#NEXUS [written Mon Apr 10 19:25:09 CEST 2023 by Mesquite version 3.5 (build 888) at Svens-MacBook-Pro-2.local/127.0.0.1] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=6; TAXLABELS Gorilla 'Orang-Utan' Gibbon Makake Schimpanse Mensch ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=1000; FORMAT DATATYPE = DNA INTERLEAVE GAP = - MISSING = ?; MATRIX Gorilla GTTTATGTAGCTTAC-CTC-CCCAAAGCAATACACTGAAAATGTTTCGAC 'Orang-Utan' GTTTATGTAGCTTAT-TCCATCCAAAGCAATACACTGAAAATGTCTCGAT Gibbon GTTTATGTAGCTTAA-CTA-CCCAAAGCAAAACACTGAAAATGTCGAGAC Makake GTTTATGTAGCTTAAACCCACCCAAAGCAAGACACTGAAAATGCCTAGAT Schimpanse GTTTATGTAGCTTAC-CCC-CTCAAAGCAATACACTGAAAATGTTTCGAC Mensch GTTTATGTAGCTTAC-CTC-CTCAAAGCAATACACTGAAAATGTTTAGAC Gorilla GGGCTCACATCACCCCATAAACAAATAGGTTTGGTCCTAGCCTTTCTATT 'Orang-Utan' GGGCCCACA-CGCCCCATAAACAAACAGGTTTGGTCCTAGCCTTTCTATT Gibbon GG-CTCACC-CGCCCCATAAACAAATAGGTTTGGTCCTAGCCTTTCTATT Makake GGGTTCGCA-CACCCCATAAACAAACAGGCTTGGTCCTGGCCTTTCCATT Schimpanse GGGTTTACATCACCCCATAAACAAACAGGTTTGGTCCTAGCCTTTCTATT Mensch GGGCTCACATCACCCCATAAACAAATAGGTTTGGTCCTAGCCTTTCTATT Gorilla AACTCTTAGTAGGATTACACATGCAAGCATCCCCGCCCCAGTGAGT-CAC 'Orang-Utan' AGCCCTTAGTGAGATTACACATGCAAGCATCCCCGCCCCAGTGAGT-CGC Gibbon AGCCCCTGGCAAGATTACACATGCAAGCATCCCCGCCCCGGTGAAATCGC Makake GGCTCCTAGCAAGATTACACATGCAAGCATCCCCGCCCCGGTGAAGACGC Schimpanse AGCTCTTAGTAAGATTACACATGCAAGCATCCCCGCCCC-GTGAGT-CAC Mensch AGCTCTTAGTAAGATTACACATGCAAGCATCCCCGTTCCAGTGAGTTCAC Gorilla CCTCTAAATCACC-ACGATCAAAAGGAACAAGCATCAAGTACGCAGAAAT 'Orang-Utan' CCTCCAAGCCACT-CTGACTAAGAGGAACAAGCATCAAGCACGCAACAAC Gibbon CCTTCAAATCACCCGTGATCAAAAGGAGCAGGTATCAAGCACGCAGTAAT Makake CCTACAAATCATC-ATGACCAAGAGGAGCAAGCATCAAGCACGCA--CAC Schimpanse CCTCTAAATCGCC-ATGATCAAAAGGAACAAGTATCAAGCACGCAGCAAT Mensch CCTCTAAATCACC-ACGATCAAAAGGGACAAGCATCAAGCACGCAACAAT Gorilla GCAGCTCAAAACGCTTAGCCTAGCCACACCCCCACGGGAGACAGCAGTGA 'Orang-Utan' GCAGCTCAAGACGCTTAGCCTAGCCACACCCCCACGGGAGACAGCAGTGA Gibbon GCAGCTCAAAACACCCTGCCTAGCCACACCCCCACGGGAGACAGCAGTGA Makake GCAGCTCAAAACGCTTTGCCTGGCCACACCCT-ACGGGAAACAGCAGTGA Schimpanse GCAGCTCAAAACGCTTAGCCTAGCCACACCCCCACGGGAGACAGCAGTGA Mensch GCAGCTCAAAACGCTTAGCCTAGCCACACCCCCACGGGAAACAGCAGTGA Gorilla TAAACCTTTAGCAATAAACGAAAGTTTAACTAAGCCATACTAACCCCAGG 'Orang-Utan' CAAATCTTTAGCAATGAACGAAAGTTCAACTAAGCTACACTAGCCACAGG Gibbon TAAACCTTTAGCAATAAACGAAAGTTTAACTAAGCTATGCCAACC-CAGG Makake CAAATATTTAGCAATAAACGAAAGTTTAACTAAGCTATGCTATATTTAGG Schimpanse TAAACCTTTAGCAATAAACGAAAGTTTAACTAAGCCATACTAACCTCAGG Mensch TAAACCTTTAGCAATAAACGAAAGTTTAACTAAGCTATACTAACCCCAGG Gorilla GTTGGTCAATTTCGTGCCAGCCACCGCGGTCACACGATTAACCCAAGCCA 'Orang-Utan' GCTGGTCAACTTCGTGCCAGCCACCGCGGTCACACGATTAGCCCAAGTTA Gibbon GTTGGTCAACTTCGTGCCAGCCACCGCGGTCATACGATTAACCCCAGTTA Makake GTTGGTCAATTTCGTGCCAGCCACCGCGGTCACACGATTGACCCTAGCTA Schimpanse GTTGGTCAATTTCGTGCTAGCCACCGCGGTCATACGATTAACCCAAGTCA Mensch GTTGGTCAATTTCGTGCCAGCCACCGCGGTCACACGATTAACCCAAGTCA Gorilla ATAGAAATCGGCGTAAAGAGTGTTTTAGATCAATCCCCC---AATAAAGC 'Orang-Utan' ATAGAGATCGGCGTAGAGAGTGTTTTAGATTTTTTTCCCCCCAATAAAGC Gibbon ATAGAGCCCGGCGTAAAGAGTGTTTTAGATTGCTCCCT----AATAAAGC Makake ATAGAGATCGGCGTAGAGGGTGTTTAAGATCTAACGC-----AATAAAGC Schimpanse ATAGAAACCGGCGTAAAGAGTGTTTTAGATCACCCCCCC----ATAAAGC Mensch ATAGAAGCCGGCGTAAAGAGTGTTTTAGATCACCCCCTCCCCAATAAAGC Gorilla TAAAATTCACCTGAGTTGTAAAAAACTCCAGCTGATATAAAATAAACTAC 'Orang-Utan' TAAAATTTACCTGAGTTGTAGAAAACTTAAGTTAATACAAAATAAACTAC Gibbon TAAGCTCCATCCAAGTCGTAAAAAACTCTGGCTGCTATAAAATAAACTAC Makake TAAACTCCATCTAAACTGT--AAAACCCTAGCTGATGTAAAATAAACTAC Schimpanse TAAAATTCACCTGAGTTGTAAAAAACTCCAGCTGATACAAAATAAACTAC Mensch TAAAACTCACCTGAGTTGTAAAAAACTCCAGTTGACACAAAATAAACTAC Gorilla GAAAGTGGCTTTAATATATCTGAACACACAATAGCTAGGACCCAAACTGG 'Orang-Utan' GAAAGTGGCTTTAATATATCTGAACACACAATAGCTAAGACCCAAACTGG Gibbon GAAAGTGGCTTTAACACCTCTGAATACACAATAGCTGAGACCCAAACTGG Makake GAAAGTGGCTTTAAAGCTTCTGAACACACAATAGCCAGGACCCAAACTGG Schimpanse GAAAGTGGCTTTAACACATCTGAATACACAATAGCTAAGACCCAAACTGG Mensch GAAAGTGGCTTTAACATATCTGAATACACAATAGCTAAGACCCAAACTGG Gorilla GATTAGATACCCCACTATGCCTAGCCCTAAACTTCAACAGTTAAATTAAC 'Orang-Utan' GATTAGATACCCCACTATGCTTAGCCCTAAACTTTAACAGTTGAATCAAC Gibbon GATTAGATACCCCACTATGCTCAGCCCTAAACTTCAACAGTCAAATCAAC Makake GATTAGACACCCCACTATGCCTAGCCCTAAACCTCAGTAGTTGAG-CAAC Schimpanse GATTAGATACCCCACTATGCTTAGCCCTAAACTTCAACAGTTAAATTAAC Mensch GATTAGATACCCCACTATGCTTAGCCCTAAACCTCAACAGTTAAATCAAC Gorilla AAGACTGCTCGCCAGAACACTACGAGCCACAGCTTAAAACTCAAAGGACC 'Orang-Utan' AAAACTGCTCGCCAGAACACTACGAGCCACAGCTTAAAACTCAAAGGACC Gibbon AAGACTGCTCGCCAGAACACTACGAGCAACAGCTTAAAAATCAAAGGACC Makake AAAACTACTCGCCAGAATACTACAAGCAACAGCTTGAAACTCAAAGGACT Schimpanse AAAACTGCTCGCCAGAACACTACGAGCCACAGCTTAAAACTCAAAGGACC Mensch AAAACTGCTCGCCAGAACACTACGAGCCACAGCTTAAAACTCAAAGGACC Gorilla TGGCGGTGCTTCACATCCTTCTAGAGGAGCCTGTTCTGTAATCGATAAAC 'Orang-Utan' TGGCGGTGCTTCATACCCCCCTAGAGGAGCCTGTTCTGTAATCGATAAAC Gibbon TGGCGGTGCTTCACACCCCCCTAGAGGAGCCTGTCCTATAATCGATAAAC Makake TGACGGTGCTTTACA-CCCCCTAGAGGAGCCTGTTCCATAATCGATAAAC Schimpanse TGGCGGTGCTTCATATCCCTCTAGAGGAGCCTGTTCTGTAATCGATAAAC Mensch TGGCGGTGCTTCATATCCCTCTAGAGGAGCCTGTTCTGTAATCGATAAAC Gorilla CCCGATCAACCTCACCACCTCTTGCTCAGCCTATATACCGCCATCTTCAG 'Orang-Utan' CCCGATCAACCTCACCACCCCTTGCTCAGCCTATATACCGCCATCTTCAG Gibbon CCCGTTCAACCTCACCATCTCTTGCTCAGCCTATATACCGCCATCTTCAG Makake CCCGATCCACCCTACCCTCTCTTGCTCAGCCTATATACCGCCATCTTCAG Schimpanse CCCGATCAACCTCACCGCCTCTTGCTCAGCCTATATACCGCCATCTTCAG Mensch CCCGATCAACCTCACCACCTCTTGCTCAGCCTATATACCGCCATCTTCAG Gorilla CAAACCCTGACGAAGGCCACAAAGTAAGCACAAGTACCCAC---GTAAAG 'Orang-Utan' CAAACCCTGATGAAGGCCACGAAGTAAGCGCAAACACCCAC---GTAAAG Gibbon CAAACCCTGACAAAGGCTATAAAGTAAGCACAAACACCCAC---ATAAAG Makake CAAACCCTGATGAAGGCCACAAAGTGAGCGCAAATGCCCACACCGCAAAA Schimpanse CAAACCCTGATGAAGGTTACAAAGTAAGCACAAGTACCCAC---GTAAAG Mensch CAAACCCTGATGAAGGCTACAAAGTAAGCGCAAGTACCCAC---GTAAAG Gorilla ACGTTAGGTCAAGGTGTAGCCCATGAGGTGGCAAGAAATGGGCTACATTT 'Orang-Utan' ACGTTAGGTCAAGGTGTAGCCCATGGAGTGGCAAGAAATGGGCTACATTT Gibbon ACGTTAGGTCAAGGTGTAGCCCATGAGATGGGAAGAGATGGGCTACATTT Makake ACGTTAGGTCAAGGTGTAGCCCATGAGACGGTAAAAAATGGGCTACATTT Schimpanse ACGTTAGGTCAAGGTGTAGCCTATGAGGTGGCAAGAAATGGGCTACATTT Mensch ACGTTAGGTCAAGGTGTAGCCCATGAGGTGGCAAGAAATGGGCTACATTT Gorilla TCTACTTCAGAAAACT--ACGATAACCCTTATGAAACCTAAG-GGTAGAA 'Orang-Utan' TCTACTTCAGAAAACT--ACGATAACCCTCATGAAATTTGAA-GGTCGAA Gibbon TCTATGCCAGAAAACC--ACGATAACCCTCATGAAACTTGAGCGGTCGAA Makake TCTGCCTCAGAATACCCCACGAAAACTCTTATGAAACCTAAG-AGTCCAA Schimpanse TCTACCCCAGAAAATT--ACGATAACCCTTATGAAACCTAAG-GGTCAAA Mensch TCTACCCCAGAAAACT--ACGATAGCCCTTATGAAACTTAAG-GGTCGAA Gorilla GGTGGATTTAGCAGTAAACTAAGAGTAGAGTGCTTAGTTGAACAGGGCCC 'Orang-Utan' GGTGGATTTAGCAGTAAACTAAGAGTAGAGTGCTTAGTTGAACAAGGCCC Gibbon GGAGGATTTAGCAGTAAATTAAGAATAGAGTGCTTAGTTGAACAAGGCCC Makake GGAGGATTTAGCAGTAAATTAAGAATAGAGTGCTTAATTGAACCAGGCCA Schimpanse GGTGGATTTAGCAGTAAACTAAGAGTAGAGTGCTTAGTTGAACAGGGCCC Mensch GGTGGATTTAGCAGTAAACTGAGAGTAGAGTGCTTAGTTGAACAGGGCCC Gorilla TGAAGCGCGTACACACCGCCCGTCACCCTCCTCAAGTATACTTCAAAGGA 'Orang-Utan' TGAAGCGCGTACACACCGCCCGTCACCCTCTTCAAGTATATTTCAGGGAC Gibbon TGAAGCGCGTACACACCGCCCGTCACCCTCCTCAAGCATATTTCAAGGAA Makake TAAAGCGCGCACACACCGCCCGTCACTCCCCTCAAATATATTTAAGGAAT Schimpanse TGAAGCGCGTACACACCGCCCGTCACCCTCCTCAAGTATACTTCAAAGGA Mensch TGAAGCGCGTACACACCGCCCGTCACCCTCCTCAAGTATACTTCAAAGGA Gorilla CATTTAACTAAAACCCC-TACGCATCTATATAGAGGAGATAAGTCGTAAC 'Orang-Utan' TACCTAACTAAAACCCC-CACGCATCTATATAGAAGAGGCAAGTCGTAAC Gibbon CCCCTAACTAAATACTC-CACGCATCTATGTAGAGGAGACAAGTCGTAAC Makake ATCCTAACTAAACACTC--CAATATTTATATAGAGGGGATAAGTCGTAAC Schimpanse TACTTAACTTAAACCCCCTACGTATTTATATAGAGGAGATAAGTCGTAAC Mensch CATTTAACTAAAACCCC-TACGCATTTATATAGAGGAGACAAGTCGTAAC ; END; BEGIN CODONS; CODONPOSSET * UNTITLED = N: 1- 1000 ; CODONPOSSET CodonPositions = N: 1- 1000 ; CODESET * UNTITLED = universal: 1- 1000; END; BEGIN ASSUMPTIONS; OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS; TYPESET * UNTITLED = unord: 1- 1000; END; BEGIN MacClade; Version 4.0 84; LastModified -918977573; FileSettings editor '0' '0' '1' '1'; Singles 010; Editor 0001100111111110010001001 '1' '12' Geneva '9' '244' '1' all; EditorPosition '44' '6' '819' '1347'; TreeWindowPosition '46' '6' '831' '1390'; ListWindow Characters closed Geneva '9' '50' '10' '273' '406' 000; ListWindow Taxa closed Geneva '9' '50' '10' '161' '346' 100000; ListWindow Trees closed Geneva '9' '50' '10' '276' '490'; ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490'; ListWindow ExSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharSets closed Geneva '9' '50' '10' '276' '490'; ListWindow TaxSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartitions closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartNames closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490'; ChartWindowPosition '52' '30' '818' '1380'; StateNamesSymbols closed Geneva '9' '10' '50' '30' '148' '220'; WindowOrder Data; OtherSymbols & / 00 ? -; Correlation '0' '0' '1000' '0' '0' 10011010; Salmo 00000001; EditorFile '2'; ExportHTML _ MOSS '100' 110000; PrettyPrint 10; EditorToolsPosition '705' '46' '115' '165'; TreeToolsPosition '716' '9' '126' '138'; TreeWindowProgram 10; TreeWindow 0000; Continuous '0' '3' 1; Calculations 0000001; SummaryMode '0' '0' 0; Charts Geneva '9' ( normal ) 0010; NexusOptions '0' '0' '50' 101011001; TipLabel '1'; TreeFont Geneva '9' ( normal ); TreeShape 1.0 1.0 0100; TraceLabels 0101; ChartColors '0' '0' '65535' '9' '0' 1; ChartBiggestSpot 1; ChartPercent 10; ChartBarWidth '10' 1; ChartVerticalAxis 10101; ChartMinMax '0'; TraceAllChangesDisplay '1' 1; BarsOnBranchesDisplay '0' '0' '60000' '10000' '10000' '10000' '10000' '60000' '65000' '65000' '65000' '6' '1' 0000101; ContinuousBranchLabels 0; AllStatesBranchLabels 1; IndexNotation '2' 1; PrintTree 10.00 '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' Geneva '9' ( normal ) Geneva '10' ( normal ) Geneva '9' ( normal ) Geneva '9' ( normal ) Geneva '9' ( bold ) Geneva '9' ( normal ) Geneva '9' ( normal ) '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '1' '1' '1' '1' '1' '19259' '-39' '4' '-40' '0' '1' '2' '1' '8' '0' '0' '0' '2' 1000111000000000000100000111000; MatchChar 00 .; EntryInterpretation 01; ColorOptions 00; TreeTools '0' '5' '4' '0' '10' '4' '0' 00100111111101110; EditorTools '0' '0' '0' '1000' '0' '0' '6' '3' '0' 100000101110001; PairAlign '2' '2' '3' '2' '1' '1' '2' '1' '3' 1010; BothTools '1'; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1- 1000; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1681147509482; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 7778841837879680388; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 590541266187649086; mqVersion 350; checksumv 0 3 947752922 null getNumChars 1000 numChars 1000 getNumTaxa 6 numTaxa 6 short true bits 15 states 15 sumSquaresStatesOnly 107087.0 sumSquares 107087.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 700 464; setLocation 8 25; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #590541266187649086 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 392; setLocation 8 25; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; 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 16 6 1 1; 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;