#NEXUS [written Mon Feb 18 13:44:51 CET 2019 by Mesquite version 3.51 (build 898) at geosmac15.unifr.ch/134.21.31.159] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=36; TAXLABELS Kayentachelys_aprix Pleurosternon_bullockii Glyptops_plicatulus Arundelemys_dardeni Hayemys_latifrons Neurankylus_baueri Neurankylus_exemius Neurankylus_lithographicus Neurankylus_torrejonensis Trinitichelys_hiatti Scabremys_ornata Thescelus_insiliens Baena_arenosa '"Baena" affinis' '"Baena" escavada' '"Baena" hayi' Boremys_grandis Boremys_pulchra Chisternon_undatum Denazinemys_nodosa Eubaena_cephalica Eubaena_hatcheri Stygiochelys_estesi Cedrobaena_brinkman Cedrobaena_putorius Gammerabaena_sonsalla Goleremys_mckennai Palatobaena_bairdi Palatobaena_cohen Palatobaena_gaffneyi Plesiobaena_antiqua Turtle_Graveyard Saxochelys_gilberti Arvinachelys_goldeni Lakotemys_australodakotensis Protobaena_wyomingensis_ ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "palato 9-26-08paup.nex"'; DIMENSIONS NCHAR=69; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3"; CHARSTATELABELS 1 skull_shape_in_dorsal_view / much_wider_than_long as_wide_as_long much_longer_than_wide, 2 sculptured_skull / 'absent_(may_have_crenulations,_but_sculpturing_not_similar_to_that_found_on_shell)' 'knobs_(similar_to_that_found_on_the_shell,_where_known)', 3 snout_shape / rectangular_snout pointed_snout, 4 preorbital_length / short long, 5 orbit_shape / circular 'posterior_notch_(not_perfect_circle)', 6 size_of_orbit / notably_small normal notably_large, 7 maxillary_hight_below_orbit / notably_gracile normal notably_tall, 8 orbit_inset_into_maxilla / no yes, 9 orientation_of_orbit / laterally dorsally, 10 Cheek_emargination / no_emargination minor_emargination deep, 11 upper_temporal_emargination / absent 'present, but shallow' deep, 12 size_of_tympanum / notably_small normal 'notably large, relative to orbit', 13 Size_of_the_external_narial_opening / 'small,_significantly_smaller_than_the_orbit' 'large,_approximately_the_same_size_as_the_orbit', 14 orientation_of_external_nares / anteriorly anterodorsally, 15 '*lingual ridge' / complete 'reduced,_anteriorly_only' absent, 16 Hooked_premaxilla / absent present, 17 shape_of_triturating_surface / lingual_and_labial_margins_more_or_less_parallel 'lingual_and_labial_margins_diverge_posteriorly,_triturating_surface_greatly_expanded_posteriorly', 18 angle_between_maxillae / acute_angle obtuse_angle, 19 'intermaxillary arch/ tongue groove' / broad narrow, 20 sulcus_around_external_narial_opening / no present, 21 '*nasal size' / large reduced absent, 22 '*prefrontal exposure on skull roof' / large reduced_to_absent, 23 frontal_maxilla_contact / absent present, 24 '*jugal contribution to orbit' / large small absent, 25 jugal_thickening / absent present, 26 squamosal_parietal_contact / 'present,_upper_temporal_emargination_shallow' 'absent,_upper_temporal_emargination_deep', 27 Parietal_width_versus_length / maximum_combined_width_of_parietals_less_then_their_length maximum_combined_width_of_parietals_greater_than_their_length, 28 posterior_thickening_of_parietal / thins_out_posteriorly does_not_thin_out_posteriorly, 29 so_crest_capped_by_rounded_parietals / absent present, 30 '*supraoccipital exposure between parietals on skull roof' / absent slight_exposure large_exposure, 31 'PMX, praeplanum foramen' / located_entirely_within_premaxillae 'located_within_suture_of_premaxillae,_vomer and/or maxillae', 32 foramen_palatinum_posterius / formed_by_pterygoid_and_palatine formed_entirely_by_palatine, 33 '*midline contact of pterygoid' / large small, 34 pterygoid_basioccipital_contact / poorly_developed well_developed, 35 contribution_of_opisthotic_to_stapedial_foramen / excluded_from_stapedial_foramen enters_stapedial_foramen, 36 Hooked_mandible / absent present, 37 '*splenial' / large reduced absent, 38 tubercle_on_posterolateral_edge_of_dentary / absent present, 39 height_of_dentary / hight 'low, jaw gracile', 40 carapace_length / less_than_50cm greater_than_50cm, 41 shell_sculpturing / smooth_to_slightly_sculptured 'distinct_tubercles_for_sculpturing_"glyptops_like"_sculpturing' knobby long_waves, 42 general_fusion_of_the_shell / no yes, 43 anteriorly_scalloped_shell / absent 'present,_apomorphy_of_Boremys', 44 '*scalloping of posterior rim of carapace' / absent 'present,_but_slight' distinct, 45 costal_fontanelles / absent 'yes,_fenestra_present,_even_in_individuals_where_sutures_are_fused', 46 preneural / absent present, 47 neural_6_contacts / contacts_costals_5_and_6 'contacts_costals_5,_6,_and_7', 48 'number of suprapygals + pygals' / three two one, 49 cervical_scutes / undivided 'divided_(includes_sometimes)', 50 'size of cervical, if only one present' / single_cervical__wider_than_long single_cervical_longer_than_wide, 51 nuchal_scute / absent present, 52 anterior_supernumary_pleural / absent present, 53 posterior_supernumerary_pleural / absent present, 54 supramarginal_scales / absent present, 55 1st_vertebral_scute / wide_anteriorly_and_narrows_posteriorly wide_posteriorly_and_narrows_anteriorly, 56 '*vertebral III shape' / wider_than_long length_and_width_approximately_equal length_greater_than_width, 57 5th_vertebral_forms_postior_edge_of_shell / no yes, 58 vertebral_V_ / 'vertebra V width = or > vertebral IV width' 'vertebral V width < vertebral IV width', 59 epiplastral_processes / present absent, 60 anterior_plastral_lobe / 'rectangular/trapezoidal' triangular, 61 plastral_lobe_dimensions / posterior_lobe_larger_than_anterior_lobe anterior_lobe_larger_than_posterior_lobe, 62 gulars / 'large, like extragulars' greatly_reduced_relative_to_extragulars absent, 63 medial_contact_of_extragulars / absent present, 64 sigmoidal_extragula_and_humeral_sulcus / absent present, 65 'sigmoidal femoral/anal sulcus' / absent clearly_present, 66 development_of_axillary_buttress / poorly_developed_with_the_buttress_only_weakly_extending_onto_the_costals 'well_developed_with_the_buttress_extending_onto_the_costals_(forming_a_distinct_neck_shield)', 67 extent_of_inguinal_buttress / 'poorly_developed_with_the_buttress_not_extending_onto_the_middle_of_the_costals_(ends_on_the_distal_portion_of_costal)' _well_developed_withthe_buttress_reaching_the_costals, 68 articular_surfaces_on_cervical_vertebrae / 'no,_all_are_amphicoelous' 'yes,_some_vertebrae_are_proceolous_or_ophisthocoelous', 69 distal_caudals / same_length_as_proximal_caudals significantly_longer_than_proximal_caudals ; MATRIX Kayentachelys_aprix 100002000001000000000000000000-000000000000000-000000010010000000000? Pleurosternon_bullockii 2110020001210120000000020000010??01????0100000000000000000?0100000?0? Glyptops_plicatulus 21100200012?01210000000200000?00?0?100101000000100000000000010000000? Arundelemys_dardeni 11{0 1}002000?2?0010000000020?0?0000011?????????????????????????????????? Hayemys_latifrons 10?0??00012110?0?00000??010?0??1010?????????????????????????????????? Neurankylus_baueri ???????????????????????????????????????10001001001000000011010000111? Neurankylus_exemius ??????????2??????????0?????11???011????100010?100100000000100010011?? Neurankylus_lithographicus ?0???????????????????0???????0??01{0 1}????1010?00????00000000100000011?? Neurankylus_torrejonensis 0000??????1??0?0?0??0001?0011???01?1?00101010???0100000?0110?0{0 1}0?11?? Trinitichelys_hiatti 11{0 1}0020001210010000001?{1 2}0{0 1}0000?0011????0100?00??0000?000??100000?110? Scabremys_ornata ???????????????????????????????????????021120???000000011010011{0 1}011?? Thescelus_insiliens ???????????????????????????????????????0110100?100000002001000101???0 Baena_arenosa 10100110011??1101000????00?1???0?1?1?01001010???1-0100?210100011111?? '"Baena" affinis' 10??0???0?????1?1000?11??????????????0?0300100121-0100121010001011111 '"Baena" escavada' ???????????????????????????????????????001020?????0{0 1}00?21010001{0 1}111?? '"Baena" hayi' ????????????????????????????0??????????001020???1-01001010110111111?? Boremys_grandis ???????????????????????????????????????1201201??1-1111121??00011011?? Boremys_pulchra 101100100?2?11?010?0111?010001??01001?10201201111-1111021011001{0 1}01101 Chisternon_undatum 101012{0 1}00111?11010001110001101?1{0 1}10020110001011?1-11?012?010001{0 1}1111? Denazinemys_nodosa 101001000121111010100110000001?1010????0211200?21-11001210100010011?? Eubaena_cephalica 101100200122111010101112010001100100111?????????????????????????????? Eubaena_hatcheri ???????????????????????????????????????0000200121-110010101000{0 1}0011?? Stygiochelys_estesi 101012100121111010001111010001111110?11?????????????????????????????? Cedrobaena_brinkman 1??001100222??1?100021110100011001000110010?00??0000000010110110?11?? Cedrobaena_putorius 1??001110222??1?1000211101001010010?0???????????????????????????????? Gammerabaena_sonsalla 101001111?2?1110100011120???0??0010?????????????????????????????????? Goleremys_mckennai 101001210122?1101000011001000?10010?????????????????????????????????? Palatobaena_bairdi 00-0012111221120110111101101021001?0011?????????????????????????????? Palatobaena_cohen 00-0012111221120110111111100011001000110010?10??0000001010110110111?? Palatobaena_gaffneyi 00-00121112211201101111111010210110?????????????????????????????????? Plesiobaena_antiqua 101001100121111010001112010001101100011000001011000000011011011011111 Turtle_Graveyard 1011010001221110101011120100011001001{0 1}1001120(0 1)121-0100111011001011111 Saxochelys_gilberti 1010121001211110100011120100011001001110100{1 2}01111-11001{1 2}1010001101111 Arvinachelys_goldeni 10000011012210101{0 1}?0000{0 1}0110001?1101?10001020???000000001?1{0 1}0110111?? Lakotemys_australodakotensis 1????????12????????????????001???1?????010000?01????00010?100000011?? Protobaena_wyomingensis_ ???????????????????????????????????????111?00???????00?000??????????? ; END; BEGIN MacClade; Version 4.0 84; LastModified -790082438; FileSettings editor '0' '0' '1' '1'; Singles 000; Editor 0001100111111110010001001 '0' '24' Geneva '9' '100' '1' all; EditorPosition '44' '-5' '659' '1419'; TreeWindowPosition '46' '6' '839' '1390'; ListWindow Characters closed Geneva '9' '44' '735' '849' '572' 000; ListWindow Taxa closed Geneva '9' '50' '10' '276' '490' 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'; 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attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 2706897332360676892; tell It; setDefaultOrder 0 98 89 1 2 3 115 79 4 83 67 91 94 86 5 84 6 56 7 54 11 13 15 16 57 18 80 20 69 78 21 22 23 24 27 87 28 29 92 64 99 114 51 31 34 35 110 107 37 63 39 40 41 42 49 38 32 66 65 44 108 46 47 113 48 105 106 97 95; attachments ; endTell; mqVersion 351; checksumv 0 3 611497753 null getNumChars 69 numChars 69 getNumTaxa 36 numTaxa 36 short true bits 2305843009213693967 states 15 sumSquaresStatesOnly 4974.0 sumSquares -1.0606877842382992E20 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1443 1257; setLocation 146 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #2706897332360676892 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 152; endTell; setExplanationSize 50; setAnnotationSize 40; setFontIncAnnot 0; setFontIncExp 0; setSize 1343 1145; setLocation 146 23; 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 off; 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.StateNamesEditor.StateNamesEditor; tell It; makeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1343 1185; setLocation 146 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.categ.StateNamesEditor.StateNamesWindow.ibeam; 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setTargetValue ; newAssistant #mesquite.lists.DefaultCharOrder.DefaultCharOrder; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.lists.CharListPartition.CharListPartition; newAssistant #mesquite.stochchar.CharListProbModels.CharListProbModels; newAssistant #mesquite.parsimony.CharListParsModels.CharListParsModels; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1343 1185; setLocation 146 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.CharacterList.CharacterListWindow.ibeam; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;