#NEXUS [written Fri Jan 19 13:41:34 CET 2018 by Mesquite version 3.04 (build 725) at DSK-SAMS-018/10.136.121.36] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=11; TAXLABELS 'Talaromyces_aerugineus_CBS_350.66 KJ865736' 'Talaromyces_diversiformis_DTO_317-E3 KX961216' 'Talaromyces_bohemicus_CBS_545.86 KJ865719' 'Talaromyces_cinnabarinus_CBS_267.72 AY753377' 'Talaromyces_boninensis_CBS_650.95 KJ865721' 'Talaromyces_reverso-olivaceus_DTO_317-C3 KU866834' 'Talaromyces_helicus_CBS_335.48 KJ865725' 'Talaromyces_sp._URM_7624' 'Talaromyces_borbonicus_CBS_141340' 'Talaromyces_varians_CBS_386.48 KJ865731' 'Talaromyces_adpressus_DTO_317-G4 KU866844' ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=512; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX 'Talaromyces_aerugineus_CBS_350.66 KJ865736' GCTTTCTGGTTAGTTTCTCT--TTTTTTTCTCAAGG---------Atctcgt-------caaatctacttgctaactatctaactt-taggcaaattatctctgctgagcacggtctcgacggatctggcgtgtaagtctcgcatac--cgctccggaagcacctga------------caagtcgaccgaa--aaaaaaaaa---gacatacctaacca--aacgttcagttacaatggctcgtccgaccttcaattaaaacgcatgaacgtctacttcaacgaggtacgccga--gtttccccaa-atgaaaagtagcaagaaggcacagacttatac-atggaaaa---------caggctactggtaacaaatatgttcctcgtgccgttctcgtcaatttggagcccggtaccatgaatgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggtcaatcaggtgccggtaacaactgggctaagg 'Talaromyces_diversiformis_DTO_317-E3 KX961216' GCTTTCTGGTTAGTTTC------TTTTCTCTCAAGG---------Atctcgt-------caaaactacttgctaactgtctatcca-taggcaaatcatctctgctgagcacggtctcgacggatctggcgtgtaagtctcgcatac--cgcttcgaaagcacctga------------caagtcgaccgaa--aaaaaaaagaaagacatacctaacca--accgttcagttacaatggctcgtccgaccttcaattagaacgcatgaacgtctacttcaacgaggtacgccga--aattccccaa-atgaaaaatagcaagaaggcacagacttatacaatggaaaa---------caggctactggtaacaaatatgttcctcgtgccgttctcgtcgatttggagcccggtaccatggacgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggtcaatcaggtgccggtaacaactgggccaagg 'Talaromyces_bohemicus_CBS_545.86 KJ865719' GCTTTCTGGTTAGTTTC------TTTTCTCTCCAAG---------Atctcgt-------caaatctacttgctaactgtctctctt-taggcaaattatctctgctgagcacggtctcgatggatctggcgtgtaagtctcgcatac--cgcttcgaaaacacctga------------caattcgacccca--aaaaagaca------atacctgacca--actgttcagttacaatggctcgtccgaccttcaattagaacgtatgaacgtctacttcaacgaggtacggcaaagaagcccccaa-ataaaaataagcaagaagggacaaactcatac-atggaaaa---------taggctactggtaacaaatatgttcctcgtgccgttctcgtcgatttggagcccggtaccatggatgctgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggtcaatcaggtgccggtaacaactgggccaagg 'Talaromyces_cinnabarinus_CBS_267.72 AY753377' GCTTTCTGGTGAGTTTC-------TTTGCTGTAAGG---------Atcttgt-------gtaatctatttgctaactttct----c-aaggcaaattatctctgctgagcacggtctcgatggatccggcgtgtaagtgaagcatac-----------------gaa------------taaatcgaccgaa--------------aatatacctgaccatcatcattcagttacaatggctcgtccgaccttcaattggaacgtatgaacgtctacttcaacgaggtacgccga---tagccgcaa-atgaaaaataac-acaaactacatactcatcc------aaa---------taggctactggcaacaaatatgttcctcgtgctgttctcgtcgatttggagcctggtaccatggatgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggtcaatccggtgccggtaacaactgggccaagg 'Talaromyces_boninensis_CBS_650.95 KJ865721' GCTTTCTGGTACGTGCCGAT---TTCTGTCCCAACGCGGTCT---Atcgtctt-----cttgttgcctctgctaatcgtca--taa-caggcaaatcatctctgctgaacacggcctcgatggctctggtgtgtaagttggccgtatattctgtcgatgtcaacgtc------------gacgttcatcctc--gatcgctca------gattctgacc---acccaccagctacaatggctcctccgaccttcaattggagcgcatgaacgtctacttcaacgaggtgcgccaa---ttccaagca-acgcctacacgc-attcaatgc-aactgacgcga--gagaaaaaaaatcttaggccaacggcaacaaatatgttcctcgtgctgtcctcgtcgatcttgagcccggtaccatggacgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggccaatccggtgccggtaacaactgggccaagg 'Talaromyces_reverso-olivaceus_DTO_317-C3 KU866834' GCTTTCTGGTACGTGCCGAT---TTCTGTCCCAACGCGGTTA---Atcttctt-----cttgtt-cctctgctaatcgtca--taa-caggcaaatcatctctgctgaacacggccttgatggctctggtgtgtaagttggccgtatattctgtcgacgtcaacgtc------------gaagttcatcctcgagatcgctca------gattctgacc---acccaccagctacaatggctcctccgaccttcaattggagcgcatgaacgtctacttcaacgaggtgcgccaa---tcccaagca-acacctacacgg-attcaatac-aactgacgcga--gagaaaaaaaatcttaggccaacggcaacaaatatgttcctcgtgctgtcctcgtcgatctcgagcccggtaccatggacgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggccaatccggtgccggtaacaactgggccaagg 'Talaromyces_helicus_CBS_335.48 KJ865725' GCTTTCTGGTACGTGACGAT-GAATCTGTCCCAACGCGGTCC---Atcatatt-----cttgttccctctgctaatcgtca--taaccaggcaaatcatctctgctgagcacggcctcgatggctctggtgtgtaagttgaccgtgtattctgtcgacgtc------------------gaaatctatcatc--gatcgctca------gattctgacc---aaccaccagctacaatggctcctccgaccttcaattggagcgcatgaacgtctacttcaacgaggtacgccaa----tccatcta-aggcctacacgc-attcaatcc-aactaacgcga--gaaaaaaaaaatcttaggccaacggcaacaaatatgttcctcgtgctgtcctcgtcgatctcgagcccggtaccatggacgccgtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggccaatccggtgctggtaacaactgggccaagg 'Talaromyces_sp._URM_7624' GCTTTCTGGTAGGTGGTGAT-AGATCTATCTCGACGCGAGCA----tttca--------gaagcacggctgctaaacctct--ttc-caggcaaatcatctctgctgagcacggcctcgatggctctggtgtgtaagttaatcgcgtagtctgtcgatgtcgccgaca-----------aaagtccatcctc--gatcactca------gattctgacg---gatcatcagctacaatggctcctccgaccttcaattggagcgcatgaacgtttacttcaacgaggtgcgccag---acccaataacccgcctatacac-aatcaatctgaactgacacga--aaaaa---------aaggccaacggcaataaatatgtccctcgtgctgtcctcgtcgatctggagcccggtaccatggacgctgtccgcgctggtccttttggtcagctcttccgtcccgacaactttgttttcggccaatccggtgccggtaacaactgggccaagg 'Talaromyces_borbonicus_CBS_141340' GCTTTCTGGTAGGTGGTGATAAAATCTATCTCGACGCGAGTA----tttcatt-----ctcgtcacggctgctaatcctct--ttc-caggcaaatcatctctgctgagcacggcctcgatggctctggtgtgtaagttaaccgcgtattctgtcgatgtcgccgaca-----------aaagtccatcctc--gatcactca------aattctgacg---gatcatcagctacaatggttcctccgaccttcaattggagcgcatgaatgtttacttcaacgaggtgcgccag---acccaataacccgcctatacac-aatcaatctgaactgacacga--aaaaa---------aaggccaatggcaataaatatgttcctcgtgctgtcctcgtcgatctggagcccggtaccatggacgctgtccgcgctggtccctttggccagctcttccgtcccgacaactttgttttcggccaatccggtgccggtaacaactgggccaagg 'Talaromyces_varians_CBS_386.48 KJ865731' GCTTTCTGGTAAGTGGTGAT-GAAGCTGTCTCGACGCGATCATCCAtcccatt-----ctcgtcacttgcgctaattgtct----c-taggcaaatcatctctgctgagcacggccttgatggctctggtgtgtaagtgaaacgtgt--tcagtcgacgtcgatgtcgacgtcgacatcgaagtccatccgc--gatcactcc------cagtctgaca---cacaaccagctacaatggctcttccgacctccaactggaacgcatgaacgtctacttcaacgaggtgcgccaa---ttccaaaca-acgcacatacgc-agtcaatc--aactaatgc----aaaaa---------taggccaatggcaacaaatacgttcctcgtgctgtcctcgtcgatctggagcccggtaccatggacgcggtccgcgctggtccctttggtcagctcttccgtcccgacaactttgttttcggccagtccggcgccggtaacaactgggccaagg 'Talaromyces_adpressus_DTO_317-G4 KU866844' GCTTTCTGGTGAGTTG-GAC--------CCTCGACCCGAACT----ttctatcaattgtcgcgacaacacgctgactttc-----c-caggcaaatcatctctgctgagcacggtctcgatggctctggtgtgtaagtattgcacga------------------------------ttcgaatccagctac--aatccgacg------atatctgat----actcaacagctacaatggctcctccgacctccagttggagcgtatgaacgtctatttcaacgaggtgtgtcca---accaatcca-tcgtat-------aacggaacaatacttatat----tagta---------taggcctccggcaacaaatacgttccccgtgctgtcctcgttgacttggagcccggtaccatggatgccgtccgcgctggtccctttgggcagctcttccgtcccgacaactttgttttcggtcagtccggtgctggtaacaattgggccaagg ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 512; END; BEGIN NOTES; TAXABITS TAXA = Taxa NAME = newlyAddedTaxon on = 1 - 11; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 512; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 512; END; BEGIN TREES; Title 'Trees from "20170530 BenA Helici ML phylogram.nwk"'; LINK Taxa = Taxa; TRANSLATE [0] 10 'Talaromyces_aerugineus_CBS_350.66 KJ865736', [1] 11 'Talaromyces_diversiformis_DTO_317-E3 KX961216', [2] 9 'Talaromyces_bohemicus_CBS_545.86 KJ865719', [3] 8 'Talaromyces_cinnabarinus_CBS_267.72 AY753377', [4] 1 'Talaromyces_boninensis_CBS_650.95 KJ865721', [5] 2 'Talaromyces_reverso-olivaceus_DTO_317-C3 KU866834', [6] 3 'Talaromyces_helicus_CBS_335.48 KJ865725', [7] 4 'Talaromyces_sp._URM_7624', [8] 5 'Talaromyces_borbonicus_CBS_141340', [9] 6 'Talaromyces_varians_CBS_386.48 KJ865731', [10] 7 'Talaromyces_adpressus_DTO_317-G4 KU866844'; TREE PHYLIP_1 = (7:0.307194,((6:0.056935,((3:0.028677,(1:0.00875,2:0.0167)0.9910:0.032323)0.9970:0.037867,(4:0.027584,5:0.012757)0.9690:0.07448)0.7750:0.048575)0.8460:0.115619,(8:0.06552,(9:0.040666,(10:0.019598,11:0.011181)0.9660:0.017983)0.9610:0.061024)0.9990:0.251145):0.0); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1516365694173; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 7304908379601312909; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3440651554757128437; mqVersion 304; checksumv 0 3 3043300225 null getNumChars 512 numChars 512 getNumTaxa 11 numTaxa 11 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 107011.0 sumSquares -6.041308684139878E20 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 253; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1788 1043; setLocation 521 191; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #7304908379601312909 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #7304908379601312909; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1535 971; setLocation 521 191; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; 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 #7304908379601312909 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 955.1516287462082.6616413329692879246; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1535 971; setLocation 521 191; 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; 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 #3440651554757128437 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 347; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1535 971; setLocation 521 191; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; 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.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;