#NEXUS [written Wed Jul 24 16:39:28 GMT+00:00 2013 by Mesquite version 2.75 (build 566) at Macintosh-6.local/192.168.5.142] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=17; TAXLABELS Rosellinia_subiculata_AY909002_ Rosellinia_australis_AY908997_ Rosellinia_corticium_AY908999_ Rosellinia_lamprostoma_EF026118_ Nemania_macrocarpa_GU292823_ Rosellinia_compacta_AB430457_ F493 F359 Nemania_chestersii_AJ390430_ Nemania_serpens_HQ115648_ Nemania_aenea_Var._aureolatum_AF201704_ Rosellinia_sanctae_cruciana_GU292824_ Rosellinia_buxi_AY909000_ Rosellinia_necatrix_AY909001_ Rosellinia_necatrix_EF026117_ Xylaria_allantoidea_FJ884194_ Xylaria_berteri_HQ651174_ ; END; BEGIN CHARACTERS; TITLE NemaniaMB; DIMENSIONS NCHAR=622; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Rosellinia_subiculata_AY909002_ CTCCCATCAA-CCCCTTGTGAA-CATACC-CTA-TTG-TTGCCTCGGCGG--------------------------------------------------------CGG--TACTCGT-------GA----CCCCGCC-GGCGGCCCCTTACCAAC--AAACCCTG----TCAGTACAACTTGAAT-TCTGA---ACTTA-TAACCAAAAATACGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCATATTGCGCCCGCTGGTATTCCAGCGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAG-CCCTCGCCGCTTAGCGTTGGGAGCCCAACC--C-GC--CGT--TGCGCG-GGTTAGC-TCCCC-AAAGTCAGTGGC-GGAGCCAGCC-CGTGCTC-TAGGCGTAGTAGATTT-CTC-ATCTCGCCTCTG-TAG-CCGCGGCG--CGGCC-TCCCCGCCGTAAAAC-A-CCC----ACACTTTTTTTTTAATGGTTGACCTC------------------------------ Rosellinia_australis_AY908997_ CTCCC-AAAA-CCC-CTGTGAA-CATACC-GTAC--G-TTGCCTCGGCGGG--------------------------------------------------------GGGG--CGC-T-------CCC--CCCCCGCC-GGCGG------CCCAC-G-AAACTCTG------TTTTGC-CCTGAATCTCTGA--AAC-GACAAAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATACGTAGTGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCCTTAAGCCCC-CGTTGCTTAGTGTTGGGAGCCCA-C-GGCAGC--C--CC-GCC----G-TCGC-TCCTC-AAATCCAGTGGC-GGAGCCGGTT-CGCGCTC-TAGGCGTAGTAGATTTTCTCCATCTCGC--CTA-CGG-C--CGGG--CCGGCCGTC-CTGCCGTAAAAG-AACCCCCC-CCTC----CACAGA-AGGTTGACCTC------------------------------ Rosellinia_corticium_AY908999_ CTCCC-AAAA-CCC-ATGTGAA-CTTACCTGTAC--G-TTGCCTCGGCGGGGGAGG-GGCT-----------------------------------GG-CTCAC-----------C--C------CCC--CT-CCGCCAGGCGG-------CCACC--AAACCCTG------TTTAGC-CCTGAATCTCTGA--GAC-GA-TAAA--ACAATGAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATCGGATGAAGAACGGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAATTTAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCCTTAAG-CCCTTGTCGCTTAGTGTTGGGAGCCGA-C-GGC-G-----TCCTGCC----G-TCGC-TCCTC-AAATCCAGTGGC-GGAGCCGGTTTCGCGCTC-TGGGCGTAGTAGATTTTCTCCATCTCGC--CTG-CAG-C--CGGGG-CCGGCC-TCCCTGCCGTAAAACCACCACC---AATG----TACCCAAAGGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Rosellinia_lamprostoma_EF026118_ CTCCC-AAAA-CCCCTTGTGAA-CATACCTC-AC--GTTTGCCTCGGCGGGG----TAGATG-CCCG-GCG-CC-G------TCCCCCCC-TAGGGGG-AT----CCGGCGCGGGGTTC------GA-TA---CCGCC-GGCGG------CCCAAC--AAACTCTG-----GTTTACT-GTTGTCATTCTGA-AAACATA-TAAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAACCCCTTAAG--CCTTGTTGCTTAGTGTTGGGGGCCTA-CC-GC-GC----T--TGCGCT-TG-TAGCCTCCT--AAAGTCAGTGGC-GCGGTCGGTT-CGCACTC-CAGACGTAGTAACAT--CTC-GTCTCGC--CTGGTAG-C-GTG-TG-CCGGTC-TG-CAGCCGTAAATGC--CCC----TCTCA---TATTTAATGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Nemania_macrocarpa_GU292823_ CTCCC-ACA--CCC-TTGTGAACCATACC---ACATG-TTGCCTCGGCGGGGCGCG-A-CCA-CCCT-GTG-GCAA----CCTACCCTG--TAGG-CG-CT-ACCCTG---TGGACG-CG----GCTCA--CCCCGCC-GGCGG------CCCACC--AAACTCTG------TTTACT-TTTGAAT-TCTGA---ACCTA-TAAC--GAAATACGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACTGGTATTCCGGTGGGCATGCCTGTTCGAGCGTCATTACAA-CACTTAAG-CCCT-GTTGCTTAGCGTTGGGAGCCTA-C-G--A----CGT--ACC-----G-TAGC-TCCTC-AAAGTTAGTGGC-GGAGCCGGTC-CGTGCTC-TAGGCGTAGTAGATTT--TC-GTCTCGC--CTG-TAG-C--CGGG-CCCGGTG-CC-CTGCCGTAAAA-CA-CACC---TATT----TTCTCA-AGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Rosellinia_compacta_AB430457_ CTCCC--CAAACCCCATGTGAA-CCTACC---ACACG-TTGCCTCGGCAGGCCGCGTC-CTA-CCCC-GC-AGG-G---CCCTACCACG--TAGG--GCCTG-GCCTGG--TA-AGG-CGCGGGGGCC--CTCCTGCC-AGTGG------CCCAT-GAAAACCCCG----TC-CTAGC-ATTGTATCTCTGA-GCAG-GATTAAC--TAAATACGTTAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAG-CCCTAGCTGCTTAGCGTTGGGGGCCTG-C-G--AG---CG-CCTGC--TC-G-CAGC-CCCTC-GAAGTCAGTGGCGGGAGCCGGTCACACACTCGTAGACGTAGTAGATCT-CTC-GTCTCGC--CTA-CAG-T--TG-TG-CCGGCC-CC-CTGCCATAAAAACA-CCCCCC-AAT-----TACCAAAAGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACT--- F493 CTCCC--AAA-CCC-ATGTGAA-CCTACA---TCGCG-TTGCCTCGGCAGGCGGCGTC-CCA-CCCT-GGAAG-A-----CCTACCCCG--TAGGAGGCCT-AT-CCGGG--GGCGGGCG--------A--CCCTGCC-GAAGG-----CCCCCCC--AAACTCTG-TCTTCTACAGC-ATTGGACCTCTGA---AAAGA-TGAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAG-CCCT-GTTGCTTAGCGTTGGGAGCCTA-CCGGGAGC-CC--CC-------GG-TAGC-TCCCC-AAAGTCAGTGGC-GGAGCCGGCT-CGCGCCC-CAGACGTAGTAGCCCCT-TACACGTCGC--CTG-CGG-T-GCG-TGCCCGGCC-CC-CTGCCGTAAAACC--CCCCC--AATT----TCTTTC-AGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA F359 ---------------------------------------TGCCTCGGCGGGCGCCGTC-CTA--CCAC-CAA---------------------------------CTGG--TAGGGG-CG------A-AA-CCC-GCC-GACGG------CCCCC-G-AAACTCTGTTTTTCTATAGC-ATTGGACCTCTGAAGCAAAGA-TAAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACCAGTATTCTGGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCCCA-GCTGCTTAGCGTTGGGAGCCTA-CCGG-AG-ACC-TCCTCCC----G-TAGC-TCCCC-AAAGTCAGTGGC-GGAGCCGGTTTAACACTC-CAGACGTAGTAGCTCA--TACACATCGC--CTG-TAG-CC-TAAA-CCCGGTC-CC-CTGCCATAAAAC-A-CAACG--AATTA---TTGTAT-AGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Nemania_chestersii_AJ390430_ CTCCC--AAA-CCC-ATGTGAA-CATACC---TCGCG-TTGCCTCGGCAGGTCGCGTC-CTA-CCCT-GT-A-CAT----CCTACCCTGGATA-GA--CTTG-C-CCGG--TGGTCGAC-------TCT-GCCCTGCC-GATGG------CTCAT-G-CAACTCTG--TTTCTCCAGC-ATTGGACTTCTGA---AAAGT-AAAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACCAGTATTCTGGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAG-CCCTCGTCGCTTAGCGTTGGGAGCCTA-CTGG-A--ACC-T-CTCC--T--G-TAGC-TCCCC-AAAGTCAGTGGC-GGAGCCGGCT-CGCACTC-CAGACGTAGTAGCTTT--TACCTATCGC--CTG-TAG-C-GTGGA--CCGGTC-CC-CTGCCGTAAAACC--CCCC---AAT-----TCTTAT-AGGTTGACCTC------------------------------ Nemania_serpens_HQ115648_ CTCCC--AAA-CCC-ATGTGAA-CATACC---TCGCG-TTGCCTCGGCAGGTGGCGTC--TCGCCCC-GTAAG-AA----CCTACCCTG--TAGGAA-CGT-AC-CCGG--TAGACG-----------A--CCCTGCC-GACGG------CCCCC-G-AAACTCTG---TTTTATAGC-ATTAAACTTCTGA---AAACA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACTAGTATTCTGGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCCCT-GTTGCTTAGCGTTAGGAGCCTA-CCGG-A--A-----CTC---TCTGGTAGC-TCCCC-AAAGTCAGTGGC-GGAGCCGGTT-CGCACTC-CAGACGTAGTAGCTTT--TACACGTCGC--CTG-TAG-C-GCGGG--CCGGTC-CC-CTGCCGTAAAAC-A-CCCC---AAT-----TTTTAT-AGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Nemania_aenea_Var._aureolatum_AF201704_ CTCCC--AAA-CCC-ATGTGAA-CATACC---TCGCG-TTGCCTCGGCAGGTGGCGTC-CTA-CCCC-GTGAG-A-----CCTACCCTG--TAGGA--CCT-AC-CCGG--TAGGCG-----------A--CCCTGCC-GACGG------CCCCC-G-AAACTCTG--TTTTTATAGC-ATTGGACTTCTGA---AAAGA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCACTAGTATTCTGGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCCCT-GTTGCTTAGCGTTGGGAGCCTA-CTGG-A--A-C-T-CTCC--T--G-TAGC-TC-TCCAAAGTCAGTGGC-GGAGCCGGTT-CGCACTC-CAGACGTAGTAGCTTT--TACATATCGC--CTG-TAGCT--TGGA-CCCGGTC-CC-CTGCCGTAAAAC-A-CCCC---AAA-----TCTTCT-AGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Rosellinia_sanctae_cruciana_GU292824_ CTCCC--AAA-CCCCATGTGAA-CATACC--TT-GCG-TTGCCTCGGCAGGCCGCGTC-GTG--CCTCGC-AG-TGCCCCCCTACGCTG--TAGG-GGCCTG-C-CCGG--CGGGCG-CG----GGTCA--CCCTGCC-GGCGG------CCTAT--AAAACTCTG----TTTTTGGC-ATTGTACTTCTGA---ACATA-TAAC--TAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAG-CCCTCGTTGCTTAGTGTTGGGAGCCTA-C-GG-T------T--TGCC----G-TAGC-TCCTC-AAAGTTAGTGGC-GGGGTCGGTT-CGCACTC-TAGACGTAGTAGATTTCATCCATCTCGC--CTG-TAG-T-GTG-TG-CCGGTCCT--CTGCCGTAAAACC--CCCCC--ACA-----TACC-AAAGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Rosellinia_buxi_AY909000_ CTCCC--AAA-CCC-ATGTGAA-CATACCT-TACG---TTGCCTCGGCAGGTCGCGAC-CTA-CCCC-GT-AGCA----CCCTATCCCG--TAGG--GCCT-AC-CCGG--TAGACG-CG----GGT-AA-CCCTGCC-GGCGG------CCCAC-G-AAACTCTG------TTTAGC-ATTGAAT-TCTGA---ACGAA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTCCGAGCGTCATTTCAA-CCCTTAAG-CCCTCGCTGCTTAGTGTTGGGGGCCTA-C-GGCA-------CCTGCC----G-TAGC-CCCTC-GAAGTTAGTGGC-GGAGTCGGTCACACACTC-TAGACGTAGTAGATTT-CTC-ATCTCGC--CTA-TGG-T--TG-TG-CCGGTC-CC-CTGCCGTAAAAACA-CCCCT--ACA-----TACC-AAAGGTTGACCTC------------------------------ Rosellinia_necatrix_AY909001_ CTCCC-AAAA-CCC-ATGTGAA-CATACC---ACGCG-TTGCCTCGGCAGGTCGCGTC-CTA-CCCC-GA-AG-TG---CCCTACCCTG-TTAGG--GCCT-AC-CCGG--TGGGCG-CG----GGCCAA--CCTGCC-GGCGG------CCCAC-G-AAACTCTG------TTTAGC-ATTGAAT-TCTGA---ACACA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCCCT-GTTGCTTAGTGTTGGGGGCCTG-C----AG---CG-CCTGC--T--G-CAGC-CCCTC-GAAGTCAGTGGC-GGAGTCGGTCACACACTC-TAGACGTAGTAGATTT-CTC-ATCTCGC--CTA-TGG-T--TG-TG-CCGGTC-CC-CTGCCGTAAAAC-A-CCCCCCCTA------TACC-AAAGGTTGACCTC------------------------------ Rosellinia_necatrix_EF026117_ CTCCC-AAAA-CCC-ATGTGAA-CATACC---ACGCG-TTGCCTCGGCAGGTCGCGTC-CTA-CCCC-GA-AG-TG---CCCTACCCTG-TTAGG--GCCT-AC-CCGG--TGGGCG-CG----GGCCAA--CCTGCC-GGCGG------CCCAC-G-AAACTCTG------TTTAGC-ATTGAAT-TCTGA---ACACA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCCCT-GTTGCTTAGTGTTGGGGGCCTG-C----AG---CG-CCTGC--T--G-CAGC-CCCTC-GAAGTCAGTGGC-GGAGTCGGTCACACACTC-TAGACGTAGTAGATTT-CTC-ATCTCGC--CTA-TGG-T--TG-TG-CCGGTC-CC-CTGCCGTAAAAC-A-CCCCCC-TA------TACC-AAAGGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Xylaria_allantoidea_FJ884194_ CTCCC--AAA-CCC-ATGTGAA-CATACCT-TACG---TTGCCTCGGCAGGTCGCG-C-CTA--CCTCGT-AGC-G---CCCTACCCTG--TAGG--GCCT-AC-CCGGG-AG-ACG-CG----GGT-AAG-CCTGCC-GGCGG------CCCAC-G-AAACTCTG-----C-TTAGT-ATTGAAT-TCTGA---ACATA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAATGGGCATGCCTGTTCGAGCGTCATTTCAA-CCCTTAAGCCTCT-GTTGCTTAGTGTTGGGAGCCTA-C----AGCA----CCT-------G-TAGC-TCCTC-AAAGTTAGTGGC-GGAGTCGGTT-CACACTC-TAGACGTAGTAATTCT-----ATCTCGC--CTATTAG-T--TGGA--CCGGTC-CC-CTGCCGTAAAA----CCCC---TA------TTTTTAAAGGTTGACCTCGGATCAGGTAG------------------- Xylaria_berteri_HQ651174_ -----------CCC-ATGTGAA-CATACCT-TACG---TTGCCTCGGC-GGTCGCG-C-CTA--CCTAGT-AGCA----CCCTACCCCG--TAGG--GCCT-AC-CCGGG-AG-ACG-CG----GGT-AAG-CCTGCC-GGCGG------CCCAC-G-AAACTCTG------TTTAAT-ATTGAAT-TCTGA---ACATA-TAAC--TAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATC-GATGAAGAAC-GCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGACATTTCAA-CCCTTAAGCCTCT-GTTGCTTAGCGTTGGGAGCCTA-C----AGCA----CCT-------G-TAGC-TCCTC-AAAGTTAGTGGC-GGAGGCGGTT-CACACTC-TACACCCAGCAATTTT-----ATCTCGC--CTATTAG-T--TGGA--CCGGTC-TC-CCGCCGTAAAA----CCCC---TA------TTTTTAAAGGTCGACCTCGGATCAGG-AGGAATACCCGCTGAACTTAA ; END; BEGIN TREES; Title NemaniaMB; LINK Taxa = Taxa; TRANSLATE 1 Rosellinia_subiculata_AY909002_, 2 Rosellinia_australis_AY908997_, 3 Rosellinia_corticium_AY908999_, 4 Rosellinia_lamprostoma_EF026118_, 5 Nemania_macrocarpa_GU292823_, 6 Rosellinia_compacta_AB430457_, 7 F493, 8 F359, 9 Nemania_chestersii_AJ390430_, 10 Nemania_serpens_HQ115648_, 11 Nemania_aenea_Var._aureolatum_AF201704_, 12 Rosellinia_sanctae_cruciana_GU292824_, 13 Rosellinia_buxi_AY909000_, 14 Rosellinia_necatrix_AY909001_, 15 Rosellinia_necatrix_EF026117_, 16 Xylaria_allantoidea_FJ884194_, 17 Xylaria_berteri_HQ651174_; TREE con_50_majrule = (1:0.137577,5:0.049016,((2:0.042574,3:0.068402)1.00:0.088925,(((4:0.147714,12:0.03399)0.78:0.036751,(((6:0.106342,(14:0.002342,15:0.002283)0.79:0.010127)0.88:0.018727,13:0.031333)1.00:0.025135,(16:0.00708,17:0.035905)1.00:0.024431)0.60:0.009874)0.58:0.014813,(((7:0.093413,8:0.065539)0.68:0.020265,9:0.05335,10:0.032599)0.76:0.015434,11:0.00608)1.00:0.064899)0.96:0.042821)0.96:0.047455); TREE con_50_majrule = (1:0.137577,5:0.049016,((2:0.042574,3:0.068402):0.088925,(((4:0.147714,12:0.03399):0.036751,(((6:0.106342,(14:0.002342,15:0.002283):0.010127):0.018727,13:0.031333):0.025135,(16:0.00708,17:0.035905):0.024431):0.009874):0.014813,(((7:0.093413,8:0.065539):0.020265,9:0.05335,10:0.032599):0.015434,11:0.00608):0.064899):0.042821):0.047455); END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 622; END; begin mrbayes; set autoclose = no nowarn = yes; lset nst = 6 rates = invgamma; unlink statefreq = ( all ) revmat = ( all ) shape = ( all ) pinvar = ( all ); prset applyto = ( all ) ratepr = variable; mcmcp ngen = 10000000 relburnin = yes burninfrac = 0.25 printfreq = 1000 samplefreq = 1000 nchains = 4 savebrlens = yes; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 622; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 622; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1374683968393; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 7162726086719873313; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 6526072688917156278; mqVersion 275; checksumv 0 3 563148241 null getNumChars 622 numChars 622 getNumTaxa 17 numTaxa 17 short true bits 15 states 15 sumSquaresStatesOnly 176953.0 sumSquares 176953.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 117; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 700 464; setLocation 64 54; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #7162726086719873313 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #7162726086719873313; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 583 397; setLocation 64 54; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; setActive; 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 #7162726086719873313 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 2670.1307288114799.9074630006515836149; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 583 397; setLocation 64 54; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.reroot; endTell; 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 1; orientRight; 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; setTree '((16:0.00708,17:0.035905)1.00:0.0122155,((13:0.031333,(6:0.106342,(14:0.002342,15:0.002283)0.79:0.010127)0.88:0.018727)1.00:0.025135,((4:0.147714,12:0.03399)0.78:0.036751,(((1:0.137577,5:0.049016):0.047455,(2:0.042574,3:0.068402)1.00:0.088925)0.96:0.042821,(11:0.00608,(9:0.05335,10:0.032599,(7:0.093413,8:0.065539)0.68:0.020265)0.76:0.015434)1.00:0.064899)0.96:0.014813)0.58:0.009874)0.60:0.0122155);'; 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 #6526072688917156278 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 583 397; setLocation 64 54; 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 10 5 10 10 10 5 5 10 10 10 5 10; endTell; getEmployee #mesquite.molec.ColorByAA.ColorByAA; tell It; emphasizeDegeneracy off; endTell; getEmployee #mesquite.chromaseq.ColorQuality.ColorQuality; tell It; toggleAmbiguities on; toggleMarks on; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; getEmployee #mesquite.chromaseq.SourceFileInfoEditor.SourceFileInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;