#NEXUS [written Tue Jun 05 17:24:51 CEST 2018 by Mesquite version 3.40 (build 877) at Marks-MacBook-Pro-2.local/169.254.150.59] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=44; TAXLABELS Seymouria Limnoscelis Orobates Eothyris Archaeovenator Captorhinus Rhiodenticulatus Petrolacosaurus Youngina Acerosodontosaurus Mesosaurus Eunotosaurus Milleretta Australothyris Microleter Nyctiphruretus Eudibamus Belebey Macroleter Bradysaurus Pareiasuchus Scutosaurus Procolophon Owenetta Barasaurus Bashkyroleter_mesensis Bashkyroleter_bashkyricus Nycteroleter Emeroleter Rhipaeosaurus Lanthanosuchus Acleistorhinus Feeserpeton Colobomycter_pholeter Colobomycter_vaughni Delorhynchus Abyssomedon Erpetonyx Bolosaurus Ruhuhuaria Sclerosaurus Hypsognathus Leptopleuron Anomoiodon ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "MacDougall et al. matrix.nex"'; DIMENSIONS NCHAR=170; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3"; CHARSTATELABELS 1 narial_shelf, 2 narial_shelf_composition, 3 frontal_orbital_contact, 4 frontal_contribution_to_orbit, 5 'frontal lateral lappet (7)', 6 pineal_foramen_position, 7 postparietal, 8 postparietal_number, 9 postparietal_size, 10 postparietal_position, 11 'prefrontal-palatal contact', 12 'strength of prefrontal-palatal contact', 13 prefrontal_medial_flange, 14 prefrontal_orbital_spur, 15 lacrimal_narial_contact, 16 foramen_orbitonasale, 17 foramen_orbitonasale_contributing_elements_, 18 jugal_anterior_process, 19 Jugal_suborbital_ramus, 20 Jugal_contribution_to_temporal_region_of_skull_roof, 21 'postorbital post process shape (14)', 22 'po-st contact', 23 skull_roof_corner, 24 tabular, 25 tabular_size, 26 supratemporal, 27 supratemporal_size, 28 'premaxillary dorsal process (1)', 29 maxilla_antdor_process, 30 ant_lat_max_foramen_size, 31 'max-quadratojugal contact', 32 Suture_between_jugal_and_maxilla, 33 contact_between_maxilla_and_prefrontal, 34 contribution_of_maxilla_to_naris, 35 heterodont_dentition_on_max, 36 heterodont_dentition_on_dentary, 37 #_of_enlarged_teeth_on_max, 38 'sq-PTF contact', 39 quadratojugal_shape, 40 quadratojugal_ant._extent, 41 quadratojugal_ornamentation, 42 upper_temporal_opening, 43 lower_temporal_opening, 44 fenestra_or_emargination, 45 'l. temp. opening/po contribution (20)', 46 'l. temp. opening/qj contribution (16)', 47 region_posterior_to_orbit_length, 48 po_region_ventral_margin, 49 quadrate_lateral_exposure, 50 quadrate_anterior_process, 51 quadrate_condyle_shape, 52 jaw_articulation_position, 53 po_extension_of_orbit, 54 dermal_sculpturing, 55 dermal_sculpturing_type, 56 tuburcles_morphology, 57 dorsal_dermal_ossifications, 58 posterior_skull_margin_form, 59 Temporal_notch, 60 Temporal_depression, 61 'interpterygoid/palatine relation', 62 interpterygoid_vacuity_shape, 63 choana_orientation, 64 alar_flange, 65 pterygoid_arcuate_flange, 66 'cranio-quadrate space', 67 pterygoid_anterior_extent, 68 tr._fl._size, 69 transverse_flange_orientation, 70 transverse_flange_teeth, 71 trnasverse_flange_teeth_type, 72 dentition_on_quadrate_flange_of_pterygoid, 73 'quad.ram.pterygoid prox. shape (29)', 74 quadrate_ramus_and_transverse_flange_relationship, 75 pterygoid_pocket, 76 ectopterygoid, 77 ectopterygoid_teeth, 78 ectoptergoid_cont._to_trans._flange, 79 suborbital_opening, 80 basicranial_articulation_mobility, 81 'basicranial articulation (36)', 82 parasphenoid_pockets, 83 #_of_parasphenoid_pockets, 84 parasphenoid_wings, 85 cultriform_process, 86 cultriform_process_length, 87 parasphenoid_teeth, 88 parasphenoid_teeth_organization, 89 supraoccipital_form, 90 paroccipital_process, 91 'paroccipital process orientation ? (44)', 92 'pop-skull roof contact', 93 otic_trough, 94 inner_ear_medial_wall, 95 'post-temporal opening', 96 'post-temporal opening size', 97 'basisph-basiocc contact', 98 bo_condyle_shape, 99 'basioccipital/parasph. ventral exp(37)', 100 ventral_braincase_tubera, 101 ventral_braincase_tubera_location, 102 exoccipital_lateral_flange, 103 stapes_morphology, 104 stapedial_dorsal_process, 105 marginal_dentition, 106 foramen_intermandibularis, 107 posterior_intermandibular_foramen_position, 108 meckelian_fossa_orientation, 109 fossa_meckelii, 110 surangular_length, 111 surangular_accessory_shelf, 112 paired_surangular_foramina, 113 coronoid_number, 114 prearticular_length, 115 retroarticular_process, 116 retroarticular_process_size, 117 retroarticular_process_form, 118 articular_lateral_shelf, 119 coronoid_process_size, 120 coronoid_process_makeup, 121 splenial, 122 presacral_vertebral_count, 123 axial_centrum_orientation, 124 atlantal_epipophysis_Modest_1999, 125 axial_intercentrum, 126 'atlas pc-axial ic fusion', 127 trunk_neural_arches, 128 anterior_pc_ventral_surface, 129 sacral_vertebral_number, 130 sacral_rib_overlap, 131 caudal_tr_processes_vs_ribs, 132 caudal_ribs_form, 133 caudal_hemal_arches, 134 interclavicle_morphology, 135 'interclavicle-clavicle contact', 136 cleithrum, 137 cleithrum_relation_to_scapula, 138 scapula_shape, 139 supraglenoid_foramen, 140 glenoid_morphology, 141 acromion, 142 sternum_mineralization, 143 supinator_process_orientation, 144 parallel_supinator_process_form, 145 ectepicondylar_morphology, 146 entepicondylar_foramen, 147 humerus_morphology, 148 olecranon_process, 149 olecranon_process_size, 150 manual_phalangeal_formula, 151 iliac_dorsolateral_shelf, 152 iliac_blade, 153 acetabular_buttress, 154 femoral_oblique_ventral_ridge, 155 femoral_proximal_articulation, 156 femur_greater_trochanter, 157 femoral_shaft, 158 astragalus, 159 astragalus_composition, 160 'tibio-astragalar joint', 161 astragalus_and_calcaneum, 162 medial_centrale_pedis, 163 distal_tarsal_number, 164 metapodials, 165 pedal_phalangeal_formula, 166 metatarsal_ratios, 167 #_of_maxillary_teeth, 168 #_of_premaxillary_teeth, 169 Single_enlarged_anterior_vomerine_tooth, 170 Bulbousness_of_marginal_dentition ; MATRIX Seymouria 0-0-000000100000-00000000000000000011000000---000000012000000000100000000000000001-0000--310000-0000-00100-000000000000-00000000000000000000000-00001000000000---???001200 Limnoscelis 0-0-0101010-0000-1001110000000100010-010000---20000100-0011?000000000020000000000010000-00001?0-0000-0??010100000000000-000011001001?0000000000-001000100000010??0??001100 Orobates 0-0-010101??0?0??000101000000010001?-010000---00110101010200001?00001000000000000??0000-0001110-0????0??0??001001001000-000011001000???000???00-00100011000000---010000000 Eothyris 0-100000010-0000-000001010000000000110100010002001?100-0021?????0??00010001????001-0????00000?100?0??0??0????100??00000-0?????????????????????????????????????????????00?0 Archaeovenator 0-110000010-0000-0000010100000?00011-?1?00100?01???100-0021?????0??00010000010?001-0??0-00??????0??11???0??000001001000-?00000101001000??01000????????000000011001000011?0 Captorhinus 0-1102000110000101001021-010001000000101000---0101010120021?0000100000000001--100001000-02000?110100-00001000000101--00-00100100100100001000001130000000000001100100002100 Rhiodenticulatus 0-1102000110000101001021-0100010000?0101000---21010000-0021?0000100010000001--?00001000-02000?110100-00001000??0??1--0??00????00??01000010000011300???00000001100?????2000 Petrolacosaurus 0-11000001??0????1001121-0100010000111??0110010??10?00-00?1?00?01??00000000010?0000100110000??110100-0000??00000101--00-00100101100000001000011000200000001011110111012100 Youngina 0-110000010-0010-1100020101?1010100?110101100101110100-0011?00001000001?000011100001000-02000?110100-0110????1001?????0-?0?00?11101?01001010011100201?01110011110101011000 Acerosodontosaurus ??110????????????1100???????1011??11-?????1001??????00-00???????????????????????????????????????????????0??????00?00000-??????111???0??0??????1110?1-0011100??????????2??0 Mesosaurus 0-11001---0-001??0101010100000000011-100000---11000100-0011?00001?0000100001--?00011000-0000??11?100-?000??--0001?01100-?011010010011000101000101021-000011011100100001200 Eunotosaurus ??10020001???????0??1110100?1?1??01?-1110011001210?2010001??00?????00010?001--?00000000-0100??????0???010????0?0??1--?0-?1????1011???00??1100010100??0010?0001100100001000 Milleretta 0-1101000110001110100110100001100011-0110010001110020100011?0000000000100000101001-10010000000111100-00100-010001000000-0010011011???00010100010100??001??001110010???0000 Australothyris ?????001011?00?110?00110100?01000?11-?100010011101120100?000100000100010101010?001-0011000000?10?000-0000??00000?10000??0????????????00???????????????????????????????2100 Microleter 101?00011110100??010111??00?11100011-?11001101120?020120?000??0?0??01???1??????00????????00?????????????0??00100?000000-??????????????????????????????????????????????2??0 Nyctiphruretus 111101011011101110111110100111101011-0100011111200121100000?0011011010101010101001-1010-110???11?100-0??0???11111001100-10????012111?11??100001000001?01000011110000?01100 Eudibamus 0-110?????1110???0?01-2??1-111????11-1?00010111?00?0?0-000?????????121-?1??01??00001??0-??0??????01?????011??????11--?1100???0000?00?11??01?0010312???101011111001000100?0 Belebey 0-1101001111100110001-2001-111000011-10000101111000110-0001?10000?1121-0100010000001000-??00????0????0??01101100111--0111?????00?????????0????10??????00????1?????????0001 Macroleter 0-110201111110111100111010011100000?10011010110100?11111010010110100001000101?1100011-0-110101110100-121011111101100?0??1011010021???110111?001020001?01100011101110?01100 Bradysaurus 0-0-02011010000??1001111-001111?0011-000100---000012011111101111011010101010101101-1010-110101110100-1?01??111001101?11001?1000021121110111?10112010120110000110111?201100 Pareiasuchus 0-0-02011010000??10011101001111?0011-000100---00001201111110111101101010?010101101-1010-11010?11?100-1??211111001101?11001????002??2?1?1-11110??211012011001011011????0000 Scutosaurus 0-0-02011010000??1001110100111000011-000100---000012011111101111011010101010101101-1010-110101110100-101211111001101?11001?10000?112?1?1-11110112010120110010110111?200000 Procolophon 1110021---11111111011111-00111110011-01010111112001210-000000100011011-01110111001-0010-1101001111010011011111101101101010110?0121010111-11100110000100110?01110011?100010 Owenetta 101002001011111??1111111-00111100011-01000111112000210-000000000011011-01100111001-1010-11010?11?10100??011111001101101010??0?012100?1?0111?0010?1201?011??01??0?1????1100 Barasaurus 1010020010??110??0111111-00111100011-01000111112000210-001000000011011-0?100111001-1010-1101??11?10100??0????????????????0110?012100?1101111001001201001?0001???11??001100 Bashkyroleter_mesensis 0-100001?11110111000111010011111?11?-011100---01001?1110?101101101000010000010?101-11-0-??01??11????????0??111101100??????????????????????????????????????????????????1100 Bashkyroleter_bashkyricus 0-1102???111101110001110100?1??1?01?-0??100---000?1?1110?00110?101?0001?1?????110??11-0-??01????????????0??111101100??????????????????????????????????????????????????1100 Nycteroleter 0-1000000111101110001110100111100011-0?1?00-??0000111110010110??0?00001?1?????1101-11-0-???????????0-???0??11110??00????1?????????????????????????????????????????????1100 Emeroleter 0-1102???11110111010111010011100011?-?11100---0100111110010110??0??0001?0?????1101-11-0-?????????1?0-1??0????110??00?????0????002??????011??10??00201001???011101011001100 Rhipaeosaurus ???????????????????????????????????????????????????????????????????0001?0?????1?01-1??0-??????????00-???1????110??000????0????0011?????1-1?10?1000000?0111001110101000???? Lanthanosuchus 0-1010010110001??100111010011?10001?-1111010010100100111?11?000001100010111011011001011121010?100010-1??0?????????????????????0??????11??0????????????????????????????2200 Acleistorhinus 0-10100101????1??010111010011100101?-1110010110100120100?11?000001000010111010111001011021110?110010-0000????1?0?10000??1?????????????????????????????????????????????1110 Feeserpeton ??1110010110100110?11111-00?110?000011100010011100120101?11??00?01?00011111010?001-1??10211?0?11?110-0000????110?10000??1?????????????????????????????????????????????0?10 Colobomycter_pholeter 111010001110101??0101111-0?11101100?1?100010010101?10110?11?10000?100021111010????????10????????????????0??00?00??0100??1?????????????????????????????????????????????0010 Colobomycter_vaughni ??101?????????0??0101??1-???11?010001?100010?1??????0110????????????????????????????????????????????????0????100??????????????????????????????????????????????????????10?0 Delorhynchus 111000001110101110001110100111001111-1110010000100120101?01?1000010000011110001001-10110?1???????????000021001100101000-1?100111????110??0000010102???????????????????1110 Abyssomedon ??1?01??????10?11011???????11110??11-?????11?????????1000??????????????????01????1-10010????????????????0????101???????????????????????0?????????????????????1110??????1?0 Erpetonyx ??110?0011??00????????10100?1????11?????0???????0?1?????0?????0????001??????????????00??00???????????0??0???000???0???0?10?0??1?21000??01???????2021??00000111100???000??0 Bolosaurus 0-11010011????0??1001??011-111100011-?000010111101?100-000??10?????????0???????00??000??????????????????0??01???1?????1?0?????00?????????????????02????0????1?????????00?1 Ruhuhuaria ??110?????????????011???????11??0?11-?????111??2????10-00???????????????????????????????????????????????0??1??????????????????????????????????????????????????????????1??0 Sclerosaurus ?????2????????????01????????1??1??11-???1????????????0-01???????????????????????????????????????????????0110??????0??????0????01210?011??11?001?3?001001100011101???2?00?0 Hypsognathus 1011021---1111111101??11-00011110011-?10101111120?1210-000000??001?001-011?011?001-1010-1101??11010100??011??1?01101101?10????01?????????1???0????2???????????????????00?0 Leptopleuron 1011021---????1111011011-00111110011-?1010111112001210-0000011?001?001-011?0111001-1010-11010?11010100110??011101?011?10101100012101011??101?01100001??1?00011?01??0?00010 Anomoiodon ??1?021---??1????1?1??11-0011????011-?1000????120??210-0000011?????00???????????????????????????????????0????1?01?????10??????01?????????????0??00001????0?011??1?????0?00 ; 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SU T = 34 C = 138 N = color I = 4; SU T = 36 C = 138 N = color I = 4; SU T = 37 C = 138 N = color I = 4; TEXT TAXON = 38 CHARACTER = 150 TEXT = 'changed to ? from 0/1 by SPM'; TEXT TAXON = 38 CHARACTER = 167 TEXT = changed_to_0_by_Mark; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1528212291954; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 9121736718771676091; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3853885598231315146; mqVersion 340; checksumv 0 3 1522056876 null getNumChars 170 numChars 170 getNumTaxa 44 numTaxa 44 short true bits 15 states 15 sumSquaresStatesOnly 12613.0 sumSquares 12613.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 98; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1365 745; setLocation 272 201; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #9121736718771676091 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSourceEditMode #mesquite.trees.StoredTrees.StoredTrees; tell It; laxMode; setTreeBlock -2147483647; toggleUseWeights off; endTell; setAssignedID 983.1519819250536.8454014680334544461; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1267 673; setLocation 272 201; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; endTell; 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; setTree '(1,((2,3),(4,(5,(((6,7),(8,(10,9))),(11,((12,13),((38,(17,(18,39))),(14,((((32,31),(36,(35,34))),33),(15,((16,37),((((25,24),(41,23)),40),((20,(21,22)),(27,26,19,28,30,29)))))))))))))));'; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; showWindow; endTell; setEditMode 'Edited, based on Untitled Tree+ [Stored Trees]'; desuppressEPCResponseNORESET; 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 #3853885598231315146 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 110; columnWidth 109 21; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1267 673; setLocation 272 201; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setActive; 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; 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;