#NEXUS [written Fri May 16 16:49:47 SGT 2014 by Mesquite version 2.75 (build 566) at Simba.local/192.168.1.5 (William Piel)] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=27; TAXLABELS Anticlea_vaginata_Reflection Anticlea_vaginata_Ribbon Anticlea_vaginata_Sipapu Anticlea_vaginata_Kachina Anticlea_vaginata_JohnCan Anticlea_vaginata_Kolob Anticlea_vaginata_Labyrinth Anticlea_vaginata_Bull Anticlea_vaginata_Courthouse Anticlea_vaginata_Delicate Anticlea_vaginata_Junction Anticlea_vaginata_Refuge Anticlea_vaginata_Canyonlands Anticlea_vaginata_Inscription Anticlea_vaginata_SurpriseValley Anticlea_elegans_La_Sal Anticlea_elegans_Abajo Anticlea_elegans_Modred Anticlea_elegans_Dixie Anticlea_elegans_West_Fork Anticlea_elegans_Blue_Ridge Anticlea_elegans_Chuska Anticlea_elegans_Uintah Anticlea_elegans_Hades Anticlea_virescens_ANVI_1 Anticlea_virescens_Alpine Anticlea_mogollonensis_ANMO1 ; END; BEGIN CHARACTERS; TITLE GD_pop_distances; DIMENSIONS NCHAR=27; FORMAT DATATYPE = CONTINUOUS GAP = - MISSING = ?; CHARSTATELABELS 1 Anticlea_vaginata_Reflection, 2 Anticlea_vaginata_Ribbon, 3 Sipapu, 4 Kachina, 5 JohnCan, 6 Kolob, 7 Labyrinth, 8 Bull, 9 Courthouse, 10 Delicate, 11 Junction, 12 Refuge, 13 Canyonlands, 14 Inscription, 15 SurpriseValley, 16 La_Sal, 17 Abajo, 18 Modred, 19 Dixie, 20 West_Fork, 21 Blue_Ridge, 22 Chuska, 23 Uintah, 24 Hades, 25 ANVI_1, 26 ANVIalpine, 27 ANMO1 ; MATRIX Anticlea_vaginata_Reflection 25.67619 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Ribbon 37.40889 29.90476 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Sipapu 67.99111 68.37778 56.55238 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Kachina 61.46667 64.80444 59.61778 54.19048 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_JohnCan 45.10667 56.43555 59.80889 53.12444 28.49524 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Kolob 49.9381 56.27143 62.71905 57.41429 43.5 27.52747 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Labyrinth 47.88445 58.57333 63.05778 55.44 41.16889 43.95714 36.11428 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Bull 50.56445 62.77333 63.45333 52.06667 40.07111 45.1381 40.2 27.18095 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Courthouse 48.28571 58.51429 61.10476 53.01905 43.8 48.0 43.23809 39.6381 30.04396 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Delicate 50.83556 62.98222 62.58667 50.4 41.78222 48.43333 42.02667 34.09333 31.42857 26.07619 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Junction 50.34667 60.35111 59.79556 52.32 46.05778 51.76667 46.95111 42.06667 41.17143 38.28444 36.22857 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Refuge 49.88 54.87111 64.76 56.21778 49.34222 54.47143 49.24889 46.23111 45.52381 45.84444 46.68 33.46667 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Canyonlands 50.32444 59.45778 59.92445 53.89778 44.14222 51.58571 46.75111 46.04445 39.97143 39.76445 40.47556 51.75111 31.73333 ? ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_Inscription 47.38667 53.39111 62.4 57.06667 46.92 50.99524 46.49778 46.67111 39.92381 42.68444 48.20444 46.90222 46.57333 28.19048 ? ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_vaginata_SurpriseValley 51.4 57.68 57.57778 53.35556 49.01333 51.70952 51.22222 48.05333 45.57143 44.58222 42.00444 54.33778 43.75111 51.39111 31.73333 ? ? ? ? ? ? ? ? ? ? ? ? Anticlea_elegans_La_Sal 63.15556 67.49778 63.70667 62.98667 54.66222 59.15714 58.26667 58.51111 59.54286 58.65778 57.10222 61.72 54.90222 60.34667 58.92889 54.3619 ? ? ? ? ? ? ? ? ? ? ? Anticlea_elegans_Abajo 48.88205 60.21025 61.65128 54.01026 38.8359 45.07143 40.99487 43.65641 45.28571 42.53333 47.54872 50.91795 46.21025 46.11282 49.67692 54.22564 32.61538 ? ? ? ? ? ? ? ? ? ? Anticlea_elegans_Modred 50.53333 56.52222 56.26667 54.88889 45.31111 49.46429 48.1 46.96667 42.45238 42.45555 42.43333 50.36666 40.57778 47.9 45.62222 51.05556 46.07692 30.15152 ? ? ? ? ? ? ? ? ? Anticlea_elegans_Dixie 51.33778 57.49333 64.17333 59.18667 46.11555 44.7 47.35556 50.36444 48.70476 49.40889 53.74667 55.78667 50.96889 48.62667 54.86222 60.34222 45.82051 53.52222 32.99047 ? ? ? ? ? ? ? ? Anticlea_elegans_West_Fork 55.90667 63.52889 72.06667 69.40889 53.27111 51.3 54.43111 56.24889 55.89524 58.83111 60.79556 59.84889 59.86666 53.50667 64.70222 66.38667 55.5641 54.44444 60.32889 34.28571 ? ? ? ? ? ? ? Anticlea_elegans_Blue_Ridge 54.23111 63.98667 71.77778 65.99111 50.61778 49.99524 52.16 52.00444 53.31429 54.83556 57.27111 58.66222 56.28889 52.99556 61.05333 65.79556 52.15385 53.88889 57.8 43.79111 37.90476 ? ? ? ? ? ? Anticlea_elegans_Chuska 53.99556 62.28444 57.53333 53.03556 44.08889 49.29048 45.22222 43.47556 45.68571 43.64 43.02667 51.28 41.75111 47.24 46.37333 50.21778 42.41539 41.4 51.50222 55.89333 52.85778 36.93333 ? ? ? ? ? Anticlea_elegans_Uintah 49.40889 57.35111 62.64444 56.81333 41.83111 43.87143 40.24445 45.48444 47.8 47.41778 51.42667 52.98667 49.89333 46.60889 54.56 57.14222 40.17949 49.17778 43.84 54.50667 52.20889 46.40889 37.08571 ? ? ? ? Anticlea_elegans_Hades 50.15111 55.16 62.04445 59.92889 49.05333 48.8619 47.95555 52.22667 50.15238 52.99556 54.23111 53.28444 53.76445 47.52 55.66667 60.86222 46.54359 49.46667 49.59555 54.55556 54.73778 50.84 45.72 39.86666 ? ? ? Anticlea_virescens_ANVI_1 62.53778 68.26667 70.48444 69.04444 58.51556 59.91905 60.05778 60.84444 60.72381 61.51556 60.68889 64.80889 57.34222 60.27111 62.03556 66.15556 59.65641 52.52222 65.56445 55.54667 56.29778 54.88 59.76889 61.05333 40.76191 ? ? Anticlea_virescens_Alpine 68.71555 71.58222 67.01778 67.8 62.86222 63.57619 63.11555 66.48889 64.06667 64.14667 61.94222 72.19556 59.52889 64.84 57.78667 70.35111 62.34359 57.84444 68.81778 67.61777 65.40889 58.22222 64.47111 64.63556 53.57333 43.94286 ? Anticlea_mogollonensis_ANMO1 61.37778 66.46667 68.82667 66.16889 53.91555 57.22381 56.48889 56.71556 55.45714 55.49333 56.77333 61.08889 52.52 55.77778 57.04445 63.12889 56.34872 48.36666 61.65778 55.18667 54.95111 51.19556 57.86222 58.70222 45.56889 54.78667 33.10476 ; END; BEGIN TREES; Title GD_pop_NJ_results; LINK Taxa = Taxa; TRANSLATE 1 Anticlea_vaginata_Reflection, 2 Anticlea_vaginata_Ribbon, 3 Anticlea_vaginata_Sipapu, 4 Anticlea_vaginata_Kachina, 5 Anticlea_vaginata_JohnCan, 6 Anticlea_vaginata_Kolob, 7 Anticlea_vaginata_Labyrinth, 8 Anticlea_vaginata_Bull, 9 Anticlea_vaginata_Courthouse, 10 Anticlea_vaginata_Delicate, 11 Anticlea_vaginata_Junction, 12 Anticlea_vaginata_Refuge, 13 Anticlea_vaginata_Canyonlands, 14 Anticlea_vaginata_Inscription, 15 Anticlea_vaginata_SurpriseValley, 16 Anticlea_elegans_La_Sal, 17 Anticlea_elegans_Abajo, 18 Anticlea_elegans_Modred, 19 Anticlea_elegans_Dixie, 20 Anticlea_elegans_West_Fork, 21 Anticlea_elegans_Blue_Ridge, 22 Anticlea_elegans_Chuska, 23 Anticlea_elegans_Uintah, 24 Anticlea_elegans_Hades, 25 Anticlea_virescens_ANVI_1, 26 Anticlea_virescens_Alpine, 27 Anticlea_mogollonensis_ANMO1; TREE Imported_tree_0 = ((26:29.59575176,(25:24.39006167,27:21.17882833):1.79980324):2.953285955,((20:22.93909011,21:20.85201989):6.11231684,(((3:32.55399475,4:27.06378525):3.3330652,((16:30.54563396,22:19.67214604):1.02982153,(18:20.42353968,(13:20.13005436,(11:19.69771914,15:22.30672086):0.98106064):0.82257032):0.74490034):0.47693574):1.54936773,((24:24.63685917,(14:21.67688482,(12:24.97840122,(1:15.0406438,2:22.3682462):8.69270878):0.78089268):1.28536208):0.64466214,((23:20.16675593,(6:21.31612066,19:23.38387934):1.33895907):0.84615224,((5:19.30386074,17:19.53203926):0.73863368,(7:19.47155808,(8:18.74321667,(9:15.88119369,10:15.54737631):2.40821333):3.51177442):0.97978007):0.41698808):1.30416027):0.73415938):2.94962465):2.953285955)[% ] [% ] [% setBetweenBits = selected ]; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = Squared: 1 - 27; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = Brownian_default: 1 - 27; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1400230187896; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 728735040033321909; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3485785746435534122; mqVersion 275; checksumv 0 3 743681147 null numChars 27 numItems 1 min 25.67619 max 72.19556 sumSquares 1072814.4952126497 NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 292; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1223 639; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #728735040033321909 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1617.1400230162197.3490395446640265193; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 931 572; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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 off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; 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; 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 #3485785746435534122 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 170; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 931 572; setLocation 0 22; 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; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; 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.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.cont.ItemsEditorForInfoPanel.ItemsEditorForInfoPanel; tell It; panelOpen false; endTell; endTell; endTell; endTell; end; BEGIN DISTANCES; DIMENSIONS NTAX = 27; FORMAT TRIANGLE = LOWER DIAGONAL LABELS; MATRIX Reflection 25.67619 Ribbon 37.40889 29.90476 Sipapu 67.99111 68.37778 56.55238 Kachina 61.46667 64.80444 59.61778 54.19048 JohnCan 45.10667 56.43555 59.80889 53.12444 28.49524 Kolob 49.9381 56.27143 62.71905 57.41429 43.5 27.52747 Labyrinth 47.88445 58.57333 63.05778 55.44 41.16889 43.95714 36.11428 Bull 50.56445 62.77333 63.45333 52.06667 40.07111 45.1381 40.2 27.18095 Courthouse 48.28571 58.51429 61.10476 53.01905 43.8 48 43.23809 39.6381 30.04396 Delicate 50.83556 62.98222 62.58667 50.4 41.78222 48.43333 42.02667 34.09333 31.42857 26.07619 Junction 50.34667 60.35111 59.79556 52.32 46.05778 51.76667 46.95111 42.06667 41.17143 38.28444 36.22857 Refuge 49.88 54.87111 64.76 56.21778 49.34222 54.47143 49.24889 46.23111 45.52381 45.84444 46.68 33.46667 Canyonlands 50.32444 59.45778 59.92445 53.89778 44.14222 51.58571 46.75111 46.04445 39.97143 39.76445 40.47556 51.75111 31.73333 Inscription 47.38667 53.39111 62.4 57.06667 46.92 50.99524 46.49778 46.67111 39.92381 42.68444 48.20444 46.90222 46.57333 28.19048 SurpriseValley 51.4 57.68 57.57778 53.35556 49.01333 51.70952 51.22222 48.05333 45.57143 44.58222 42.00444 54.33778 43.75111 51.39111 31.73333 La_Sal 63.15556 67.49778 63.70667 62.98667 54.66222 59.15714 58.26667 58.51111 59.54286 58.65778 57.10222 61.72 54.90222 60.34667 58.92889 54.3619 Abajo 48.88205 60.21025 61.65128 54.01026 38.8359 45.07143 40.99487 43.65641 45.28571 42.53333 47.54872 50.91795 46.21025 46.11282 49.67692 54.22564 32.61538 Modred 50.53333 56.52222 56.26667 54.88889 45.31111 49.46429 48.1 46.96667 42.45238 42.45555 42.43333 50.36666 40.57778 47.9 45.62222 51.05556 46.07692 30.15152 Dixie 51.33778 57.49333 64.17333 59.18667 46.11555 44.7 47.35556 50.36444 48.70476 49.40889 53.74667 55.78667 50.96889 48.62667 54.86222 60.34222 45.82051 53.52222 32.99047 West_Fork 55.90667 63.52889 72.06667 69.40889 53.27111 51.3 54.43111 56.24889 55.89524 58.83111 60.79556 59.84889 59.86666 53.50667 64.70222 66.38667 55.5641 54.44444 60.32889 34.28571 Blue_Ridge 54.23111 63.98667 71.77778 65.99111 50.61778 49.99524 52.16 52.00444 53.31429 54.83556 57.27111 58.66222 56.28889 52.99556 61.05333 65.79556 52.15385 53.88889 57.8 43.79111 37.90476 Chuska 53.99556 62.28444 57.53333 53.03556 44.08889 49.29048 45.22222 43.47556 45.68571 43.64 43.02667 51.28 41.75111 47.24 46.37333 50.21778 42.41539 41.4 51.50222 55.89333 52.85778 36.93333 Uintah 49.40889 57.35111 62.64444 56.81333 41.83111 43.87143 40.24445 45.48444 47.8 47.41778 51.42667 52.98667 49.89333 46.60889 54.56 57.14222 40.17949 49.17778 43.84 54.50667 52.20889 46.40889 37.08571 Hades 50.15111 55.16 62.04445 59.92889 49.05333 48.8619 47.95555 52.22667 50.15238 52.99556 54.23111 53.28444 53.76445 47.52 55.66667 60.86222 46.54359 49.46667 49.59555 54.55556 54.73778 50.84 45.72 39.86666 ANVI_1 62.53778 68.26667 70.48444 69.04444 58.51556 59.91905 60.05778 60.84444 60.72381 61.51556 60.68889 64.80889 57.34222 60.27111 62.03556 66.15556 59.65641 52.52222 65.56445 55.54667 56.29778 54.88 59.76889 61.05333 40.76191 ANVIalpine 68.71555 71.58222 67.01778 67.8 62.86222 63.57619 63.11555 66.48889 64.06667 64.14667 61.94222 72.19556 59.52889 64.84 57.78667 70.35111 62.34359 57.84444 68.81778 67.61777 65.40889 58.22222 64.47111 64.63556 53.57333 43.94286 ANMO1 61.37778 66.46667 68.82667 66.16889 53.91555 57.22381 56.48889 56.71556 55.45714 55.49333 56.77333 61.08889 52.52 55.77778 57.04445 63.12889 56.34872 48.36666 61.65778 55.18667 54.95111 51.19556 57.86222 58.70222 45.56889 54.78667 33.10476 ; END;