#NEXUS [written Thu Jun 14 15:41:15 PDT 2018 by Mesquite version 3.01 (build 658) at d-mhslc-36-53.fullerton.edu/137.151.36.53] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=25; TAXLABELS Enaliarctos_emlongi Pteronarctos_goedertae Callorhinus_ursinus Desmatophoca_oregonensis Allodesmus_gracilis Erignathus_barbatus Monachus_monachus OCPC_11141_ Prototaria_primigenia Imagotaria_downsi Proneotherium_repenningi Neotherium_mirum Kamtschatarctos_sinelnikovae Archaeodobenus_akamatsui Pseudotaria_muramotoi Pelagiarctos_sp. Pontolis_magnus Dusignathus_santacruzensis Dusignathus_seftoni Gomphotaria_pugnax Aivukus_cedrosensis Protodobenus_japonicus Ontocetus_emmonsi Valenictus_chulavistensis Odobenus_rosmarus ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "Magallanes.Parham.Titanotaria.Matrix.nex"'; DIMENSIONS NCHAR=91; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5"; CHARSTATELABELS 1 Rostral_process_of_premaxilla / absent present, 2 anterior_narial_opening / '''large' State_1 State_2, 3 Ascending_process_of_premaxilla_along_nasal / '''overlap with nasal long, no contact of nasal and maxilla''' '''short, no contact of ascending process and frontal''' very_short, 4 Nasal_posterior_end / converging '''parallel with broad V-shaped frontal/maxillary suture''' '''parallel with tranversely straight frontal/maxillary suture''' diverging penetrating_to_frontal, 5 Incisive_foramen / distinct_pair foramina_coalesced trilobed_pits single_pit_or_reduced, 6 Infraorbital_foramen / small large, 7 Ventral_tuberosity_of_zygomatic_root / absent present, 8 Anteroventral_process_of_jugal / moderate '''long, reaching M1 alveolus''' absent, 9 Palate / flat arched_tranversely arched_tranversely_and_longitudinally, 10 Palatal_margin_of_maxilla / slightly_divergent nearly_parallel posteriorly_very_wide, 11 Palatine / small long_and_posterlaterally_expanded '''telescoped, underlying alisphenoid''', 12 Hamular_process_of_pterygoid / small_and_narrow large_and_broad, 13 Pterygoid_strut / slender dorsoventrally_thin_and_laterally_projected dorsoventrally_thick_and_laterally_broad laterally_thin_and_broad, 14 Fossa_muscularis_on_orbital_wall / present absent, 15 Antorbital_process / small_ridge_on_frontal prominent_on_frontal_and_maxilla prominent_only_on_maxilla absent, 16 Supraorbital_process / small_bump absent '''large and shelf-like''', 17 Interorbital_bar / '''moderate in width, broader than intertemporal region''' '''narrow, parallel-sided''' very_broad_and_short 'transversely narrow anteriorly, widening posteriorly', 18 Postorbital_process_of_Jugal / small dorsally_projected, 19 Zygomatic_process_of_squamosal / long_and_slender short_and_slender dorsoventrally_broad exaggerated, 20 Orbital_vacuity / absent '''present, anteriorly positioned''' '''present, posteriorly positioned''', 21 Optic_foramen_and_orbitosphenoid / 'plate-like' 'funnel-shaped', 22 Internal_auditory_meatus / rounded bilobed canals_for_nerves_VII_and_VIII_separated, 23 Epitympanic_recess / small large very_large, 24 Anterior_opening_of_carotid_canal / proportionate retracted, 25 Squamosal_fossa_on_external_auditory_meatus / present reduced, 26 Glenoid_fossa / deep shallow laterally_shortened, 27 Tranverse_ridge_on_squamosal / absent present, 28 Pseudosylvian_sulcus / '''present, deep''' reduced_or_absent, 29 Bony_tentorium / far_from_petrosal appressed_to_petrosal reduced, 30 Basioccipital / '''narrow and parallel-sided''' broad_and_pentagonal, 31 Posterior_lacerate_foramen / rounded tranversely_expanded fissure, 32 Lambdoidal_crest / '''crestlike, posterodorsally projected''' '''flattened, anterodorsally projected''', 33 Mastoid_process / small large very_large_as_widest_part_of_skull pachyostotic, 34 Paroccipital_process / small_and_separated_from_mastoid_process enlarged_posteriorly_but_still_separated_from_mastoid_process moderately_sized_and_joined_with_mastoid_process_by_continous_ridge '''flattened and plate-like''', 35 'Mandible: fusion of mandibular symphysis' / Absent Present, 36 'Mandible: length of mandibular symphysis' / Less_than_50%_of_length_of_horizontal_ramus Greater_than_50%_of_length_of_horizontal_ramus, 37 'Mandible: genial tuberosity' / Absent_or_indistinct 'Present; developed as small tubercle or process on anterior portion of ramus in lateral view' 'Present and well developed; extends well below ventral margin of ramus in lateral view', 38 'Mandible: anterior portion of symphyseal region' / 'Smooth, compact bone' 'Rugose, vascular bone', 39 'Mandible: horizontal ramus' / horizontal upturned, 40 'Mandible: mandibular furrow' / absent anterodorsal_end_of_mandibles_have_a_longitudinal_furrow_anteriorly, 41 'Mandible: edentulous mandibular terminus' / absent present, 42 'Mandible: posteroventral terminus of mandibular symphysis' / Same_level_or_anterior_to_p1_or_p2 Posterior_to_the_level_of_p2, 43 'Mandible: depth of horizontal ramus' / deepest_part_of_horizontal_ramus_posterior_to_mandibular_symphysis deepest_part_of_horizontal_ramus_at_posteroventral_terminus_of_symphysis, 44 'Mandible: mandibular arch' / Nearly_parallel Sharply_divergent, 45 'Mandible: ventral border' / Straight Sinuous, 46 'Mandible: enlarged digastric insertion' / Absent Present, 47 'Mandible: mandibular condyle' / At_or_slightly_above_level_of_tooth_row Elevated_above_tooth_row, 48 'Mandible: mandibular foramen' / Directed_anteroventrally Directed_anterodorsally, 49 'Mandible: medial shelf of angular process' / Does_not_form_medial_shelf Forms_small_medial_shelf, 50 'Mandible: base of coronoid process' / 'Narrow (Less than 42% of mandible length)' '''Narrow (Less than 42% of mandible length)''' 'Broad (Greater than or equal to 42% of mandible length)' '''Broad (Greater than or equal to 42% of mandible length)''', 51 'Upper Incisors, number' / three two one upper_incisors_absent, 52 Upper_I3_proportions / long_and_slender moderate premolariform absent, 53 'Lower incisors: number' / two one incisors_absent, 54 'Lower Incisors: relative size' / 'Lower incisors of equal size, form transverse arcade' 'Lateral incisors greater in size than medial incisors, medial incisor placed posteromedial to lateral incisor', 55 Upper_Canine / Proportionate 'tusk-like' '''tusk-like with globular osteodentin''', 56 'Lower canines: size compared to upper canines' / 'Nearly equal (100-80%) and caniniform' 'Reduced (75-20%) and premolariform' Lower_canine_absent, 57 'Lower canine: posterior crista' / present absent, 58 'Lower canines: longitudinal fluting' / Absent Present, 59 'Lower canines: root' / Oval_or_circular_in_cross_section Bilobate_in_cross_section_or_prominent_longitudinal_labial_sulcus, 60 'Lower canines: orientation' / Not_procumbent_and_vertically_oriented Procumbent, 61 Lower_premolars / 'P1-4 Present' 'P1-3 present, P4 Absent' Premolars_absent, 62 'Postcanines: tooth enamel' / Well_developed Thin_or_patchy Cementum_only, 63 'Postcanines: crowns' / Laterally_compressed Bulbous, 64 'Postcanines: root lobes' / Root_lobes_of_postcanine_teeth_of_equal_or_narrower_width_than_crowns Root_lobes_of_postcanine_teeth_inflated_and_wider_than_crowns, 65 'Lower postcanines: tooth row length' / 'Long (length of tooth row greater than 40% of the mandible length)' 'Short (length of tooth row less than or equal to 40% of the mandible length)', 66 'Lower postcanines: paraconid cusps' / Present_and_well_developed Absent_or_reduced, 67 'Lower postcanines: lingual cingula' / Present_and_smooth Present_and_rough_or_crenulated., 68 'Lower premolars: hypoconid cusps' / Present Absent, 69 'Lower postcanines: talonid basin' / Absent Slight_concavity_or_small_shelf, 70 'Lower postcanines: metaconid' / Present Reduced Absent, 71 'Upper P1-2, cingulum' / well_developed_with_cuspules distinct_but_small weak_and_bulbous 'P1-P2 absent', 72 'Lower P2: rooting' / Double_or_bilobate Single, 73 'Lower P3-4: rooting' / Double Single, 74 'Upper P3, roots' / double_rooted single_and_bilobed single_and_cylindrical P3_absent, 75 'Upper P4, protocone shelf' / anteromedially_placed posteromedially_placed_with_small_cuspules reduced_or_absent, 76 'Upper P4, roots' / triple_rooted double_rooted single_rooted P4_absent, 77 'Upper M1, roots' / triple_rooted double_rooted single_rooted M1_absent, 78 Lower_M1 / Present Absent, 79 'Lower M1: rooting' / Double_rooted Single_rooted, 80 'Upper M2, roots' / double_rooted single_rooted M2_absent, 81 Lower_M2 / Present Absent, 82 Postcanine_tooth_wear / Absent Minor_wear_on_anterior_and_posterior_cusps_or_apical_wear Large_wear_facets_on_anterior_and_posterior_edges Heavily_worn_and_polished, 83 'Humerus, deltoid tubercle' / on_pectoral_crest on_lateral_edge_of_crest off_crest, 84 'Humerus, diameter of distal trochlea' / medial_lip_same_or_smaller_diameter_as_distal_capitulum medial_lip_diameter_greater_than_distal_capitulum, 85 'Radius, distal end' / 'expandd, with small radial process' unexpanded_ expanded_with_large_radial_process, 86 'Metacarpal I, insertion of pollicle extensor' / smooth pit rugosity, 87 Scapholunar / no_pit_for_magnum '''well-formed pit''', 88 'Astragalus, calcaneal process' / absent present elongated, 89 'Calcaneum, calcaneal tuber' / straight medially_prominent, 90 'Entocuneiform/mesocuneiform articulation' / abutting overlapping, 91 Axis ; MATRIX Enaliarctos_emlongi 1000000000000000000001000000000000000000000000000001000000000000000000100000100100????????0 Pteronarctos_goedertae 100000100000000000000?0000000000020010000000000000010000000000001000001000111001000???????0 Callorhinus_ursinus 1003000001000122000100001001000002000000001000011?01000000000000110102111122201110001000000 Desmatophoca_oregonensis 00241001{0 1}2101130112001210000000001001000001001001000010000000010100001000021{1 2}0010000??????? Allodesmus_gracilis 02241001{0 1}21011301120012101010{0 1}100100100001101101000001000000001111010221122220110100100111(0 1) Erignathus_barbatus 10240012020031211130022002012020300010000{0 1}000110000100000000000010000010002110021{1 3}001002000 Monachus_monachus 002400020200312111310220020120103000000000100100011100000000000010100010002110021100100200? OCPC_11141_ 1111?0101010211110110??00001?10013002000001010001000??0000100010101?110000?1100001012111111 Prototaria_primigenia 1100001000002010000101100010100002????????????????01??0???????0???????0??0110??1??????????? Imagotaria_downsi 111?000?10????11101??1100101110013012000001010011001010000100010101{0 1}120{0 1}{0 1}111100?{0 1}10121111?? Proneotherium_repenningi 110000100000211000110??00000?00002000000001000001001000000000000100000000011000101?????111? Neotherium_mirum 11100010001021111011011000001000030010000010000110010000001000001000110000110000010121111?? Kamtschatarctos_sinelnikovae ?????0??0?102???101??????0????????00100?0010000?10??????????0000100011?00???000001????????? Archaeodobenus_akamatsui 1???001?10102????01??1?0000111?003011000001100011001010000000011101?010000111000010???????1 Pseudotaria_muramotoi ??100010101021101??101100001100003?????????????????1??0??????????????????0?11??0??????????0 Pelagiarctos_sp. ??????????????????????????????????012100001000??????01?000100010?01011?00????00?01????????? Pontolis_magnus 11110000101001111001011001011100130021000110111001011?00100001111100120001?210000201?11111? Dusignathus_santacruzensis ??????????????????1???1?010?1??01?0120000111110010?10110100101111101022112???01?120111????? Dusignathus_seftoni 111111101010?11121110?1001011?00131121000{0 1}11110010{0 1}11?10110101111?????21122220111?012??11?? Gomphotaria_pugnax 11110000101??11120110???0101?1?00?0111000110000010102?10110101111?0???211222201113012111110 Aivukus_cedrosensis 1122011010???111211??11011011???130??000?0?00?????12??10??0002?0??????21122220121301221???? Protodobenus_japonicus 1122?1??202121?12????????101?1????01000000110010100101211000011011010221122221?211????????? Ontocetus_emmonsi 112111102021211121121110110111012301211011110010101201211000021011010221122221?2111122111?? Valenictus_chulavistensis 112101102021211121121?101101?101231111111?11001000332?22????2?????????3??3?331?21?212211111 Odobenus_rosmarus 11222110202121112112111011011101231111011011001111222?211000121011010221122331?213212211111 ; END; BEGIN SETS; CHARSET Characters_to_order = 5 9 11 33 37 51 - 53 55 - 56 61 - 62 70 - 71 74 76 - 77 80 82 - 83; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 91; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 91; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1529016075756; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 3917579707409778809; tell It; setDefaultOrder 0 1 2 3 4 5 6 14 7 15 8 9 10 11 12 13 16 17 18 19 20 21 22 23 24; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 1399293708426405735; mqVersion 301; checksumv 0 3 374455070 null getNumChars 91 numChars 91 getNumTaxa 25 numTaxa 25 short true bits 2305843009213693983 states 31 sumSquaresStatesOnly 9615.0 sumSquares -6.456360425798343E19 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState true false 104; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 2254 1123; setLocation 508 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #1399293708426405735 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 0 -72; setLocation 508 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; 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; getWindow; tell It; forceAutosize; endTell; hideWindow; 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;