#NEXUS [written Wed Jul 24 16:38:59 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 Nectria_coryli_HM484539_ Nectria_balsamea_HM484540_ Nectria_sinopica_HM484542_ Nectria_berolinensis_HM484543_ Nectria_aquifolii_HM484538_ F259 Nectria_cucurbitula_HM484541_ Nectria_lamyi_HM484544_ Nectria_pyrrhochlora_HM484545_ Nectria_zanthoxyli_HM484546_ Nectria_miltina_HM484547_ Nectria_cinnabarina_HM484548_ Nectria_nigrescens_HM484550_ Nectria_dematiosa_HM484557_ Nectria_aquifolii_HM534891_ Bionectria_ochroleuca_JF817350_ Bionectria_samuelsii_HQ022475_ ; END; BEGIN CHARACTERS; TITLE NectriaMB; DIMENSIONS NCHAR=524; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Nectria_coryli_HM484539_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGTG-CC-TC-TGCG---CCC-GGATCC-AGGCGCCCGCC--GGAGG-CCTCAAACTCTTG----TTTTTACT-TGAA-TCTTCTGAGTCAT------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GCC-TC-AACC-CGGT-GGCCGTCCCCTAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCACTGGAACGCAGCGTGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA--T-G Nectria_balsamea_HM484540_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT--A-TTGTTGCTTCGGCGGGATCGCCCCGGTG-CC-TC-TGTG---CTC-GGATTG-AGGCGCCCGCC--GGAGG-CCCCAAACTCTTG---TTTTTTAGT--GATATCTTCTGAGTCTC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GC--TA-AACC-CGGT-GGCCGTCCCCTAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCACTGGAACGCGGCGCGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA--T-G Nectria_sinopica_HM484542_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGCG-CC-TC-TGTG---CCC-GGAATC-AGGCGCCCGCC--GGAG-ACCTCAAACTCTTG---TTTTTTAGT--GATATCTTCTGAGTCAT------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GC--T--AACC-CGGT-GGCCGGCCCCGAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCACCGGAACTCAGCGTGGCCACGCCGTAAAA-CCCCCACT-TCTG-AA-G--G Nectria_berolinensis_HM484543_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGACTGCCCCGGTG-CC-TC-TGTG---CCC-GGATCC-AGGCGCCCGCC--GGAG-ACCCCAAACTCTTG---TTTTTAAGT--GAA-TCTTCTGAGTCAT------ACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GCC----AACC-CGGT-GGCCGTCCCCGAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA--T-G Nectria_aquifolii_HM484538_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGCTCGCCCCGGTG-CCCTC-TGTG---CCC-GGACCC-AGGCGCCCGTC--GGAGG-CCCCAAACTCTTG-TTTCTCC---T--GAA-TCATCTGAGTCCC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GCC----AACC-CGGT-GGCCGTCCCCGAAT-CCCAGTGGCGGTCTCGCTGTAG-CCTCCGCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA--T-G F259 ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---C-TGTTGCTTCGGCGGGACCGCCCCGG-G-CC-AC-CGTG---CCC-GGAACC-AGGCGCCCGCC--GGAG-ACCCTTAACTCTTGTTTTCATC-A-TG-GAA-TCTTCTGAGTCAA------ACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGACCGGCC---GCC-GCT-TC-ACCC-CGGC-GGCCGCCCCCGAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCCCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAACCCCCCACT-TCTGAAA-GT-- Nectria_cucurbitula_HM484541_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGCG-CC-TC-TGTG---CCC-GGGACC-AGGCGCCCGCC--GGAGG-CCCCAAACTCTTG--TTTTCCTAGT--GATATCCTCTGAGTCTC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GC--TC--ACC-CGGT-GGCCGGCCCCGAAT-TATAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCACTGGAACGCGGCGCGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA-G--G Nectria_lamyi_HM484544_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGTG-CC-TC-TGTG---CCC-GGATCC-AGGCGCCCGCC--GGAGGACCCCAAACTCTTG--TTTTCC-AGT--GATATCCTCTGAGTCTC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC-CGGGCTTGGTGTTGGGGATCGGCC---GCC-GCC-TC-AACC-CGGT-GGCCGTCCCCTAAT-TCTAGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCACCGGAACGCAGCGCGGCCACGCCGTAAAA-CCCCAACTC-CTG-AA--T-G Nectria_pyrrhochlora_HM484545_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGCG-CCCTC-TGCGG--CCC-GGACCC-AGGCGCCCGCC--GGAG-ACCCCAAACTCTTG--TTTTCC-AGTG-GAA-TCCTCTGAGTCTC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGCCCGGCC---GCC-GC--TC--ACC-CGGT-GGCCGCCCCCGAATTTC-AGTGGCGGTCTCGCTGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAACCCCCAACT-TCTGAAA-G--G Nectria_zanthoxyli_HM484546_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGTG-CCCTC-TGCGG--CCC-GGACCC-AGGCGCCCGCC--GGAG-ACCCCAAACTCTTG--TTTTCC-AGTG-GAA-TCCTCTGAGTCTC------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGCTCGGCC---GCC-GC--TC--ACC-CGGT-GGCCGTCCCCGAATTTC-AGTGGCGGTCTCGCTGCAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAACCCCCAACT-TCTGAAA-G--G Nectria_miltina_HM484547_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGACCGCCCCGGGC-CCC--GTG-----CCC-GGAACC-AGGCGCCCGCC--GGAGG-CCCCTAACTCTTG--TTTTCTTA-TG-GAA-TCTTCTGAGTCAA------ACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGACCGGCC---GCC-GC--TC--ACC-CGGT-GGCCGCCCCCGAAT-TCCATTGGCGGTCTCGCTGTAG-CCTCCCCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAACCCCCAACT-TCTG-AA--T-G Nectria_cinnabarina_HM484548_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCTTTAC-TGTTGCTTCGGCGGGATCGCCCCGGCG-CCCTCG-G-G---CCC-GGACCC-AGGCGCCCGCC--GGAGGA-CCCAAACTCTTG--TTTTCCTT-TGTGATTTC-TCTGAGTGAT------ACAAGCAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCTTCGGGCTTGGTGTTGGGGATCGGCCT--GCG-GCG-TCTGACG-CCGT-GGCCGGCCCCGAAA-TCTAGTGGCGGTCTCGCTGTAGTCCTCCTCTGCGTAGTAGC-ACACCTCGCACCGGAACTCAGCGCGGCCACGCCGTTAAA-CCCCAACTTTCTG-AA-GT-- Nectria_nigrescens_HM484550_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCTTTAC-TGTTGCTTCGGCGGGATCGCCCCGGCG-CCCTCG-G-G---CCC-GGACCC-AGGCGCCCGCC--GGAGGA-CCCAAACTCTTG---TTTCCAT-TGTGAT-TC-TCTGAGTGAT------ACAAGCAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCTTCGGGCTTGGTGTTGGGGATCGGCCT--GCG-GCG-TCTGACG-CCGT-GGCCGGCCCCGAAA-TCTAGTGGCGGTCTCGCTGTAGTCCTCCTCTGCGTAGTAGC-ACACCTCGCACCGGAACTTAGCGCGGCCACGCCGTTAAA-CCCCAACTTTCTG-AA-GT-- Nectria_dematiosa_HM484557_ ATTACCGAGTTTACAACTCCCAAACCCCTGTGAACATACCTTTAC-TGTTGCTTCGGCGGGATCGCCCCGGCG-CCCTCG-G-G---CCC-GGACCC-AGGCGCCCGCC--GGAGGA-CCCAAACTCTTG---TTTCCTT-TGTGAT-TC-TCTGAGTGAT------ACAAGCAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCTTCGGGCTTGGTGTTGGGGATCGGCCT--GCG-GCG-TCTGACG-CCGT-GGCCGGCCCCGAAA-TCTAGTGGCGGTCTCGCTGTAGTCCTCCTCTGCGTAGTAGC-ACACCTCGCACCGGAACTTAGCGCGGCCACGCCGTTAAA-CCCCAACTTTCTG-AA-GT-- Nectria_aquifolii_HM534891_ ATTACCGAGTTTCCAACTCCCAAACCCCTGTGAACATACCT---CTTGTTGCTTCGGCGGGATCGCCCCGGCA-CC-TCG-GTG---CCC-GGGTCC-AGGCGCCCGCC--GGAGG-CCTCAAACCCTTG----TCTCTC-T-TGAA-TCTTCTGAGTCAA------ACAAACAAATAAATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTAGTACTCTAGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCAAGCCCCC--GGGCTTGGTGTTGGGGATCGGCC---GCC-GCC--C--ACC-CGGT-GGCCGTCCCCGAAT-TCCAGTGGCGGTCTCGCCGTAG-CCTCCTCTGCGTAGTAGC-ACACCTCGCAGTGGAACGCGGCGCGGCCACGCCGTAAAA-CCCCAACT-TCTG-AA--T-G Bionectria_ochroleuca_JF817350_ ATTACCGAGTTTACAACTCCCAAACCCATGTGAACATACCT--AC-TGTTGCTTCGGCGGGATTGCCCCGGGCGCC-TCGTGTG---CCCCGGATC--AGGCGCCCGCCTAGGAA-A-CT-TAATTCTTG-TTTTATTT--TG-GAA-TCTTCTGAGTAGTTTTT--ACAAATAAATAAA----AACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTCTGAGCGTCATTTCAACCCTCATGCCCCTA-GGGCGTGGTGTTGGGGATCGGCCAAAGCCCGC-----GAG---GGACGGCCGGCCCCTAAA-TCTAGTGGCGGACCCGTCGTGG-CCTCCTCTGCGAAGTAGTGATATTCCGCATCGGAGAGCGACGAGCCCCTGCCGTTAAACCCCCAACTTTCC--AAGGTTG Bionectria_samuelsii_HQ022475_ ATTATCGAGTTTACAACTCCCAAACCCATGTGAACATACCT--A-TCGTTGCTTCGGCGGGATCGCCCCGGGCGCC-TTGTGTG---CCCCGGATCC-AGGCGCCCGCC-A-GAGGA-CTTTAACTCTTG-TTTTATTTT-T--GAA-TCATCTGAGTAGTTTTTT-ACAAATAAATAAA----AACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAAAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTCTGAGCGTCATTTCAACCCTCATGCCCCTA-GGGCGTGGTGTTGGGGATCGGCCAAGGCCCGC-----AAG---GGACGGCCGGCCCCTAAA-TCTAGTGGCGGACCCGTCGTGG-CCTCCTCTGCGAAGTAGTAATATTCCGCATCGGAGAGCGACGAGCCCCTGCCGTTAAACCCCCAACTTTAC--AAGGTTG ; END; BEGIN TREES; Title NectriaMB; LINK Taxa = Taxa; TRANSLATE 1 Nectria_coryli_HM484539_, 2 Nectria_balsamea_HM484540_, 3 Nectria_sinopica_HM484542_, 4 Nectria_berolinensis_HM484543_, 5 Nectria_aquifolii_HM484538_, 6 F259, 7 Nectria_cucurbitula_HM484541_, 8 Nectria_lamyi_HM484544_, 9 Nectria_pyrrhochlora_HM484545_, 10 Nectria_zanthoxyli_HM484546_, 11 Nectria_miltina_HM484547_, 12 Nectria_cinnabarina_HM484548_, 13 Nectria_nigrescens_HM484550_, 14 Nectria_dematiosa_HM484557_, 15 Nectria_aquifolii_HM534891_, 16 Bionectria_ochroleuca_JF817350_, 17 Bionectria_samuelsii_HQ022475_; TREE con_50_majrule = (1:0.012823,3:0.015265,7:0.028463,15:0.039919,(4:0.009665,(6:0.033364,11:0.016616)0.99:0.039074)0.81:0.010276,((12:0.003417,(13:0.005388,14:0.002719)0.82:0.005107)0.99:0.049096,(16:0.013453,17:0.028837)1.00:0.243821)0.58:0.039294,(2:0.020008,8:0.014863)0.53:0.007449,(5:0.034067,(9:0.013572,10:0.006907)0.99:0.0115)0.52:0.008461); TREE con_50_majrule = (1:0.012823,3:0.015265,7:0.028463,15:0.039919,(4:0.009665,(6:0.033364,11:0.016616):0.039074):0.010276,((12:0.003417,(13:0.005388,14:0.002719):0.005107):0.049096,(16:0.013453,17:0.028837):0.243821):0.039294,(2:0.020008,8:0.014863):0.007449,(5:0.034067,(9:0.013572,10:0.006907):0.0115):0.008461); END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 524; 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 - 524; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 524; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1374683939565; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 7324136047549454445; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 6434368168659126669; mqVersion 275; checksumv 0 3 3014378288 null getNumChars 524 numChars 524 getNumTaxa 17 numTaxa 17 short true bits 15 states 15 sumSquaresStatesOnly 164001.0 sumSquares 164001.0 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 1106 623; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #7324136047549454445 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #7324136047549454445; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 989 556; setLocation 8 22; 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 #7324136047549454445 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 865.1307660595447.5068155941974399486; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 989 556; setLocation 8 22; 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 '((16:0.013453,17:0.028837)1.00:0.1219105,((12:0.003417,(13:0.005388,14:0.002719)0.82:0.005107)0.99:0.049096,(1:0.012823,3:0.015265,7:0.028463,15:0.039919,(2:0.020008,8:0.014863)0.53:0.007449,(4:0.009665,(6:0.033364,11:0.016616)0.99:0.039074)0.81:0.010276,(5:0.034067,(9:0.013572,10:0.006907)0.99:0.0115)0.52:0.008461):0.039294)0.58:0.1219105);'; 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 #6434368168659126669 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 989 556; setLocation 8 22; 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;