#NEXUS [written Fri Jan 12 16:14:26 CET 2018 by Mesquite version 3.2 (build 801) at HG17209/172.30.18.79] BEGIN TAXA; TITLE 'Tropidurus_PRLR'; DIMENSIONS NTAX=18; TAXLABELS Plica_plica_AMCC_106953 T_guarani_SMF_100095 T_guarani_SMF_100096 T_spinulosus_AMCC_204478 T_spinulosus_SMF_100094 T_tarara_SMF_103314 T_tarara_SMF_103316 T_tarara_SMF_103315 T_teyumirim_AMNHFS_20284 T_spinulosus_IIBPH_3463 T_teyumirim_AMNHFS_20281 T_lagunablanca_SMF_103320 T_catalanensis_SMF_100093 T_catalanensis_UFRGST_2890 T_etheridgei_SMF_101595 T_etheridgei_SMF_101596 T_etheridgei_LG_1096 T_catalanensis_SMF_100090 ; END; BEGIN CHARACTERS; TITLE 'PRLR_Matrix'; DIMENSIONS NCHAR=451; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Plica_plica_AMCC_106953 CAGACAGTGACTCAGGGAGAGGAAGTTGTGAGAGTCCTTCCCTGTTGTCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATATCCAG-GATGTGCAAACGAAGGGTGGTACAAAAGGCACACCAGAAACCCCAAACACAGACTGGGAAGGACAGTTCCCTGGGCTCAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGTCCACCTCCTAACTGCTTCATTCAGGAGGCCACAGGTCCATGTAAAATAGCACTCAGTGCCATGAACATAAACAGAGCACCTGTTTTGATGAGGAGGGAAGAAACACTTCATTATTCCCAACCTCCTAGAACCACTGAAACTATTAGCAAAGGAACACTAGAGGATGGGACAAACTTGCCTTTCAATGTTCACAGTGACCAAACAGTATTGCAG T_guarani_SMF_100095 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTGAAAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGATGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTAT-GCAA T_guarani_SMF_100096 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATTTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_spinulosus_AMCC_204478 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATTTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_spinulosus_SMF_100094 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATTTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTA?TGCA? T_tarara_SMF_103314 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_tarara_SMF_103316 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_tarara_SMF_103315 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_teyumirim_AMNHFS_20284 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACATGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTATTGCAA T_spinulosus_IIBPH_3463 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGG-CTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATTTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAACAGTAT-GCAA T_teyumirim_AMNHFS_20281 CAGACAGTGACTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGGTGTCAGAGAAGCGGAAAGATGCCCCAAATCCATCCGAGCTG-AAAACACCTGATATCCAG-GATGTGCCAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGT-GCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGACGCCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATTTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTGTTCACAGTGACCAAAC?????????? T_lagunablanca_SMF_103320 ?????????????????????????????????????????????????????AA?CGGAAAGATGCCCC?AATCCATTCGAGCTG-AAAACACCTGATATCCAGCGATGTGCTAAAGAAGGGTGGTGCAAAAGGCACACCAGAAACCCCAAATACAGACTGGGGAAGACAGTTCCCCGGTCTTAGCAGTGGTGGGCCACGGGCATCCACGTGGCCTGGGGCTCAGCTGCCAAACTGCCCACCTCCTAACTGCTTCATTCAGGATGGCACAGGTCCGTGTAAAATAGCACTCAGTGCCATGAATGTAAACAGAGCACCTGTTTTGATGATGGGAGAAGAAACGCTTCATCATTCCCAACCTCCTAGAACCACTGACACTATTAGCAAAGGAACACTAGAGGATGGGACAACCTTACCCTTCAGTG-TCACAGTGACCAAACAGTAT-GCAA T_catalanensis_SMF_100093 CAGACAGTGATTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTGAAAAACACCTGATCTCCAG-GATGTGC---AAAAGGATGGTACAAAAGGCACACCGGAAACCCCAAACACAGAGTGGGAAGGACAGTTCTCCTGGCTCAGCCGTGGTGGACCATGGGCTTCCACGTGGCCTGGGTCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCGTGTAAAATAGCACTCAGTACCCTGAATGTAAACAGAGCACCTGTTTTGATGAGAGAGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAAGATGGGACAAATTTACCCTTAAATGTTCACAGTGACCAAACAGTATTGCAG T_catalanensis_UFRGST_2890 CAGACAGTGATTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATCTCCAG-GATGTGC---AAAAGGATGGTACAAAAGGCACACCGGAAACCCCAAACACAGAGTGGGAAGGACAGTTCTCCTGGCTCAGCCGTGGTGGACCATGGGCTTCCACGTGGCCTGGGTCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCGTGTAAAATAGCACTCAGTACCCTGAATGTAAACAGAGCACCTGTTTTGATGAGAGAGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAAGATGGGACAAATTTACCCTTAAATGTTCACAGTGACCAAACAGTATTGCAG T_etheridgei_SMF_101595 CAGACAGTGATTCAGGAAGAGGAAGCTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATATCCAG-GATGTGC---AAAAGGGTGGTACAAAACGCACACCGGAAACCCCAGACAAAGAGTGGGAAGGACAGTTCCCCTGGCTCAGCCGTGG?GGACCACGGGCTTCCACGTGGCCTGGGGCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCATGTAAAATAGCACTCAGTGCCCTAAATGTAAACAGAGCGCCTGTTTTGATGAGAGGGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAGGATGGGACAAATTTATCCTTACATGTCCACAGTGATCAAACAGTA-TGCAG T_etheridgei_SMF_101596 CAGACAGTGATTCAGGAAGAGGAAGCTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATATCCAG-GATGTGC---AAAAGGGTGGTACAAAACGCACACCGGAAACCCCAGACAAAGAGTGGGAAGGACAGTTCCCCTGGCTCAGCCGTGGTGGACCACGGGCTTCCACGTGGCCTGGGGCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCATGTAAAATAGCACTCAGTGCCCTAAATGTAAACAGAGCGCCTGTTTTGATGAGAGGGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAGGATGGGACAAATTTATCCTTACATGTCCACAGTGATCAAACAGTATTGCAG T_etheridgei_LG_1096 CAGACAGTGATTCAGGAAGAGGAAGCTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATATCCAG-GATGTGC---AAAAGGGTGGTACAAAACGCACAC?GGAAACCCCAGACAAAGAGTGGGAAGGACAGTTCCCCTGGCTCAGCCGTGGTGGACCACGGGCTTCCACGTGGCCTGGGGCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCATGTAAAATAGCACTCAGTGCCCTAAATGTAAACAGAGCGCCTGTTTTGATGAGAGGGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAGGATGGGACAAATTTAYCCTTACATGTCCACAGTGATCAAACAGTATTGCAG T_catalanensis_SMF_100090 CAGACAGTGATTCAGGAAGAGGAAGTTGTGAGAGTCCTTCCCTGTTATCAGAGAAGCGTAAAGATGCCCAGAATCCACCTGAGCTG-AAAACACCTGATCTCCAG-GATGTGC---AAAAGGATGGTACAAAAGGCACACCGGAAACCCCAAACACAGAGTGGGAAGGACAGTTCTCCTGGCTCAGCCGTGGTGGACCATGGGCTTCCACGTGGCCTGGGTCTCAGCTGCCAAACTGTCCACCTCCTAATAGCTTCATTCAGGAGACCACAGGTCCGTGTAAAATAGCACTCAGTACCCTGAATGTAAACAGAGCACCTGTTTTGATGAGAGAGGAGGAAACACTTCATCATTCCCAACCTCCTAGAACCACTGAACCTCTTAGCAAAGGAACACTAGAAGATGGGACAAATTTACCCTTAAATGTTCACAGTGACCAAACAGTATTGCAG ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 451; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 451; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 451; END; BEGIN TREES; Title 'PRLR_BI_Tree'; ID 0160eaecde1924; LINK Taxa = 'Tropidurus_PRLR'; TRANSLATE [0] 1 Plica_plica_AMCC_106953, [1] 2 T_guarani_SMF_100095, [2] 3 T_guarani_SMF_100096, [3] 4 T_spinulosus_AMCC_204478, [4] 5 T_spinulosus_SMF_100094, [5] 6 T_tarara_SMF_103314, [6] 7 T_tarara_SMF_103316, [7] 8 T_tarara_SMF_103315, [8] 9 T_teyumirim_AMNHFS_20284, [9] 10 T_spinulosus_IIBPH_3463, [10] 11 T_teyumirim_AMNHFS_20281, [11] 12 T_lagunablanca_SMF_103320, [12] 13 T_catalanensis_SMF_100093, [13] 14 T_catalanensis_UFRGST_2890, [14] 15 T_etheridgei_SMF_101595, [15] 16 T_etheridgei_SMF_101596, [16] 17 T_etheridgei_LG_1096, [17] 18 T_catalanensis_SMF_100090; TREE con_50_majrule = (1:0.022429,((13:0.001537,14:0.00155,18:0.00152):0.020669,(15:0.001515,16:0.00156,17:0.00158):0.024666):0.047247,((2:0.001578,12:0.009182):0.003411,(3:0.001541,4:0.001531,5:0.001533,10:0.001485,11:0.001545):0.00371,6:0.001458,7:0.00151,8:0.001489,9:0.003609):0.05388); END; BEGIN TREES; Title 'PRLR_ML_Tree'; ID 0160eaed467526; LINK Taxa = 'Tropidurus_PRLR'; TRANSLATE [0] 1 Plica_plica_AMCC_106953, [1] 2 T_guarani_SMF_100095, [2] 3 T_guarani_SMF_100096, [3] 4 T_spinulosus_AMCC_204478, [4] 5 T_spinulosus_SMF_100094, [5] 6 T_tarara_SMF_103314, [6] 7 T_tarara_SMF_103316, [7] 8 T_tarara_SMF_103315, [8] 9 T_teyumirim_AMNHFS_20284, [9] 10 T_spinulosus_IIBPH_3463, [10] 11 T_teyumirim_AMNHFS_20281, [11] 12 T_lagunablanca_SMF_103320, [12] 13 T_catalanensis_SMF_100093, [13] 14 T_catalanensis_UFRGST_2890, [14] 15 T_etheridgei_SMF_101595, [15] 16 T_etheridgei_SMF_101596, [16] 17 T_etheridgei_LG_1096, [17] 18 T_catalanensis_SMF_100090; TREE tree_1 = (1:0.02126,((2:0.000002,12:0.007745):0.000002,(((((3:0.000002,4:0.000002):0.000002,10:0.000002):0.000002,(5:0.000002,11:0.000002):0.000002):0.002231,((6:0.0,8:0.0):0.000002,7:0.000002):0.000002):0.000002,9:0.00223):0.002229):0.052803,((13:0.000002,(14:0.000002,18:0.000002):0.000002):0.019694,((15:0.000002,16:0.000002):0.000002,17:0.000002):0.024007):0.046917); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1515770066681; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 3483652703808876017; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 8170757958158372311; mqVersion 320; checksumv 0 3 1801824457 null getNumChars 451 numChars 451 getNumTaxa 18 numTaxa 18 short true bits 2305843009213693967 states 15 sumSquaresStatesOnly 139622.0 sumSquares -9.2233720368546488E18 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1 errorReportedDuringRun; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 220; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1116 771; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #3483652703808876017 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; setTreeBlockID 0160eaecde1924; toggleUseWeights off; endTell; setAssignedID 4050.1515769884856.3380694134695716173; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 896 699; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; 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 off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; 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 off; toggleHorizontal on; toggleWhiteEdges on; toggleShowOnTerminals 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; toggleShowOnTerminals on; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; makeTreeWindow #3483652703808876017 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 2; setTreeBlockID 0160eaed467526; toggleUseWeights off; endTell; setAssignedID 4080.1515769923079.8449973998307189481; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 896 699; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; 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 off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; 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 off; toggleHorizontal on; toggleWhiteEdges on; toggleShowOnTerminals 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; toggleShowOnTerminals on; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #8170757958158372311 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 896 699; setLocation 8 8; 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; toggleShowPaleExcluded off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; 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.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;