schistosoma_mansoni_tyr4, 44 Schistosoma_mansoni_tyr2, 45 Schistosoma_mansoni_tyr3, 46 Suberites_domuncula_tyr, 47 Nematostella_vectensis_tyr4, 48 Nematostella_vectensis_tyr3, 49 Nematostella_vectensis_tyr1, 50 Nematostella_vectensis_tyr2, 51 Hydra_magnipapillata_tyr, 52 Dictyostelium_discoideum_tyr2, 53 Dictyostelium_discoideum_tyr1, 54 Candidatus_nitrosopumilus_tyr, 55 Streptomyces_tsukubaensis_tyr, 56 Streptomyces_venezuelae_tyr, 57 Nitrosomonas_europeae_tyr, 58 Polysphondylium_pallidum_tyr1, 59 Bacillus_megaterium_tyr2, 60 Bacillus_megaterium_tyr1, 61 Ectocarpus_siliculosus_tyr11, 62 Ectocarpus_siliculosus_tyr9, 63 Ectocarpus_siliculosus_tyr10, 64 Ectocarpus_siliculosus_tyr8, 65 Ectocarpus_siliculosus_tyr7, 66 Ectocarpus_siliculosus_tyr12, 67 Ectocarpus_siliculosus_tyr13, 68 Ectocarpus_siliculosus_tyr14, 69 Ectocarpus_siliculosus_tyr15, 70 Ectocarpus_siliculosus_tyr18, 71 Ectocarpus_siliculosus_tyr16, 72 Ectocarpus_siliculosus_tyr17, 73 Ectocarpus_siliculosus_tyr6, 74 Ectocarpus_siliculosus_tyr5, 75 Ectocarpus_siliculosus_tyr4, 76 Ectocarpus_siliculosus_tyr1, 77 Ectocarpus_siliculosus_tyr3, 78 Ectocarpus_siliculosus_tyr2, 79 Pinctada_fucata_tyr2, 80 Pinctada_fucata_tyr3, 81 Pinctada_fucata_tyr4, 82 Pinctada_fucata_tyr1, 83 Lottia_gigantea_tyr, 84 Sepia_officinalis_tyr, 85 Illex_argentinus_tyr1, 86 Illex_argentinus_tyr2, 87 Lottia_gigantea_tyr2, 88 Caenorhabditis_remanei_TYR5, 89 Caenorhabditis_briggsae_TYR6, 90 Caenorhabditis_elegans_TYR5, 91 Brugia_malayi_TYR3, 92 Caenorhabditis_briggsae_TYR3, 93 Caenorhabditis_remanei_TYR3, 94 Caenorhabditis_elegans_TYR3, 95 Caenorhabditis_briggsae_TYR4, 96 Caenorhabditis_remanei_TYR4, 97 Caenorhabditis_elgans_TYR4, 98 Brugia_malayi_TYR1, 99 Brugia_malayi_TYR2, 100 Caenorhabditis_remanei_TYR2, 101 Caenorhabditis_elegans_TYR2, 102 Caenorhabditis_briggsae_TYR2, 103 Brugia_malayi_TYR4, 104 Caenorhabditis_briggsae_TYR5, 105 Caenorhabditis_briggsae_TYR1, 106 Caenorhabditis_elegans_TYR1, 107 Caenorhabditis_remanei_TYR1, 108 Lottia_gigantea_Hc, 109 Neurospora_crassa_tyr3, 110 Neurospora_tetrasperma_tyr3, 111 Neurospora_crassa_tyr2, 112 Neurospora_tetrasperma_tyr2, 113 Neurospora_crassa_tyr1, 114 Neurospora_tetrasperma_tyr1, 115 Aspergillus_aculeatus_tyr, 116 Agaricus_bisporus_tyr, 117 Sepia_officinalis_Hc, 118 Megathura_crenulata_Hc, 119 Aplysia_californica_Hc, 120 Nucula_nucleus_Hc, 121 Ciona_intestinalis_HcD, 122 Ciona_intestinalis_HcB, 123 Ciona_intestinalis_HcC, 124 Ciona_intestinalis_HcI, 125 Ciona_intestinalis_HcH, 126 Ciona_intestinalis_HcG, 127 Ciona_intestinalis_HcF, 128 Ciona_intestinalis_HcE, 129 Glycine_max_CO2, 130 Glycine_max_CO1, 131 Vitis_vinifera_CO, 132 Oryza_sativa_CO, 133 Glycine_max_CO4, 134 Glycine_max_CO3, 135 Glycine_max_CO5, 136 Glycine_max_CO10, 137 Glycine_max_CO7, 138 Glycine_max_CO6, 139 Glycine_max_CO8, 140 Glycine_max_CO12, 141 Glycine_max_CO11, 142 Glycine_max_CO9, 143 Daphnia_pulex_tyr, 144 Aspergillus_nidulans_tyr2, 145 Aspergillus_nidulans_tyr1, 146 Amphimedon_queenslandica_tyr, 147 Dictyostelium_fasciculatum_tyr, 148 Polysphondylium_pallidum_tyr2, 149 Saccoglossus_kowaleksii_Hc, 150 Ciona_intestinalis_tyr1, 151 Ciona_intestinalis_tyr2, 152 Ciona_intestinalis_tyr4, 153 Ciona_intestinalis_tyr3, 154 Epiperipatus_sp_Hc, 155 Limulus_polyphemus_HcA, 156 Euphrynichus_bacillifer_HcA, 157 Mastigoproctus_giganteus_HcA, 158 Limulus_polyphemus_HcB, 159 Euphrynichus_bacillifer_HcB, 160 Mastigoproctus_giganteus_HcB, 161 Bombyx_mori_tyr2, 162 Drosophila_melanogaster_tyr3, 163 Bombyx_mori_tyr1, 164 Tribolium_castaneum_tyr2, 165 Tribolium_castaneum_tyr3, 166 Tribolium_castaneum_tyr1, 167 Anopheles_gambiae_tyr1, 168 Drosophila_melanogaster_tyr2, 169 Drosophila_melanogaster_tyr1, 170 Anopheles_gambiae_tyr9, 171 Anopheles_gambiae_tyr6, 172 Anopheles_gambiae_tyr3, 173 Anopheles_gambiae_tyr2, 174 Anopheles_gambiae_tyr8, 175 Anopheles_gambiae_tyr7, 176 Anopheles_gambiae_tyr5, 177 'Anopheles_gambiae tyr4'; TREE tree_1 = ((143:0.185443,(((155:0.054142,((156:0.064457,157:0.097733):0.037248,(158:0.154,(159:0.094768,160:0.025514):0.070115):0.064363):0.039518):0.230163,(154:0.379278,(((147:0.081665,148:0.103778):0.4233,(146:0.319901,(144:1.0E-6,145:1.0E-6):0.667815):0.397786):0.100699,(149:0.282588,(150:0.26925,(151:0.0,(152:1.0E-6,153:1.0E-6):0.02034):0.399107):0.169161):0.126582):0.155278):0.078683):0.0,(161:0.243102,(162:0.157106,(163:0.097389,(((168:0.112796,169:0.11148):0.040379,(167:0.186981,(166:0.251321,(164:1.0E-6,165:1.0E-6):0.070347):0.01546):0.088586):0.009583,(170:0.192915,((173:0.24279,(171:0.006524,172:0.096219):0.091011):0.014608,((174:0.186537,175:0.104697):0.032535,(176:0.130289,177:0.141237):0.149043):0.064407):0.054508):0.026916):0.040644):0.045137):0.002394):0.082075):0.075869):0.772145,(((129:0.022248,130:0.006672):0.148119,((131:0.274333,132:0.230092):0.003592,((133:0.048298,134:0.096358):0.121963,(135:0.228902,(136:0.101382,((137:0.089299,138:0.0):0.243079,(139:0.146336,(140:0.035971,(141:0.00578,142:0.066707):0.015339):0.014706):0.001431):0.031195):0.083281):0.047368):0.011659):0.056202):0.673343,((108:0.693843,(((115:0.477045,116:0.425947):0.098321,((113:0.01567,114:0.012821):0.466738,((109:0.005854,110:0.00372):0.334477,(111:0.0,112:0.105467):0.290989):0.135897):0.050839):0.227599,((120:0.119776,(119:0.276809,(117:0.158235,118:0.189107):0.011055):0.078598):0.246852,((123:0.155969,(121:0.02316,122:0.109354):0.0):0.347131,(124:0.088978,(125:0.187938,(126:0.183135,(127:0.071418,128:0.059111):0.064932):0.020925):0.067281):0.168188):0.354306):0.343831):0.139134):0.143803,(((((73:0.213549,74:0.315806):0.1858,(75:0.276908,(76:0.184892,(77:5.55E-4,78:0.121641):0.105417):0.083697):0.111803):0.339347,((68:0.116244,(69:0.144061,(70:0.074536,(71:0.131509,72:0.048255):0.059981):0.057813):0.064017):0.243892,((66:0.133487,67:0.031268):0.556076,(65:0.332233,(64:0.158766,(63:0.079455,(61:0.102882,62:0.054654):0.044984):0.025182):0.066385):0.224971):0.124383):0.01814):0.613825,((87:0.711452,((84:0.065291,(85:1.0E-6,86:1.0E-6):0.017003):0.64743,(83:0.413817,(82:0.406609,(81:0.203558,(79:0.0,80:0.052227):0.129309):0.213101):0.123205):0.043998):0.0929):0.002991,(88:0.464621,((89:0.012538,90:0.027166):0.564971,(91:0.168658,((99:0.290714,(98:0.181296,((94:0.026588,(92:0.016751,93:0.012837):0.014509):0.192226,(95:0.004921,(96:0.00131,97:0.008573):0.014801):0.095284):0.06317):0.034511):0.0,((103:0.161652,(102:0.0,(100:1.0E-6,101:1.0E-6):0.034065):0.049943):0.031067,((104:1.0E-6,105:1.0E-6):0.018635,(106:0.009656,107:0.009871):0.006077):0.13536):0.088163):0.043618):0.036555):0.123459):0.095104):0.111666):0.09578,((((50:0.642196,51:0.474338):0.118751,(49:0.647123,(47:0.275022,48:0.338815):0.08782):0.132706):0.36995,((54:0.372236,(52:0.002997,53:0.006369):0.518412):0.040661,((55:0.204175,56:0.16326):0.175634,(57:0.440223,(58:0.548587,(59:1.0E-6,60:1.0E-6):0.274221):0.04142):0.0):0.069681):0.042689):0.044965,(46:0.531954,(((33:0.354031,34:0.371235):0.126052,((35:0.139724,36:0.399355):0.148124,((37:0.316868,38:0.186815):0.255523,((41:0.197448,(39:0.0,40:0.179391):0.26735):0.101983,(42:0.136858,(43:0.006673,(44:0.013269,45:0.040368):0.0):0.107461):0.148706):0.095969):0.257826):0.076423):0.0,(((23:0.255785,((21:0.062779,22:0.019862):0.249347,(20:0.128065,(18:1.0E-6,19:1.0E-6):0.197906):0.078051):0.045928):0.107095,((24:0.017993,25:0.041854):0.216956,((26:0.032867,27:0.027046):0.211314,((28:0.048194,29:0.046695):0.187651,(30:0.03772,(31:1.0E-6,32:1.0E-6):0.041188):0.10379):0.001539):0.050283):0.208581):0.045185,(((14:0.042293,15:0.145955):0.179574,(16:0.022482,17:0.045943):0.28234):0.070955,((12:0.002109,13:0.017486):0.25932,(11:0.577774,(10:0.14199,((8:0.014782,9:0.014309):0.087439,(7:0.129609,((3:0.05946,(1:0.04331,2:0.035865):0.097708):0.011027,(4:0.103024,(5:0.023363,6:0.0):0.079861):0.015466):0.0):0.086428):0.037861):0.0):0.031674):0.079058):0.09167):0.07404):0.10161):0.132999):0.017733):0.0):0.308798):0.772145); END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 107; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 107; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 107; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1362362018252; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 1402831490128212273; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 8866858489423726576; mqVersion 275; checksumv 0 3 2494354233 null getNumChars 107 numChars 107 getNumTaxa 177 numTaxa 177 short false bits 1048575 states 1048575 sumSquaresStatesOnly 3.88362486365596E14 sumSquares 3.88362486365596E14 longCompressibleToShort false usingShortMatrix false NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 966; setLocation -1280 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #1402831490128212273 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #1402831490128212273; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 899; setLocation -1280 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #1402831490128212273 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 9190.1362362007218.4260988498489527597; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 899; setLocation -1280 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle on; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; setCornerMode Right_Angle 50; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; showWindow; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleCentred on; toggleHorizontal on; toggleWhiteEdges on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocStrings.DrawTreeAssocStrings; tell It; setOn on; toggleCentred on; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #8866858489423726576 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 246; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 899; setLocation -1280 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.align.AlignToDropped.AlignToDropped; tell It; gapCosts 8 3 2 2; subCosts 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;