#NEXUS [written Fri Aug 24 15:47:45 CEST 2012 by Mesquite version 2.75 (build 564) at P96lKrisVP/192.168.250.193] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=9; TAXLABELS Phytophthora_ramorum_EU2 Phytophthora_ramorum_NA2a Phytophthora_ramorum_NA2b Phytophthora_ramorum_EU1a Phytophthora_ramorum_EU1b Phytophthora_ramorum_NA1a Phytophthora_ramorum_NA1b Phytophthora_hibernalis Phytophthora_lateralis ; END; BEGIN CHARACTERS; TITLE alignment_Btub; DIMENSIONS NCHAR=908; FORMAT DATATYPE = DNA INTERLEAVE GAP = - MISSING = ?; MATRIX Phytophthora_ramorum_EU2 CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTGGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_NA2a CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_NA2b CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCTCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_EU1a CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_EU1b CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_NA1a CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_ramorum_NA1b CGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCTCTTGGTGGCGGTACCGGTTCTGGTATGGGCACGCT Phytophthora_hibernalis CGACGTCGTCCGCAAGGAGGCTGAGAGCTGTGACTGCCTGCAAGGGTTCCAGATCACGCACTCGCTCGGTGGCGGTACCGGCTCCGGAATGGGCACGCT Phytophthora_lateralis TGACGTCGTCCGCAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGGTTCCAGATCACGCACTCGCTGGGTGGCGGTACCGGTTCCGGTATGGGCACGCT Phytophthora_ramorum_EU2 TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_NA2a TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_NA2b TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_EU1a TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_EU1b TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_NA1a TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_ramorum_NA1b TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACGGTCGTGGAGCCCTA Phytophthora_hibernalis CCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACATACTCCGTGTGCCCGTCGCCCAAGGTGTCGGACACCGTCGTGGAGCCCTA Phytophthora_lateralis TCTGATCTCCAAGATCCGTGAGGAGTACCCGGACCGTATCATGTGCACGTACTCGGTGTGCCCGTCGCCCAAGGTGTCGGACACTGTCGTGGAGCCCTA Phytophthora_ramorum_EU2 CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_NA2a CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_NA2b CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_EU1a CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_EU1b CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_NA1a CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_ramorum_NA1b CAACGCCACGCTGTCGGTGCACCAGCTTGTCGAGAACGCCGACGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGCACGCTCAA Phytophthora_hibernalis CAACGCCACACTGTCGGTGCACCAGCTTGTCGAGAACGCTGATGAGGTCATGTGCCTGGATAACGAGGCGCTGTACGACATTTGCTTCCGTACGCTCAA Phytophthora_lateralis CAACGCCACGCTGTCAGTGCACCAGCTTGTCGAGAACGCCGATGAGGTCATGTGCCTGGATAACGAGGCCCTGTACGACATCTGCTTCCGCACGCTCAA Phytophthora_ramorum_EU2 GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_NA2a GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_NA2b GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_EU1a GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_EU1b GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_NA1a GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_NA1b GCTCACCACCCCCACCTACGGTGACCTGAACCACCTGGTGTGCGCCGCTATGTCCGGCATCACCACGTGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_hibernalis GCTCACCACCCCCACGTACGGTGACCTGAACCACCTGGTGTGTGCCGCCATGTCCGGCATCACCACGTGCCTGCGGTTCCCCGGTCAGCTGAACTCGGA Phytophthora_lateralis GCTCACCACCCCCACCTACGGTGACCTGAACCACCTCGTGTGCGCAGCAATGTCCGGCATCACCACATGCCTGCGTTTCCCGGGTCAGCTGAACTCGGA Phytophthora_ramorum_EU2 CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_NA2a CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_NA2b CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_EU1a CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_EU1b CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_NA1a CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_NA1b CCTGCGGAAGCTGGCGGTGAACTTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_hibernalis CCTGCGGAAACTGGCCGTGAACCTGATCCCGTTCCCGCGTCTTCACTTCTTCATGATTGGCTTCGCCCCGCTGACCTCGCGTGGCTCGCAGCAGTACCG Phytophthora_lateralis CCTGCGGAAGCTGGCGGTGAACCTGATTCCGTTCCCGCGTCTTCACTTCTTCATGATTGGTTTCGCCCCGCTGACTTCGCGTGGCTCGCAGCAGTACCG Phytophthora_ramorum_EU2 TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_NA2a TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_NA2b TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_EU1a TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_EU1b TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_NA1a TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_NA1b TGCCCTGACGGTGCCCGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_hibernalis TGCCCTGACGGTGCCCGAGCTCACCCAGCAGCAGTTCGACGCTAAGAACATGATGTGCGCCGCCGACCCTCGCCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_lateralis TGCCCTGACGGTGCCTGAGCTGACCCAGCAGCAGTTCGACGCAAAGAACATGATGTGCGCCGCCGACCCTCGTCACGGCCGCTATTTAACTGCCGCGTG Phytophthora_ramorum_EU2 TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_NA2a TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_NA2b TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_EU1a TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGACGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_EU1b TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_NA1a TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_NA1b TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_hibernalis TATGTTCCGCGGACGTATGAGCACGAAGGAGGTGGATGAGCAGATGCTCAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_lateralis TATGTTCCGCGGACGTATGAGCACGAAGGAGGTTGATGAGCAGATGCTGAACGTGCAGAACAAGAACTCGTCGTACTTCGTCGAGTGGATCCCTAACAA Phytophthora_ramorum_EU2 CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGCCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_NA2a CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGGCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_NA2b CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGCCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_EU1a CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGGCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_EU1b CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGCCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_NA1a CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGGCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_NA1b CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGCCTGAAGATGAGCACTACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_hibernalis CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGACTCAAGATGAGTACCACGTTCATCGGTAACTCGACCGCTATCCAGGAAATGTTCAAGCGTGT Phytophthora_lateralis CATCAAGGCTAGCGTGTGTGACATCCCGCCCAAGGGGCTGAAGATGAGCACCACGTTCATCGGTAACTCGACCGCTATCCAGGAGATGTTCAAGCGTGT Phytophthora_ramorum_EU2 GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_NA2a GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_NA2b GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_EU1a GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_EU1b GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_NA1a GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_ramorum_NA1b GTCTGAGCAGTTTACGGCTATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_hibernalis GTCTGAGCAGTTTACGGCAATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACGGAGGCCGAGTCCAA Phytophthora_lateralis GTCTGAGCAGTTTACGGCAATGTTCCGTCGTAAGGCTTTCTTGCACTGGTACACGGGCGAGGGTATGGACGAGATGGAGTTCACTGAGGCCGAGTCCAA Phytophthora_ramorum_EU2 CATGAACGATCTTGTGT Phytophthora_ramorum_NA2a CATGAACGATCTTGTGT Phytophthora_ramorum_NA2b CATGAACGATCTTGTGT Phytophthora_ramorum_EU1a CATGAATGATCTTGTGT Phytophthora_ramorum_EU1b CATGAACGATCTTGTGT Phytophthora_ramorum_NA1a CATGAATGATCTTGTGT Phytophthora_ramorum_NA1b CATGAACGATCTTGTGT Phytophthora_hibernalis CATGAATGATCTTGTGT Phytophthora_lateralis CATGAATGATCTTGTGT ; END; BEGIN TREES; Title tree_Btub; LINK Taxa = Taxa; TRANSLATE 1 Phytophthora_ramorum_EU2, 2 Phytophthora_ramorum_NA2a, 3 Phytophthora_ramorum_NA2b, 4 Phytophthora_ramorum_EU1a, 5 Phytophthora_ramorum_EU1b, 6 Phytophthora_ramorum_NA1a, 7 Phytophthora_ramorum_NA1b, 8 Phytophthora_hibernalis, 9 Phytophthora_lateralis; TREE Imported_tree_0 = (((((1:0.0011239,5:0.0)0.1560:6.77E-5,(3:0.0,7:0.0)0.7160:0.00112279)0.5050:0.00112279,2:0.0)0.5350:0.00112004,(4:0.00112004,6:0.0):0.0)0.7920:0.00660989,9:0.0151436,8:0.03789781); END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 908; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 908; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 908; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1345816066013; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 6543152663899311985; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 8260290030353338563; mqVersion 275; checksumv 0 3 3009471265 null getNumChars 908 numChars 908 getNumTaxa 9 numTaxa 9 short true bits 15 states 15 sumSquaresStatesOnly 161745.0 sumSquares 161745.0 longCompressibleToShort false usingShortMatrix true 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 1692 600; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #6543152663899311985 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 8789.1345815922617.9117343741151103783; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1592 533; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.interchange; 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; 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 '((((((1:0.0011239,5:0.0)0.1560:6.77E-5,(3:0.0,7:0.0)0.7160:0.00112279)0.5050:0.00112279,2:0.0)0.5350:0.00112004,(4:0.00112004,6:0.0):0.0)0.7920:0.00660989,9:0.0151436):0.018948905,8:0.018948905);'; 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 #8260290030353338563 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1592 533; 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; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; getWindow; tell It; forceAutosize; endTell; hideWindow; 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;