#NEXUS [written Mon Aug 31 15:48:38 EDT 2020 by Mesquite version 3.61 (build 927) at SPACESHIP.local/127.0.0.1] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=33; TAXLABELS Enteropneusta Vertebrata Bryozoa Brachiopoda Phoronida Mollusca Echinodermata Pterobranchia Onychophora Arthropoda Nemertea Urochordata Cephalochordata Entoprocta Nematoda Nematomorpha Tardigrada Kinorhyncha Loricifera Platyhelminthes Harmothoe Eunice Capitella Lumbriculidae Branchiobdella Acanthobdella Hirudo Glossiphonia 'New_species' Esconites Dryptoscolex Priapulus Cricocosmia ; END; BEGIN CHARACTERS; TITLE Matrix; DIMENSIONS NCHAR=74; FORMAT DATATYPE = STANDARD RESPECTCASE GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6"; CHARSTATELABELS 1 'Septate junctions (SJs)' / absent present, 2 'Tight junctions (TJs)' / absent present, 3 Basal_laminae / absent present, 4 Diffuse_nervous_system / absent present, 5 Epidermis_with_pulsatite_bodies / absent present, 6 Xenacoelomorph_cilia / absent present, 7 Spiral_cleavage_with_4d_mesoderm / absent present, 8 'Through-gut' / absent present, 9 'U-shaped gut' / absent present, 10 'Protonephridia (or homologues)' / absent present, 11 Fate_of_blastopore / protostomy deuterostomy amphistomy, 12 Body_cuticle_with_chitin / absent present, 13 'Body cuticle with ?-chitin' / absent present, 14 Body_cuticle_molted / absent present, 15 'Segmented body with jointed limbs:' / absent present, 16 Lobopods / absent present, 17 Slime_papillae / absent present, 18 Telescoping_mouth_cone_with_protrudable_stylets / absent present, 19 Respiration_via_metameric_tracheae_and_spiracles / absent present, 20 'Mixocoel (haemocoel) surrounded by segmented mesoderm' / absent present, 21 Teloblastic_segmentation / absent present, 22 'Longitudinal ventral nerve cord(s)' / absent present, 23 'Circum-pharyngeal, collar-shaped brain with anterior and posterior rings of perikarya separated by a ring-shaped neuropil' / absent present, 24 Introvert_with_scalid_rings / absent present, 25 Flosculi / absent present, 26 'Immunoreactivity of horseradish peroxidase (HRP)' / absent present, 27 Feeding_strategy_in_tentaculate_metazoans / predominantly_micro predominantly_macro, 28 'Trochophores:' / absent present, 29 Segmental_metanephridia_sacculus / absent present, 30 chitinous_microvillar_appendages / absent present, 31 'Parapodia with dorsal and ventral branches terminated by ?-chitinous chaetae' / absent present, 32 Radula / absent present, 33 Eversible_proboscis_surrounded_by_rhynchocoel / absent present, 34 Complex_jaw_apparatus_in_pharynx / absent present, 35 Origin_of_mesoderm / from_the_blastopore_lips_and_as_ectomesoderm from_the_walls_of_the_archenteron_or_neural_crest, 36 Radial_cleavage / absent present, 37 Coelom_formation / schizocoely enterocoely, 38 Trimeric_coelom / absent present, 39 Pharyngeal_slits / absent present, 40 'Endostyle (or homologues)' / absent present, 41 Notochord / absent present, 42 Stomochord / absent present, 43 Haemal_system_with_axial_complex / absent present, 44 Calcareous_endoskeleton_composed_of_separate_ossicles / absent present, 45 Tornaria_type_larva / absent present, 46 Longitudinal_dorsal_nerve_cord / absent present, 47 Zig_zag_myomeres / absent present, 48 Endothelium_that_lines_the_inner_wall_of_blood_vessels / absent present, 49 Neural_crest / absent present, 50 Neurogenic_placodes / absent present, 51 Lophophore / absent present, 52 'Radially-arranged outgrowths from the interface between the oral and aboral regions' / absent present, 53 gut_extending_into_aboralmost_body_region_ / absent present, 54 'stalk extending from apical/aboral region in polyp' / absent present, 55 embryonic_development / direct indirect, 56 clitellum / absent present, 57 clitellum_externally_visible / absent present, 58 'chaetae restricted to anterior-most segments' / absent present, 59 'disc-like posterior attachment structure' / absent present, 60 method_of_attachment_with_posterior_structure / sucker chemical_adhesive_organs hooks, 61 segments_externally_subdivided_into_annuli / absent present, 62 annulation_parttern_in_midbody_segments / biannulate triannulate, 63 Pygidium / absent present, 64 'Anterior host-attachment structure' / absent present, 65 Mechanism_of_attachment_with_anterior_structure / hooks chaetae suction chemical_adhesion 'pinching (bothridia)', 66 pharyngeal_jaws / absent present, 67 jaw_condition / 'dorsoventral, hook shaped' 'dorsoventral, plate shaped' with_mandibles_and_maxillae tripartite, 68 chitinous_microvillar_appendages_serially__repeated / absent present, 69 midbody_segments_internally_separated_by_septa / absent present, 70 'Male and female reproductive organs restricted to segments XI-XIII' / absent present, 71 'Condition of male pores in segments XI-XIII' / paired fused, 72 'Condition of female pores in segments XI-XIII' / paired fused, 73 male_opening_in_segment_XI / absent present, 74 female_opening_in_segment_XII / absent present ; MATRIX Enteropneusta 101000010110-0000000010000-00000001111110110100000001010--0----0-0---0---- Vertebrata 011000010110-0000000000000-00000001(0 1)10111000011111001000--0----0-0-------- Bryozoa 101000111100-00000000000000001000000010000000000001(0 1)0010--0----0-0-0------ Brachiopoda 1010001(0 1)11(0 1)0-0000000000000000100000001000000000000100010--0----0-0-0------ Phoronida 101000111100-0000000000000000000000001000000000000100010--0----0-0-------- Mollusca 1010001101(0 1 2)(0 1)000000000100001101010000000000000000000(0 1)1010--0----0-0-0------ Echinodermata 101000010110-00000000000000000000011111000111000000(0 1)1(0 1)10--0----0-0-------- Pterobranchia 101000011110-0000000010000000000001111110110100000001010--0----0-0-------- Onychophora 10100001012111011011110001-01000000000000000000000001000--0----0-0--00---- Arthropoda 1010000101(0 1)1111000(0 1)1110001-010000000000000000000000010{0 1}0--0-0--0-0--00---- Nemertea 1010001101(0 1)0-0000000010000-10000100000000000000000001010--0----0-0-------- Urochordata 111000010110-0000000000000-00000001010111000010011001010--0----0-0-------- Cephalochordata 101000010110-0000000000000-00000001110111000011000001010--0----0-0-------- Entoprocta 1010001111010000000-0000000100000000--000000000000011110--0----0-0-------- Nematoda 1010000101010100000-011101-000000000--000000000000001000--0----0-0-------- Nematomorpha 1010000101110100000-010101-000000000--000000000000001010--0----0-0-------- Tardigrada 10100001010111010101?10001-00000000000000000000000001000--0----0-0-------- Kinorhyncha 1010000101?10100000-111111-000000000--000000000000001000--0-0--0-0--00---- Loricifera 1010000101?10100000-011111-000000000--000000000000001010--0----0-0-------- Platyhelminthes 10100010-000-000000-010000-100000000--000000000000001010--(0 1)(0 2)---(0 1)(0 4)0-------- Harmothoe 101000110100-0000000110000-10110000000000000000000001000-00-0-10-10110---- Eunice 101000110100-0000000110000-10110000000000000000000001000-00-0-10-12110---- Capitella 101000110100-0000000110000-10110000000000000000000001000-00-0-10-0-110---- Lumbriculidae 101000110100-0000000110000-00100000000000000000000001011100-0-10-0-1110000 Branchiobdella 101000110100-0000000110000-000000000000000000000000010110-111001311-111000 Acanthobdella 101000110100-0000000110000-001000000000000000000000010110110110110-1011100 Hirudo 101000110100-0000000110000-000000000000000000000000010110-101101213-011111 Glossiphonia 101000110100-0000000110000-000000000000000000000000010110-10110120--011111 'New_species' ???????10??0000000001??00????0000????00000000?00??0010??0?1?110????-?????? Esconites ???????10??0000000001??00?-??1100????00000000?00??0010?0-00-0-10-1211????? Dryptoscolex ???????10??0000000001??00?-??1100????00000000?00??0010?0-00-0-10-1011????? Priapulus 1010000101111100000-011111-000000000--000000000000001010--0----0-0-------- Cricocosmia ???????10??1?10000000??10?-??0000????00000000?00??0010?0--0----0-0-------- ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1- 74; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1- 74; END; BEGIN NOTES; TEXT TAXON = 1 CHARACTER = 64 TEXT = '0^n0^n0^n00^n0^n'; TEXT TAXON = 1 CHARACTER = 68 TEXT = '0^n'; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1598903318603; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 644862842797524516; tell It; setDefaultOrder 11 14 0 1 2 3 5 6 8 9 10 12 13 15 16 17 20 21 45 48 27 35 23 24 30 31 41 40 37 26 29 32 34; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3770992342025238507; tell It; setDefaultOrder 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 86 63 64 65 66 67 77 69 70 71 72 73; attachments ; endTell; mqVersion 361; checksumv 0 3 3501412321 null getNumChars 74 numChars 74 getNumTaxa 33 numTaxa 33 short true bits 2305843009213693983 states 31 sumSquaresStatesOnly 3894.0 sumSquares -4.6116860184273843E18 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 95; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1920 1027; setLocation 0 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #3770992342025238507 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 265; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1825 955; setLocation 0 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.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; 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; toggleReduceCellBorders off; 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.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesEditor.StateNamesEditor; tell It; makeWindow; tell It; getTable; tell It; rowNamesWidth 214; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1825 955; setLocation 0 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.categ.StateNamesEditor.StateNamesWindow.ibeam; endTell; rowsAreCharacters on; toggleConstrainChar on; toggleConstrainCharNum 3; togglePanel off; toggleSummaryPanel off; endTell; showWindow; 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; begin MRBAYES; lset applyto=(all) coding=variable rates=gamma; prset applyto=(all) symdirihyperpr=fixed(infinity) ratepr=variable; unlink statefreq=(all) revmat=(all) pinvar=(all) tratio=(all); mcmcp ngen=15000000 printfreq=1000 samplefreq=1000 nruns=2 nchains=4 starttree=random filename=seqAdd9 relburnin=yes burninfrac=0.25 savebrlens=yes; mcmc; sump; sumt; END;