#NEXUS [written Fri Jun 06 02:19:14 EDT 2014 by Mesquite version 2.75 (build 564) at VampireS-PC/192.168.0.14] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=52; TAXLABELS Homo_sapiens Bos_taurus Mus_musculus Gallus_gallus Xenopus_laevis Xenopus_tropicalis salmon_salar Danio_rerio Oreochromis_niloticus Takifugu_rubripes Halocynthia_roretzi Ciona_intestinalis Tribolium_castaneum Danaus_plexippus Bombus_terrestris Megachile_rotundata Apis_florea Drosophila_melanogaster Drosophila_sechellia Drosophila_erecta Schizosaccharomyces_pombe Trichosporon_asahii Caenorhabditis_elegans Caenorhabditis_remanei Caenorhabditis_brenneri Caenorhabditis_briggsae Tetrahymena_thermophila Ichthyophthirius_multifiliis Paramecium_tetraurelia Plasmodium_yoelii Neospora_caninum Toxoplasma_gondii Saccharomyces_cerevisiae Schizosaccharomyces_japonicus Tetrapisispora_phaffii Candida_albicans Coccidioides_immitis Neurospora_crassa Cryptococcus_gattii Arabidopsis_thaliana Capsella_rubella Theobroma_cacao Cicer_arietinum Albugo_laibachii Orcinus_orca Thalassiosira_pseudonana Maylandia_zebra Taeniopygia_guttata choanoflagellida_Salpingoecidae Dictyostelium_fasciculatum Trypanosoma_cruzi Trypanosoma_brucei ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=34; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX Homo_sapiens AKKLLGLGQKHLVMGDIPAAVNAFQEAASLLGKK Bos_taurus AKKLLGLGQKHLVMGDIPAAVNAFQEAASLLGKK Mus_musculus AKKLLGLGQKHLVMGDIPAAVNAFQEAASLLGKK Gallus_gallus SKKLLGLGQKHLVMGNIPAAVNAFQEAASLLGKK Xenopus_laevis AKRLMGAGQKHLVMKDVRSAVNLFQEASSLLAKQ Xenopus_tropicalis AKKLMATGQKHLVMKDVRSAVTSFQEASSLLAKK salmon_salar ANKLIGTGKRHLVMGDVVSAVNYLQEACGMLAKR Danio_rerio AKKLIGTGSRHLVMGDVVSAVSVFQEACAMLAEK Oreochromis_niloticus ANKLIGTGKKHLVMGKVVEAVSTLQEACGMLAKK Takifugu_rubripes AKKLVGAGNKYLVLGDVVSAVAVFQDACSMLAAK Halocynthia_roretzi IQECMGAGKKDLLCNDYSEAVNCFQEACTLLSGK Ciona_intestinalis YAINLANGKKNLLCGDFPEAVACFQATSALQSER Tribolium_castaneum PKELFGQGVRAYVLQDFDTAVKAFSKASELLAAE Danaus_plexippus PEELLAAGRRHLAVRDYTSAAETLATACELLAKT Bombus_terrestris AATAISHGKRHLLVRDYTMAVTALAQACQLLAEK Megachile_rotundata PATAISHGKRHLLVRDYTMAVTALAQACQMLVEK Apis_florea PATAISHGKRHLLVRDYTMAVTALAQACQLLAEK Drosophila_melanogaster GKELFSQGSRNFLVKSYDEAADELSQVCQLYEEV Drosophila_sechellia GKELFSQGSRNFLVKSYDEAADELSQVCQLYEEV Drosophila_erecta GKELFSQGSRNFLVKSYDEAADELSQVCQLYEEV Schizosaccharomyces_pombe IEQLVTQGNMAYAQKNYEEAVDKYGQALMQSESI Trichosporon_asahii VAKLVSEGKKAIALRQWEEGVGKYADALDLQREL Caenorhabditis_elegans LAELLAAGRRALKVNDIDKASDSLSEATELSSEI Caenorhabditis_remanei LAELLANGRRELRVNNNAEASEILSEAAELSVEI Caenorhabditis_brenneri LSELLTAGRRAIRVNNIEEASEILSQATELSTEI Caenorhabditis_briggsae AAELLAAGRRALKVSDYETATEALSEASEMIVEL Tetrahymena_thermophila LESRLTEAVECYKNKNFDQAENIFSDLMIYAVKF Ichthyophthirius_multifiliis LEQQIEKVKEHIRKNEFESAEEIFSDLMIDAVKY Paramecium_tetraurelia AKELFNEGKHNEAEVMMQGVMQQALAYYKDELAV Plasmodium_yoelii AQELFDMGNLEFKESKNYDVAAERFSMAVEKKVK Neospora_caninum AETLLDEGKALFRSRNWAKAAEYFSRAVERKVTE Toxoplasma_gondii ADTLLGEGKTVFRSRNWAKAAEYFSRAVERKVAE Saccharomyces_cerevisiae MERQVQIAKDLLAQKKFLEAAKRCQQTLDSLPKD Schizosaccharomyces_japonicus IDQLVVQGNKAFSQKHYEIAAEKYSDALEVLEQK Tetrapisispora_phaffii IKTLVVEGAKYTANSDLANASKCYAELLDLESKT Candida_albicans VAKLISEGSRAYSSKDFDLASEKYGEACEEYSKS Coccidioides_immitis AELKRLASAKEAIKDYNSAADLYSRAVEIQAELN Neurospora_crassa LADLSAHAAAQYAQKNYDEAAELYAQAAEMQAEM Cryptococcus_gattii VEKLVAEGKKAIALHEWEQGVDRYATALDRMRLL Arabidopsis_thaliana AEELTEKGSVFLKENDFAEAVDCFSRALEIRVAH Capsella_rubella ADELTEKGSVFLKEQDFGEAVDCFSRALEIRVEH Theobroma_cacao ADELAEKGSKAFKENDFAEAADCFSRALEIRVAH Cicer_arietinum ADELMDKENKAMKDNDYGEAADNYSRALEIRVGH Albugo_laibachii QDPRFQRGLCLLKEHDYEAAVTIFEDLLKTKVEL Orcinus_orca AKKLLGLGQKHLVMGDIPAAVNAFQEAASLLGKK Thalassiosira_pseudonana SLPSHALAKQYLNTGQFNQALEVLEESLGEMHER Maylandia_zebra AKKLIGTGKRHLVMGDVVSAVNVFQEACSMLAEK Taeniopygia_guttata SKKLLGLGQKHLVMGNIPAAVNAFQEAASLLGKK choanoflagellida_Salpingoecidae AEVFAAAKSLYHKDEVDQAGAILSDLLETMVEQF Dictyostelium_fasciculatum MGKVKAAKALLDDQDYLSACELLGSSLSALSPIY Trypanosoma_cruzi ANEARAVGIAHYNNHRYEDALDIQYRVVRHFEKK Trypanosoma_brucei AVAMRAVGLELFNKHNYEEALDVQYRIVRYFENK ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 34; END; BEGIN TREES; Title Imported_trees; LINK Taxa = Taxa; TRANSLATE 1 Homo_sapiens, 2 Bos_taurus, 3 Mus_musculus, 4 Gallus_gallus, 5 Xenopus_laevis, 6 Xenopus_tropicalis, 7 salmon_salar, 8 Danio_rerio, 9 Oreochromis_niloticus, 10 Takifugu_rubripes, 11 Halocynthia_roretzi, 12 Ciona_intestinalis, 13 Tribolium_castaneum, 14 Danaus_plexippus, 15 Bombus_terrestris, 16 Megachile_rotundata, 17 Apis_florea, 18 Drosophila_melanogaster, 19 Drosophila_sechellia, 20 Drosophila_erecta, 21 Schizosaccharomyces_pombe, 22 Trichosporon_asahii, 23 Caenorhabditis_elegans, 24 Caenorhabditis_remanei, 25 Caenorhabditis_brenneri, 26 Caenorhabditis_briggsae, 27 Tetrahymena_thermophila, 28 Ichthyophthirius_multifiliis, 29 Paramecium_tetraurelia, 30 Plasmodium_yoelii, 31 Neospora_caninum, 32 Toxoplasma_gondii, 33 Saccharomyces_cerevisiae, 34 Schizosaccharomyces_japonicus, 35 Tetrapisispora_phaffii, 36 Candida_albicans, 37 Coccidioides_immitis, 38 Neurospora_crassa, 39 Cryptococcus_gattii, 40 Arabidopsis_thaliana, 41 Capsella_rubella, 42 Theobroma_cacao, 43 Cicer_arietinum, 44 Albugo_laibachii, 45 Orcinus_orca, 46 Thalassiosira_pseudonana, 47 Maylandia_zebra, 48 Taeniopygia_guttata, 49 choanoflagellida_Salpingoecidae, 50 Dictyostelium_fasciculatum, 51 Trypanosoma_cruzi, 52 Trypanosoma_brucei; TREE Imported_tree_0 = (((((((((((((1,2)0.2090,(3,45)0.2080)0.7030,(4,48)0.8890)0.9920,(5,6)0.8080)0.6260,(10,((7,9)0.7790,(8,47)0.6120)0.4780)0.6090)0.8340,(11,12)0.6080)0.4110,13)0.1620,(((19,20)0.3450,18)0.9680,((((16,17)0.4490,15)0.9600,14)0.4100,(26,(23,(24,25)0.6090)0.8030)0.7850)0.1560)0.1330)0.0990,(((21,34)0.5100,38)0.0990,(36,(35,(22,39)0.9650)0.2530)0.0810)0.0810)0.0190,(33,46)0.2240)0.0400,(((27,28)0.8010,44)0.2630,((31,32)0.9800,(43,(42,(40,41)0.8210)0.7400)0.7620)0.4120)0.0710)0.0760,((29,30)0.6700,(49,(37,50)0.3800)0.8460)0.2120)0.8600,(51,52)0.8600); END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 34; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 34; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1402035554604; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 5132652355857694147; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7908548175826466888; mqVersion 275; checksumv 0 3 4084913659 null getNumChars 34 numChars 34 getNumTaxa 52 numTaxa 52 short false bits 1048575 states 1048575 sumSquaresStatesOnly 1.7569986308629E13 sumSquares 1.7569986308629E13 longCompressibleToShort false usingShortMatrix false NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState true false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 700 467; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; desuppress; endTell; endTell; end;