#NEXUS [written Fri Aug 24 16:01:55 CEST 2012 by Mesquite version 2.75 (build 564) at P96lKrisVP/192.168.250.193] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=7; TAXLABELS Phytophthora_ramorum_EU2 Phytophthora_ramorum_NA1 Phytophthora_ramorum_EU1a Phytophthora_ramorum_EU1b Phytophthora_ramorum_NA2 Phytophthora_hibernalis Phytophthora_lateralis ; END; BEGIN CHARACTERS; TITLE alignment_Trp; DIMENSIONS NCHAR=817; FORMAT DATATYPE = DNA INTERLEAVE GAP = - MISSING = ?; MATRIX Phytophthora_ramorum_EU2 AGCAGGTCGTGACGCCCGAGCAGTTGGTGAAGAAGATCGAGAGCACCGAGAGCGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_ramorum_NA1 AGCAGGTCGTGACGCCCGAGCAGCTGGTGAAGAAGATCGAAAGCACCGAGAGCGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_ramorum_EU1a AGCAGGTCGTGACGCCCGAGCAGCTGGTGAAGAAGATCGAGAGCACCGAGAGCGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_ramorum_EU1b AGCAGGTCGTGACGCCCGAGCAGCTGGTGAAGAAGATCGAGAGCACCGAGAGTGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_ramorum_NA2 AGCAGGTCGTGACGCCCGAGCAGCTGGTGAAGAAGATCGAGAGCACCGAGAGCGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_hibernalis AGCAGGTCACGTCGCCCGAGCAGTTGGTGAAGAAGATCGAGAACATTGAAAGCGTCTACGGCTCCGCCTTGCGCGTGCTCGACCGCCTCAACGCGCCGG Phytophthora_lateralis AGCAGGCCGTGTCGCCCGAGCAGCTGGTGAAGAAGATCGAGAGCACCGAGAGCGTCTACGGCTCGGCCCTGCGCGTGCTCGACCGCCTCAACGCGCCAG Phytophthora_ramorum_EU2 TGGTGCGTCCCCAGA----GTAGAAACTTC-GGGAATGGA-CGAGGCTGACGGCTGTCGTTGCATTGTTCCTATTGTTGTATTGCAATATCACAGAAGG Phytophthora_ramorum_NA1 TGGTGCGTCCCCAGA----GTAGAAACTTC-GGGAATGGA-CGAGGCTGACGGCTGTCGTTGCATTGTTCCTATTGTTGTATTGCAATATCACAGAAGG Phytophthora_ramorum_EU1a TGGTGCGTCCCCAGA----GTAGAAACTTC-GGGAATGGA-CGAGGCTGACGGCTGTCGTTGCATTGTTCCTATTGTTGTATTGCAATATCACAGAAGG Phytophthora_ramorum_EU1b TGGTGCGTCCCCAGA----GTAGAAACTTC-GGGAATGGA-CGAGGCTGACGGCTGTCGTTGCATTGTTCCTATTGTTGTATTGCAATATCACAGAAGG Phytophthora_ramorum_NA2 TGGTGCGTCCCCAGA----GTAGAAACTTC-GGGAATGGA-CGAGGCTGACGGCTGTCGTTGCATTGTTCCTATTGTTGTATTGCAATATCACAGAAGG Phytophthora_hibernalis CGGTGCGTCCACCGACTGAGGAGAAATTCCGGGGAATGGAAGGAGGCTGACGGCTATCGTTGTATTGCTTCTATTGTGGTATTGTAATATTACAGAAAG Phytophthora_lateralis CGGTGCGTCCACCGA----GGTGAAATTCCAGGGAATGGA-GGAGGCTGACGGCTGTCGTTGTATTGTTGCAATTGTTGTATTGCAATATTACAGAAGG Phytophthora_ramorum_EU2 AAGGCTGGTCGGACGTGGCGCTGGCAGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGATATCGCCACGGGACTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_ramorum_NA1 AAGGCTGGTCGGACGTGGCGCTGGCAGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGATATCGCCACGGGACTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_ramorum_EU1a AAGGCTGGTCGGACGTGGCGCTGGCAGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGATATCGCCACGGGACTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_ramorum_EU1b AAGGCTGGTCGGACGTGGCGCTGGCAGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGATATCGCCACGGGACTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_ramorum_NA2 AAGGCTGGTCGGACGTGGCGCTGGCAGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGATATCGCCACGGGACTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_hibernalis AAGGCTGGTCGGATGTGGCGCTGGCGTCCGAGTTCAAGCGTGCCAGCCCCAGCAAGGGAGACATCGCCACGGGACTCAACCTGCGCGGTGCGTGGACGG Phytophthora_lateralis AAAGCTGGTCAGACGTGGCGCTGGCGGCCGAGTTCAAGCGCGCCAGCCCCAGCAAGGGAGACATCGCCACGGGCCTCAACCTGCGCGGTGCGTGG-CGG Phytophthora_ramorum_EU2 CTGTATTGCTGCAAGTATAGGAGGAGGAAGAC-GGGAGCTAATGTGATTTTT-GCAATGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_ramorum_NA1 CTGTATTGCTGCAAGTATAGGAGGAGGAAGAC-GGGAGCTAATGTGATTTTT-GCAATGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_ramorum_EU1a CTGTATTGCTGCAAGTATAGGAGGAGGAAGAC-GGGAGCTAATGTGATTTTT-GCAATGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_ramorum_EU1b CTGTATTGCTGCAAGTATAGGAGGAGGAAGAC-GGGAGCTAATGTGATTTTT-GCAATGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_ramorum_NA2 CTGTATTGCTGCAAGTATAGGAGGAGGAAGAC-GGGAGCTAATGTGATTTTT-GCAATGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_hibernalis CTGCATTGCTGCAATTATTGCAGTAGGAGGACCGAGAGCTAATATGATTTTT-GCGTTGGGAGCAGAGCAAGTCAAGTCGTATGCGGACGCGGGCGCCA Phytophthora_lateralis CTGCATTGCTGGAA---TTGGAGGAGGAAGAC-GGAAGCTAATGTGATTTTTTGCATTGGGAGCAGAGCAAGTCAAATCGTATGCGGACGCAGGCGCCA Phytophthora_ramorum_EU2 GCATGATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGGTCATTGGAGGACATGATGGCGGCCAGAGAAGTGGTGGAGAGCATGAGCGCTCGCCCCG Phytophthora_ramorum_NA1 GCATGATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGGTCGTTGGAGGACATGATGGCGGCCAGAGAAGTGGTGGAGAGCATGAGCGCTCGCCCCG Phytophthora_ramorum_EU1a GCATGATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGGTCATTGGAGGACATGATGGCGGCCAGAGAAGTGGTGGAGAGCATGAGCGCTCGCCCCG Phytophthora_ramorum_EU1b GCATGATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGCTCATTGGAGGACATGATGGCGGCCAGAGACGTGGTGGAGAGCATGAGCGCTCGCCCCG Phytophthora_ramorum_NA2 GCATGATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGGTCATTGGAGGACATGATGGCGGCCAGAGAAGTGGTGGAGAGCATGAGCGCTCGCCCCG Phytophthora_hibernalis GTATGATCTCAGTGCTGACAGAACCCAAGTGGTTCAAGGGCTCCTTGGAGGACATGATGGCGGCCAGACAAGTGGTGGAGGGCATGATCCCTCGGCCCG Phytophthora_lateralis GCATTATCTCCGTGCTGACGGAGCCCAAGTGGTTCAAGGGGTCATTGGAGGACATGATGGCGGCCAGAGAAGTGGTGGAGGGCATGAGCGCTCGCCCCG Phytophthora_ramorum_EU2 CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_ramorum_NA1 CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_ramorum_EU1a CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_ramorum_EU1b CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_ramorum_NA2 CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_hibernalis CTATCCTGCGCAAGGACTTCATCATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGCGTGCTGCTCATCGTGGCGCTGCTGTCCC Phytophthora_lateralis CCATCCTCCGCAAGGACTTCATTATCGACGTGTACCAGCTGCTGGAGGCTCGCGCCTACGGAGCCGACTGTGTGCTGCTCATTGTGGCGCTGCTGTCCC Phytophthora_ramorum_EU2 AGGAGCAGCTCGTTGAGCTCATTGATGCAAGTAGCTGCGTTAATGTGCCGAATTTTCTGACG-AGAGAATGAATGTTGACGTTGAGTTTGTGTCTGCTT Phytophthora_ramorum_NA1 AGGAGCAGCTCGTTGAGCTCATTGATGCAAGTAGCTGCGTTAATGTGCCGAACTTTCTGACG-AGAGAATGAATGTTGACGTTGAGTTTGTGTCTGCTT Phytophthora_ramorum_EU1a AGGAGCAGCTCGTTGAGCTCATTGATGCAAGTAGCTGCGTTAATGTGCCGAACTTTCTGACG-AGAGAATGAATGTTGACGTTGAGTTTGTGTCTGCTT Phytophthora_ramorum_EU1b AGGAGCAGCTCGTTGAGCTCATTGATGCAAGTAGCTGCGTTAATGAGCCGAACTTTCTGACG-AGAGGATGAATGTTGACGTTGAGTTTGTGTCTGCTT Phytophthora_ramorum_NA2 AGGAGCAGCTCGTTGAGCTCATTGATGCAAGTAGCTGCGTTAATGTGCCGAACTTTCTGACG-AGAGAATGAATGTTGACGTTGAGTTTGTGTCTGCTT Phytophthora_hibernalis AGGAGCAGCTCATTGAGCTCATTGATGCAAGTGGCTGCGTTGATGTACTGGGTTGTTTT--------GATGAATTTTGACGTTTATTTTAT----TCAT Phytophthora_lateralis AGGAGCAGCTCATTGAGCTCATTGATGCAAGTAGCTGCGCTAATGTGCCGAGCTTTTTGACGGAGAGGATGAATGTTGACGTTAATTTTGTGTCTGCGT Phytophthora_ramorum_EU2 TGCATTGTGCAGGCAACTCACAACCTCGGCATGTGCGCCTTAGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGTCGCGCCTG Phytophthora_ramorum_NA1 TGCATTGTGCAGGCAACTCACAACCTCGGCATGTGCGCCTTGGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGTCGCGCCTG Phytophthora_ramorum_EU1a TGCATTGTGCAGGCAACTCACAACCTCGGCATGTGCGCCTTAGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGTCGCGCCTG Phytophthora_ramorum_EU1b TGCATTGTGCAGGCAACTCACAACCTCGGCATGTGCGCCTTAGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGTCGCGCCTG Phytophthora_ramorum_NA2 TGCATTGTGCAGGCAACTCACAACCTCGGCATGTGCGCCTTAGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGTCGCGCCTG Phytophthora_hibernalis TGTGTTGTGCAGGCGACGCACAACCTCGGCATGTGTGCTTTGGTGGAGGTGAACAGCGTCGAAGAGCTGGACATTGCTCTGGCTGCCAGAGCGCGTCTG Phytophthora_lateralis TGCATTGTGCAGGCGACGCACAACCTCGGCATGTGCGCCTTGGTGGAGGTGAACAGCGTTGAGGAGCTGGACATCGCGCTGGCTGCCAGGGCGCGCCTG Phytophthora_ramorum_EU2 ATTGGCGTCAATAACCGAGACCTCC Phytophthora_ramorum_NA1 ATTGGCGTCAATAACCGAGACCTCC Phytophthora_ramorum_EU1a ATTGGCGTCAATAACCGAGACCTCC Phytophthora_ramorum_EU1b ATTGGCGTCAATAACCGAGACCTCC Phytophthora_ramorum_NA2 ATTGGCGTCAATAACCGAGACCTCC Phytophthora_hibernalis ATTGGTGTCAACAACCGCGACCTCC Phytophthora_lateralis ATTGGCGTCAACAACCGGGACCTCC ; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 817; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 817; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 817; END; BEGIN TREES; Title tree_Trp; LINK Taxa = Taxa; TRANSLATE 1 Phytophthora_ramorum_EU2, 2 Phytophthora_ramorum_NA1, 3 Phytophthora_ramorum_EU1a, 4 Phytophthora_ramorum_EU1b, 5 Phytophthora_ramorum_NA2, 6 Phytophthora_hibernalis, 7 Phytophthora_lateralis; TREE Imported_tree_0 = (((((1:0.00254462,3:6.348E-5):0.0,5:0.0)0.2620:1.5974E-4,4:0.0064374)0.4070:0.0011826,2:0.0026452)0.9940:0.04118918,7:0.01858143,6:0.09901019); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1345816915532; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 2707927292278105426; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 8174478429495661132; mqVersion 275; checksumv 0 3 2170262728 null getNumChars 817 numChars 817 getNumTaxa 7 numTaxa 7 short true bits 15 states 15 sumSquaresStatesOnly 112884.0 sumSquares 112884.0 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 1803 657; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #2707927292278105426 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 10025.1345816840215.103181825796359508; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1703 590; 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 '((((((1:0.00254462,3:6.348E-5):0.0,5:0.0)0.2620:1.5974E-4,4:0.0064374)0.4070:0.0011826,2:0.0026452)0.9940:0.04118918,7:0.01858143):0.049505095,6:0.049505095);'; 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; endTell; end;