#NEXUS [written Wed Jun 20 15:41:04 EDT 2012 by Mesquite version 2.75 (build 564) at Robert-Baratheons-MacBook.local/10.0.1.25] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=49; TAXLABELS Acanthorcharax Agoniates Astyanax Brycon Bryconamericus Chalceus Charax Cynopotamus Gnathocharax Heterocharax Hoplocharax Lonchoenys Lignobrycon Roeboides_A Roeboides_B Triportheus Acestrorhynchus Cynodon_gibbus Rhaphiodon_vulpinus Gilbertolus_artatoensis Gilbertolus_maracaiboensis Roestes_molossus Roestes_ogilviei Roestes_sp Acanthocharax_microlepis Agoniates_anchovia Brycon_sp. Bryconamericus_iheringi Chalceus_erythrurus Charax_gibbosus Charax_stenopterus Cynopotamus_argenteus Cynopotamus_kincaidi Gnathocharax_steindachneri Heterocharax_macrolepis Lonchogenys_ilisha Lignobrycon_myersi Roeboides_sp._A Roeboides_sp._B Triportheus_guentheri Triportheus_nematurus Acestrorhynchus_pantaneiro Gilbertolus_atratoensis Roestes_sp. Brycon_pesu Chalceus_macrolepidotus Galeocharax_humeralis Galeocharax_kneri Thorachocharax_stellatus ; IDS _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 2cf083c1 -25f4 4afc - 9def -204a3ab43e08 1ddddd64 -5637 -4875 - bc66 6a2d246f0f32 6005dfb6 -4485 -462a - 9e68 -e0d0a6835150 2d10 -06af6be3dabb 6b4a8735 -7269 -4472 - ad0a ; END; BEGIN CHARACTERS; TITLE ';'; DIMENSIONS NCHAR=48; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2"; CHARSTATELABELS 1 Accessory_branch_of_laterosensory_canal_on_second_infrapharyngobranchial, 2 Laterosensory_canal_on_premaxilla, 3 Participation_of_anteroventral_portion_of_second_infraorbital_on_outer_margin_of_circumorbital_ring, 4 First_infraorbital, 5 Ventral_border_of_first_infraorbital, 6 Small_bony_process_extending_from_the_anteroventral_portion_of_the_laterosensory_canal_in_the_second_infraorbital_interlocking_the_dorsal_border_of_first_infraorbital_and_the_ventral_border_of_second_infraorbital, 7 Bony_expansion_from_anteroventral_part_of_second_infraorbital_Iaterosensory_canal, 8 Ventral_border_of_second_infraorbital, 9 Posteroventral_border_of_second_infraorbital, 10 Anterodorsal_portion_of_third_infraorbital_and_anteroventral_portion_of_fourth_infraorbital, 11 Anterodorsal_portion_of_fourth_infraorbital_and_anteroventral_portion_of_fifth_infraorbital, 12 Groove_on_medial_face_of_premaxilla, 13 Lateral_surface_of_distal_end_of_maxilla, 14 Maxillary_canal, 15 First_three_teeth_on_the_lower_jaw, 16 Bony_projection_from_the_anterorventral_region_of_orbitosphenoid, 17 Concavity_on_posteroventral_region_of_orbitosphenoid, 18 Ventral_border_of_rhinosphenoid, 19 Posterodorsal_region_of_rhinosphenoid, 20 Mesocoracoid, 21 Tip_of_mesocoracoid, 22 Bony_ridge_on_internal_surface_of_cleithrum, 23 Large_extension_of_mesocoracoid_attached_to_cleithrum, 24 Mesopterygoid_teeth, 25 Teeth_on_laminar_extension_from_dorsolateral_border_of_ectopterygoid, 26 'Metapterygoid-quadrate fenestra', 27 Coracoid_foramen, 28 Bony_bridge_formed_by_dorsolateral_extension_of_coracoid_and_median_blade_from_cleithrum, 29 Scapular_foramen, 30 Postcleithrum_2, 31 Postcleithrum_3, 32 Bony_crest_on_lateral_surface_of_second_branchiostegal_ray, 33 Number_of_branchiostegal_rays, 34 Number_of_branchiostegal_rays_on_posterior_ceratohyal, 35 Gill_rakers_of_first_gill_arch, 36 Teeth_on_basibranchial_4, 37 Anterior_end_of_basibranchial_3, 38 Anterior_intermuscular_bones, 39 Origin_of_pectoral_fin, 40 Dark_spot_anterior_to_base_of_first_dorsal_fin_ray, 41 Space_between_hypurals_2_and_3, 42 Lateral_processes_on_pleural_ribs, 43 '"Accessory" abductor muscle', 44 Abductor_superficialis_muscle, 45 Sternohyoideus_muscle, 46 Sections_A2a_and_A2b_of_the_adductor_mandibulae, 47 A1_section_of_adductor_mandibulae, 48 Lateral_process_of_centrum_2 ; MATRIX Acanthorcharax ???????????????????????????????????????????????? Agoniates ???????????????????????????????????????????????? Astyanax 000000000000000000000000000000000000000000?0???0 Brycon ???????????????????????????????????????????????? Bryconamericus ???????????????????????????????????????????????? Chalceus ???????????????????????????????????????????????? Charax ???????????????????????????????????????????????? Cynopotamus ???????????????????????????????????????????????? Gnathocharax ???????????????????????????????????????????????? Heterocharax ???????????????????????????????????????????????? Hoplocharax 000000000000000020000000000000000000000000000000 Lonchoenys ???????????????????????????????????????????????? Lignobrycon ???????????????????????????????????????????????? Roeboides_A ???????????????????????????????????????????????? Roeboides_B ???????????????????????????????????????????????? Triportheus ???????????????????????????????????????????????? Acestrorhynchus ???????????????????????????????????????????????? Cynodon_gibbus 000000000000121000010011112011101110011011111100 Rhaphiodon_vulpinus 0000000000001210000100?1112011101110011010111100 Gilbertolus_artatoensis ???????????????????????????????????????????????? Gilbertolus_maracaiboensis 0000012010011110101101100021001000000111121???11 Roestes_molossus 101001210111121011001000001100110000000110010110 Roestes_ogilviei 101001210111121001001000001100110000000110010110 Roestes_sp ???????????????????????????????????????????????? Acanthocharax_microlepis 0000000000?0000000000000000000000000?00000????00 Agoniates_anchovia 000000000000000000001000001000000001010000?0???0 Brycon_sp. 000000000010000000000000001000000000000000000000 Bryconamericus_iheringi 000000000000000000000000000000000000000000?0???0 Chalceus_erythrurus 000000000000000000000000000000000000010000000000 Charax_gibbosus 0000000000?0000000000000000000000000000000000000 Charax_stenopterus 0000000000?0000000000000000000000000000000000000 Cynopotamus_argenteus 000000000000000000000000010000000000000000000000 Cynopotamus_kincaidi 000000000000000000000000010000000000000000000000 Gnathocharax_steindachneri 000000000000000020000000000001100000000000000000 Heterocharax_macrolepis 000001200000000020000000001000000000000000000000 Lonchogenys_ilisha 000000000001000020000000001000000000000000000000 Lignobrycon_myersi 000001100000??0000000000000001100000010000?????0 Roeboides_sp._A 0000000000?0000000000000000000000000000000?0??00 Roeboides_sp._B 000000000010000000000000000000010000000000?0??00 Triportheus_guentheri 100001100000010000000000000000110000010000000000 Triportheus_nematurus 100001100000010000000000000000110000010000000000 Acestrorhynchus_pantaneiro 010110000000120000000001001000000111110010000000 Gilbertolus_atratoensis 000001201001111110010110002100110000011112110111 Roestes_sp. 101001210111121001001000001100110000000110010110 Brycon_pesu 000000000010000000000000001000000000000000000000 Chalceus_macrolepidotus 000000000000000000000000000000000000010000000000 Galeocharax_humeralis ???????????????????????????????????????????????? Galeocharax_kneri ???????????????????????????????????????????????? Thorachocharax_stellatus ???????????????????????????????????????????????? ; BLOCKID c510c2ff; END; BEGIN TREES; Title Trees; LINK Taxa = Taxa; TRANSLATE 1 Acanthorcharax, 2 Agoniates, 3 Astyanax, 4 Brycon, 5 Bryconamericus, 6 Chalceus, 7 Charax, 8 Cynopotamus, 9 Gnathocharax, 10 Heterocharax, 11 Hoplocharax, 12 Lonchoenys, 13 Lignobrycon, 14 Roeboides_A, 15 Roeboides_B, 16 Triportheus, 17 Acestrorhynchus, 18 Cynodon_gibbus, 19 Rhaphiodon_vulpinus, 20 Gilbertolus_artatoensis, 21 Gilbertolus_maracaiboensis, 22 Roestes_molossus, 23 Roestes_ogilviei, 24 Roestes_sp, 25 Acanthocharax_microlepis, 26 Agoniates_anchovia, 27 Brycon_sp., 28 Bryconamericus_iheringi, 29 Chalceus_erythrurus, 30 Charax_gibbosus, 31 Charax_stenopterus, 32 Cynopotamus_argenteus, 33 Cynopotamus_kincaidi, 34 Gnathocharax_steindachneri, 35 Heterocharax_macrolepis, 36 Lonchogenys_ilisha, 37 Lignobrycon_myersi, 38 Roeboides_sp._A, 39 Roeboides_sp._B, 40 Triportheus_guentheri, 41 Triportheus_nematurus, 42 Acestrorhynchus_pantaneiro, 43 Gilbertolus_atratoensis, 44 Roestes_sp., 45 Brycon_pesu, 46 Chalceus_macrolepidotus, 47 Galeocharax_humeralis, 48 Galeocharax_kneri, 49 Thorachocharax_stellatus; TREE 'Figure 1+' = (17,((18,19),((20,21),(22,23,24)))); END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 48; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 48; END; BEGIN NOTES; SUT TAXA = Taxa TAXON = 25 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 26 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 27 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 28 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 29 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 30 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 31 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 32 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 33 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 34 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 35 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 36 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 37 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 38 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 39 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 40 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 41 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 42 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 43 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 44 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 45 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 46 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 47 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 48 NAME = color INTEGER = 8; SUT TAXA = Taxa TAXON = 49 NAME = color INTEGER = 8; TEXT FILE TEXT = 'Note: Student Michael Jones has modified some of the taxa labels to link with the appropriate NCBI and UBio entries.^n'; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1340221264512; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 5476203758840554925; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 6572716932637694147 c510c2ff; mqVersion 275; checksumv 0 3 1539769441 c510c2ff getNumChars 48 numChars 48 getNumTaxa 49 numTaxa 49 short true bits 7 states 7 sumSquaresStatesOnly 2269.0 sumSquares 2269.0 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 604 798; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #5476203758840554925 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1261.1237228631681.2781803636759510357; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 504 731; setLocation 8 22; 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.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientRight; 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; setTree '(17,((18,19),((20,21),(22,23,24))));'; 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.minimal.ManageMesquiteBlock.ManageMesquiteBlock; tell It; getEmployee #mesquite.basic.RawNexusBlockEditor.RawNexusBlockEditor; tell It; getWindow; tell It; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 504 781; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; endTell; showWindow; endTell; endTell; getEmployee #mesquite.basic.ManageFileComments.ManageFileComments; tell It; editFileComment 0; tell It; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 504 781; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; showWindow; endTell; endTell; endTell; end;