#NEXUS [written Thu Jul 16 10:32:25 BST 2020 by Mesquite version 3.6 (build 917) at LTHSML42503/192.168.0.10] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=102; TAXLABELS Rhyncholestes_raphanurus Caenolestes_fuliginosus Caluromys_philander Caluromys_lanatus Didelphis_albiventris Didelphis_marsupialis Didelphis_virginiana Lutreolina_crassicaudata Chironectes_minimus Metachirus_nudicaudatus Thylacinus_cynocephalus Myrmecobius_fasciatus Antechinus_swainsonii Phascogale_tapoatafa Dasycercus_cristicauda Dasyurus_hallucatus Dasyurus_viverrinus Dasyurus_maculatus Sarcophilus_harrisii Isoodon_obesulus Isoodon_auratus Perameles_gunnii Perameles_nasuta Perameles_bougainville Macrotis_lagotis Notoryctes_caurinus Notoryctes_typhlops Phascolarctos_cinereus Lasiorhinus_latifrons Vombatus_ursinus Potorous_tridactylus Bettongia_lesueur Bettongia_penicillata Aepyprymnus_rufescens Macropus_rufogriseus Macropus_agilis Macropus_eugenii Macropus_robustus Macropus_rufus Macropus_giganteus Macropus_fuliginosus Wallabia_bicolor Setonix_brachyurus Dendrolagus_goodfellowi Dendrolagus_dorianus Dendrolagus_inustus Petrogale_inornata Petrogale_penicillata Petrogale_persephone Petrogale_concinna Onychogalea_fraenata Thylogale_billardierii Thylogale_stigmatica Dorcopsis_veterum Hypsiprymnodon_moschatus Burramys_parvus Trichosurus_vulpecula Spilocuscus_maculatus Tarsipes_rostratus Dactylopsila_trivirgata Petaurus_australis Petaurus_norfolcensis Petaurus_breviceps Petauroides_volans Hemibelideus_lemuroides Pseudocheirus_peregrinus Distoechurus_pennatus Acrobates_pygmaeus Dromiciops_gliroides Artiodictis Boryhyaena Prothylacinus Lycopsis Callistoe Sipalocyon Herpetotherium Pucadelphys Maylestes Asiatherium Sinodelphys Juramaia Eomaia Asioryctes Asioryctheria Bemalambda Coryphodon Titanoides Pantolambdidae Onychodectes Stylinodon Cimolesta Zalambdalestes VIncelestes Henkelotherium 'Crown_eutheria' Ambolestes Psittacotherium Ukhaatherium Sminthopsis_crassicaudata Macropus_dorsalis Dorcopsis_muelleri_ Macrotis_leucura ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=1; FORMAT DATATYPE = STANDARD RESPECTCASE GAP = - MISSING = ? SYMBOLS = " 0 1 2"; MATRIX Rhyncholestes_raphanurus 2 Caenolestes_fuliginosus 2 Caluromys_philander 1 Caluromys_lanatus 1 Didelphis_albiventris 1 Didelphis_marsupialis 1 Didelphis_virginiana {1 2} Lutreolina_crassicaudata 1 Chironectes_minimus 1 Metachirus_nudicaudatus {0 1} Thylacinus_cynocephalus 1 Myrmecobius_fasciatus 1 Antechinus_swainsonii 1 Phascogale_tapoatafa 1 Dasycercus_cristicauda 1 Dasyurus_hallucatus 1 Dasyurus_viverrinus 1 Dasyurus_maculatus 1 Sarcophilus_harrisii {0 1} Isoodon_obesulus 2 Isoodon_auratus 2 Perameles_gunnii 2 Perameles_nasuta 2 Perameles_bougainville 2 Macrotis_lagotis 2 Notoryctes_caurinus 2 Notoryctes_typhlops 2 Phascolarctos_cinereus {0 1} Lasiorhinus_latifrons {0 1} Vombatus_ursinus {0 1} Potorous_tridactylus 1 Bettongia_lesueur 1 Bettongia_penicillata 1 Aepyprymnus_rufescens 1 Macropus_rufogriseus {1 2} Macropus_agilis 1 Macropus_eugenii 1 Macropus_robustus 1 Macropus_rufus {1 2} Macropus_giganteus 1 Macropus_fuliginosus 1 Wallabia_bicolor 1 Setonix_brachyurus {1 2} Dendrolagus_goodfellowi 1 Dendrolagus_dorianus 1 Dendrolagus_inustus 1 Petrogale_inornata 1 Petrogale_penicillata 1 Petrogale_persephone 1 Petrogale_concinna 1 Onychogalea_fraenata 1 Thylogale_billardierii 1 Thylogale_stigmatica 1 Dorcopsis_veterum 1 Hypsiprymnodon_moschatus 1 Burramys_parvus 1 Trichosurus_vulpecula 1 Spilocuscus_maculatus 1 Tarsipes_rostratus {1 2} Dactylopsila_trivirgata 1 Petaurus_australis 1 Petaurus_norfolcensis 1 Petaurus_breviceps 1 Petauroides_volans 1 Hemibelideus_lemuroides 1 Pseudocheirus_peregrinus 1 Distoechurus_pennatus 1 Acrobates_pygmaeus 1 Dromiciops_gliroides 0 Artiodictis 2 Boryhyaena ? Prothylacinus 2 Lycopsis ? Callistoe 2 Sipalocyon 2 Herpetotherium 0 Pucadelphys 0 Maylestes 0 Asiatherium 0 Sinodelphys 0 Juramaia ? Eomaia 2 Asioryctes ? Asioryctheria 2 Bemalambda 2 Coryphodon 2 Titanoides 2 Pantolambdidae 2 Onychodectes 2 Stylinodon 2 Cimolesta 2 Zalambdalestes 2 VIncelestes 0 Henkelotherium 0 'Crown_eutheria' 2 Ambolestes 2 Psittacotherium 2 Ukhaatherium 2 Sminthopsis_crassicaudata 1 Macropus_dorsalis 1 Dorcopsis_muelleri_ 1 Macrotis_leucura 2 ; END; BEGIN TREES; Title Imported_trees; ID 01612dfd4d9f3; LINK Taxa = Taxa; TRANSLATE [0] 1 Rhyncholestes_raphanurus, [1] 2 Caenolestes_fuliginosus, [2] 3 Caluromys_philander, [3] 4 Caluromys_lanatus, [4] 5 Didelphis_albiventris, [5] 6 Didelphis_marsupialis, [6] 7 Didelphis_virginiana, [7] 8 Lutreolina_crassicaudata, [8] 9 Chironectes_minimus, [9] 10 Metachirus_nudicaudatus, [10] 11 Thylacinus_cynocephalus, [11] 12 Myrmecobius_fasciatus, [12] 13 Antechinus_swainsonii, [13] 14 Phascogale_tapoatafa, [14] 15 Dasycercus_cristicauda, [15] 16 Dasyurus_hallucatus, [16] 17 Dasyurus_viverrinus, [17] 18 Dasyurus_maculatus, [18] 19 Sarcophilus_harrisii, [19] 20 Isoodon_obesulus, [20] 21 Isoodon_auratus, [21] 22 Perameles_gunnii, [22] 23 Perameles_nasuta, [23] 24 Perameles_bougainville, [24] 25 Macrotis_lagotis, [25] 26 Notoryctes_caurinus, [26] 27 Notoryctes_typhlops, [27] 28 Phascolarctos_cinereus, [28] 29 Lasiorhinus_latifrons, [29] 30 Vombatus_ursinus, [30] 31 Potorous_tridactylus, [31] 32 Bettongia_lesueur, [32] 33 Bettongia_penicillata, [33] 34 Aepyprymnus_rufescens, [34] 35 Macropus_rufogriseus, [35] 36 Macropus_agilis, [36] 37 Macropus_eugenii, [37] 38 Macropus_robustus, [38] 39 Macropus_rufus, [39] 40 Macropus_giganteus, [40] 41 Macropus_fuliginosus, [41] 42 Wallabia_bicolor, [42] 43 Setonix_brachyurus, [43] 44 Dendrolagus_goodfellowi, [44] 45 Dendrolagus_dorianus, [45] 46 Dendrolagus_inustus, [46] 47 Petrogale_inornata, [47] 48 Petrogale_penicillata, [48] 49 Petrogale_persephone, [49] 50 Petrogale_concinna, [50] 51 Onychogalea_fraenata, [51] 52 Thylogale_billardierii, [52] 53 Thylogale_stigmatica, [53] 54 Dorcopsis_veterum, [54] 55 Hypsiprymnodon_moschatus, [55] 56 Burramys_parvus, [56] 57 Trichosurus_vulpecula, [57] 58 Spilocuscus_maculatus, [58] 59 Tarsipes_rostratus, [59] 60 Dactylopsila_trivirgata, [60] 61 Petaurus_australis, [61] 62 Petaurus_norfolcensis, [62] 63 Petaurus_breviceps, [63] 64 Petauroides_volans, [64] 65 Hemibelideus_lemuroides, [65] 66 Pseudocheirus_peregrinus, [66] 67 Distoechurus_pennatus, [67] 68 Acrobates_pygmaeus, [68] 69 Dromiciops_gliroides, [69] 70 Artiodictis, [70] 71 Boryhyaena, [71] 72 Prothylacinus, [72] 73 Lycopsis, [73] 74 Callistoe, [74] 75 Sipalocyon, [75] 76 Herpetotherium, [76] 77 Pucadelphys, [77] 78 Maylestes, [78] 79 Asiatherium, [79] 80 Sinodelphys, [80] 81 Juramaia, [81] 82 Eomaia, [82] 83 Asioryctes, [83] 84 Asioryctheria, [84] 85 Bemalambda, [85] 86 Coryphodon, [86] 87 Titanoides, [87] 88 Pantolambdidae, [88] 89 Onychodectes, [89] 90 Stylinodon, [90] 91 Cimolesta, [91] 92 Zalambdalestes, [92] 93 VIncelestes, [93] 94 Henkelotherium, [94] 95 'Crown_eutheria', [95] 96 Ambolestes, [96] 97 Psittacotherium, [97] 98 Ukhaatherium, [98] 99 Sminthopsis_crassicaudata, [99] 100 Macropus_dorsalis, [100] 101 Dorcopsis_muelleri_, [101] 102 Macrotis_leucura; TREE 'Imported tree 1++' = (((1:22.44389,2:22.44389):51.76344,((3:3.84222333,4:3.84222333):29.87601567,(((((5:7.0727525,6:7.0727525):0.52755,7:7.6003025):3.9996975,8:11.6):0.083558,9:11.683558):5.44254914,10:17.12610714):16.59213186):40.489091):7.30134481,(((((11:39.94706667,(12:36.55766375,((13:12.36,14:12.36):4.71365857,(15:11.81486333,((16:6.425,(17:5.67801667,18:5.67801667):0.74698333):0.695,19:7.12):4.6948633300000004):5.25879524):19.484005179999997):3.38940292):17.2309897,(((20:1.89640667,21:1.89640667):6.5346819,((22:4.59646667,23:4.59646667):3.42293333,24:8.019400000000001):0.41168857):16.76891143,25:25.2):31.97805636):1.04644545,(26:7.59333333,27:7.59333333):50.63116848):3.40450818,((28:35.009725,(29:11.5,30:11.5):23.509725):13.93526577,((((((31:18.974285709999997,((32:6.30666667,33:6.306666669999999):7.29933333,34:13.606):5.36828571):4.96517813,((((((35:7.720000000000001,(((36:3.48333333,37:3.48333333):3.32422,(38:4.3375,39:4.3375):2.47005333):0.50744667,(40:1.9725,41:1.9725):5.3425):0.405):0.0000000001,42:7.72):1.11,43:8.83):0.24,(((44:3.83669333,45:3.8366933299999997):4.663306670000001,46:8.5):0.5700000000000001,(((47:4.35333334,48:4.35333333):2.44666666,49:6.8):0.52,50:7.32):1.75):0.000000001):1.79336667,(51:9.6575,(52:7.825,53:7.825):1.8325):1.20586667):0.66666667,54:11.53003333):12.40943052):6.43887692,55:30.37834077):17.2172259,56:47.59556667):0.0000001,(57:23.67511667,58:23.67511667):23.92045):0.66887333,((59:40.00204286,((60:22.93995167,(61:14.755,(62:3.614,63:3.614):11.141000000000002):8.18495167):9.97614833,((64:10.9,65:10.9):12.1,66:23):9.9161):7.08594286):1.01271339,(67:20.71,68:20.71):20.30475625):7.24968375):0.68055077):12.68401923):0.61452941,69:62.24353941):19.2651354); END; END; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1594891945193; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 5654699767720727635; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 4042136134808772975; mqVersion 360; checksumv 0 3 1650985582 null getNumChars 1 numChars 1 getNumTaxa 102 numTaxa 102 short true bits 2305843009213693959 states 7 sumSquaresStatesOnly 901.0 sumSquares -6.917529027641082E19 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 1540 776; setLocation -9 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #5654699767720727635 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; setTreeBlockID 01612dfd4d9f3; toggleUseWeights off; endTell; setAssignedID 1516.1517234694784.934222018455811348; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1440 704; setLocation -9 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; 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 off; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; setSelectedTaxonHighlightMode 1; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setFontSize 14; setColor Black; setTaxonNameStyler #mesquite.trees.ColorTaxonByAssigned.ColorTaxonByAssigned; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setTree '((((((((95:95,92:26):3,91:29):14,84:43):55,(82:38.5,81:3.5):3.5):4,(80:10,96:5):38):4,((((((((((((((((((((((39:4.3375,38:4.3375):2.47005333,(100:5.14544,(37:3.48333333,36:3.48333333):1.66211):1.66211):0.50744667,(41:1.9725,40:1.9725):5.3425):0.405,35:7.720000000000001):0.0000000001,42:7.72):1.11,43:8.83):0.24,((((48:4.35333333,47:4.35333334):2.44666666,49:6.8):0.52,50:7.32):1.75,((45:3.8366933299999997,44:3.83669333):4.663306670000001,46:8.5):0.5700000000000001):0.000000001):1.79336667,((53:7.825,52:7.825):1.8325,51:9.6575):1.20586667):0.66666667,(101:5.765016665,54:5.765016665):5.765016665):12.40943052,(((33:6.306666669999999,32:6.30666667):7.29933333,34:13.606):5.36828571,31:18.974285709999997):4.96517813):6.43887692,55:30.37834077):17.2172259,56:47.59556667):0.0000001,(58:23.67511667,57:23.67511667):23.92045):0.66887333,((((((63:3.614,62:3.614):11.141000000000002,61:14.755):8.18495167,60:22.93995167):9.97614833,((65:10.9,64:10.9):12.1,66:23):9.9161):7.08594286,59:40.00204286):1.01271339,(68:20.71,67:20.71):20.30475625):7.24968375):0.68055077,((30:11.5,29:11.5):23.509725,28:35.009725):13.93526577):12.68401923,((((((((((18:5.67801667,17:5.67801667):0.74698333,16:6.425):0.695,19:7.12):4.6948633300000004,15:11.81486333):5.25879524,(14:12.36,13:12.36):4.71365857):9.742002589999998,99:26.8156612):9.742002589999998,12:36.55766375):3.38940292,11:39.94706667):17.2309897,((((23:4.59646667,22:4.59646667):3.42293333,24:8.019400000000001):0.41168857,(21:1.89640667,20:1.89640667):6.5346819):16.76891143,(102:12.6,25:12.6):12.6):31.97805636):1.04644545,(27:7.59333333,26:7.59333333):50.63116848):3.40450818):0.61452941,69:62.24353941):19.2651354,(((((((6:7.0727525,5:7.0727525):0.52755,7:7.6003025):3.9996975,8:11.6):0.083558,9:11.683558):5.44254914,10:17.12610714):16.59213186,(4:3.84222333,3:3.84222333):29.87601567):40.489091,(2:22.44389,1:22.44389):51.76344):7.30134481):11.5,(((((71:5,70:9):24,72:29):0.5,73:36):0.5,74:12.5):0.5,75:31):47):3,76:1):2,(78:8,77:8):29):2,79:30):75):14,93:60):3.5,94:37.5):10;'; setDrawingSizeMode 1; toggleLegendFloat off; toggleTextOnTree off; getInfoPanel; tell It; btspOpen true; apOpen true; endTell; toggleInfoPanel on; togglePrintName off; showWindow; newAssistant #mesquite.ancstates.TraceCharacterHistory.TraceCharacterHistory; tell It; suspend ; setDisplayMode #mesquite.ancstates.ShadeStatesOnTree.ShadeStatesOnTree; tell It; toggleLabels off; togglePredictions off; toggleGray off; endTell; setHistorySource #mesquite.ancstates.RecAncestralStates.RecAncestralStates; tell It; getCharacterSource #mesquite.charMatrices.CharSrcCoordObed.CharSrcCoordObed; tell It; setCharacterSource #mesquite.charMatrices.StoredCharacters.StoredCharacters; tell It; setDataSet #4042136134808772975; endTell; endTell; setMethod #mesquite.parsimony.ParsAncestralStates.ParsAncestralStates; tell It; setModelSource #mesquite.parsimony.CurrentParsModels.CurrentParsModels; toggleMPRsMode off; endTell; toggleShowSelectedOnly off; endTell; setCharacter 1; setMapping 1; toggleShowLegend on; setColorMode 0; toggleWeights on; setInitialOffsetX 194; setInitialOffsetY 91; setLegendWidth 142; setLegendHeight 180; resume ; endTell; 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; toggleShow consensusFrequency; toggleShow posteriorProbability; toggleShow bootstrapFrequency; toggleShow consensusFrequency; toggleShow posteriorProbability; toggleShow bootstrapFrequency; setDigits 4; setThreshold ?; 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 #4042136134808772975 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1440 704; setLocation -9 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; colorCells #mesquite.charMatrices.NoColor.NoColor; 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 on; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames on; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; togglePaleMissing off; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; endTell; getEmployee #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; 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.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell; endTell; endTell; endTell; end;