#NEXUS [written Thu Dec 25 20:40:13 IST 2014 by Mesquite version 3.01 (build 658) at AmitSai/192.168.5.34] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=9; TAXLABELS Physcomitrella_patens_Phpat.024G019400.2.p Physcomitrella_patens_Phpat.024G019400.1.p Arabidopsis_thaliana_NASPLa Arabidopsis_thaliana_NASPLb Oryza_sativa_NASPL Picea_abies_MA_102821g0020 Homo_sapiens_NASP Saccharomyces_cerevisiae_HIF1 Selaginella_moellendorffii_418586 ; END; BEGIN CHARACTERS; TITLE Histone_chaperone_NASP_matrix; DIMENSIONS NCHAR=889; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX Physcomitrella_patens_Phpat.024G019400.2.p -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEASSSNGATNGETSTQG---------------------------------------SAAVDLEEAQRLFDDGC----------------------EFMHNEAFEDAAECFSKALEIRVRHFG-----------ELAPECATTYFKYGCALFDKLQEEADPLGET-----------------------------------------------------------------------------------------VNPNPALPSSHPEGSSGKE------------------------------------VTGKDPVEEAGGDDDGDEDDVMGEGEEGK--------------EEEEGDLEDAWKMLEFARVIHEKLD----------SRTIEAVDIITKLADVNCFK-ENYEACYEDYAKALEMLKQIVEPDSRILAELYFKIAIAKQLDLKPKEALIYCSNAVAVCEAR-VQRLKHEINNVHTEGVDALGTSEAASVVDVEHSEPQTNGSMKATEHDNDEVINPPTEEKSAAESKVNEIKDIEDLLVDLKDKEQELKEMASAPTLVEQLQAANPEAAASMKQLFSLAAGSQASDSGGSSSSTADGIKTSNGFDQPTLANFTSS------TAVVTDLGVVGRGIKRAEPVAVVPAGIVNSSQPSKKRSFDMLMNETGNGETQIGFGNGAVKQADKGTI------ Physcomitrella_patens_Phpat.024G019400.1.p -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEASSSNGATNGETSTQG---------------------------------------SAAVDLEEAQRLFDDGC----------------------EFMHNEAFEDAAECFSKALEIRVRHFG-----------ELAPECATTYFKYGCALFDKLQEEADPLGET-----------------------------------------------------------------------------------------VNPNPALPSSHPEGSSGKEPE----------------------------------VTGKDPVEEAGGDDDGDEDDVMGEGEEGK--------------EEEEGDLEDAWKMLEFARVIHEKLD----------SRTIEAVDIITKLADVNCFK-ENYEACYEDYAKALEMLKQIVEPDSRILAELYFKIAIAKQLDLKPKEALIYCSNAVAVCEAR-VQRLKHEINNVHTEGVDALGTSEAASVVDVEHSEPQTNGSMKATEHDNDEVINPPTEEKSAAESKVNEIKDIEDLLVDLKDKEQELKEMASAPTLVEQLQAANPEAAASMKQLFSLAAGSQASDSGGSSSSTADGIKTSNGFDQPTLANFTSS------TAVVTDLGVVGRGIKRAEPVAVVPAGIVNSSQPSKKRSFDMLMNETGNGETQIGFGNGAVKQADKGTI------ Arabidopsis_thaliana_NASPLa -------------------------------------------------------------------------------------------------------------------------------------------------------MVEESASASEASVIQTLTEPATEIAQTLEPNLASIEATVESVVQGGTESTCNNDANNNN--------------------AADSAATEVCDEEREKTLEFAEELTEKGS----------------------VFLKENDFAEAVDCFSRALEIRVAHYG-----------ELDAECINAYYRYGLALLAKAQAEADPLGN----MPKKEG-------------------------------------------------------------------EVQQESSN----GESLAPSVVSGDPERQGSSSGQ----------------------------------EGSGGKDQGEDGEDCQDDDL-SDADGDA---------------DEDESDLDMAWKMLDIARVITDKQS----------TETMEKVDILCSLAEVSLER-EDIESSLSDYKNALSILERLVEPDSRRTAELNFRICICLETGCQPKEAIPYCQKALLICKAR-MERLSNEIKGASG----------------------SATSSTVSEIDEGIQQSSNVPYIDKSASDKEVEIGDLAGLAEDLEKKLEDLKQQAENPKQVLAELMGMVSAKPNASDKVVPAAAEMSSSRMGTVNTNFG-----KDLESPTVSTAHTGAAGGGAASGVTHLGVVGRGVKRVLMNTTSIE-------SSASKKPALEFSDKADGNSS---------------------- Arabidopsis_thaliana_NASPLb -------------------------------------------------------------------------------------------------------------------------------------------------------MVEESASASEASVIQTLTEPATEIAQTLEPNLASIEATVESVVQGGTESTCNNDANNNN--------------------AADSAATEVCDEEREKTLEFAEELTEKGS----------------------VFLKENDFAEAVDCFSRALEIRVAHYG-----------ELDAECINAYYRYGLALLAKAQAEADPLGN----MPKKEG-------------------------------------------------------------------EVQQESSN----GESLAPSVVSGDPERQGSSSGQ----------------------------------EGSGGKDQGEDGEDCQDDDL-SDADGDA---------------DEDESDLDMAWKMLDIARVITDKQS----------TETMEKVDILCSLAEVSLER-EDIESSLSDYKNALSILERLVEPDSRRTAELNFRICICLETGCQPKEAIPYCQKALLICKAR-MERLSNEIKGASG----------------------SATSSTVSEIDEGIQQSSNVPYIDKSASDKEVEIGDLAGLAEDLEKKAT----------------------------------------------------------------------------------------------------------------------------------------------------- Oryza_sativa_NASPL -----------------------------------------------------------------------------------------------------------------------------------------------------------MASSSEN-----------------------VEAPRD--EQRDPPPSPPNPSEEAG--------------------AGEEMEAEGEGEEEVKTLERAEELFERGS----------------------KAIEEGDFVDAVDCLSRALEIRVAHHG-----------ELAPECVSTYFKYGCALLYKAQDEADPLGN----VPKSSSN-----------------------------------------------------------------KESMKSTTNKDDSGSSKTPGSNTEDAPSTDKADAE----------------------------------EGQNSTGKGQE-EENGDSDK-DDDEMVG---------------DEDDSDLDQAWKMLDIARAIVEKSP----------DDTLEKAKIFSALAEVSMER-EDIDNSLGDYFKALAILEKLFEPDHRRIIDLNFRICLVYELVSKISDAIPYCAKAISLCKSR-IQSLKND-KDALL----------------------AGKDDNASAADGGS---------EKSAP--EGEIEQLSGILSELEKKLEDLEQAMSTPSSVMDEIMKRIASKAGGEQNATDTMPAAASFNSSSQMAGSS-----NGFDSSTLSTAATTGSTG---STVTDLGVVGRGIKRANIKPISAE-------PPPKRAAADSLSVKGDSSNNSDVHTPAQEGDDSVSK------ Picea_abies_MA_102821g0020 ----------------------------------------------------------------------------------------------------------------------------------------------MSSVDPAKAAIPEEPTAVEGSSPAEGENQRDSVPPVENSTASAAEPGTPDCPEAGSGAGEGNEAKDDGDIAAGASPVEGLLMNGSAVGNGDAAATEQDPLPSPKTLEDAEALFQKGC----------------------DALKADDLVEAVDSLSRALEIRVAHFG-----------ELAPECTTTYYKYGCALLYKAQDEADPFNESAALAKKAESSS-------------------------------------------------------------KNATEVISGKVGKGEPSEPLVTEVPIKNDKGKGSVSDQDGVESVD---------------------------EGTMDKEEGAEGEESDEEDAGEDVDVEGE--------------DEEDSDLDLAWKMLESARVILDKQ-----------EDTIEKVDVISALGDVSLER-EDFQTSLSDYLRALSILERLEEPNSRHISQLCFKICLALQMQNKIPDALNYCQRALSICASR-MQRLTNEAETSKGE--------------------SSGKDAQTNNVSEGDLHNG-----TLAISATEDEVNVLKGLMSDLSDKIEDLKAMMSAPP-----LFEVLQSLYDDKSVSQDKNACTSGNSFHEVASTES-----NGFDQPSLPAVPSG-------GNVTHLGVVGRGVKRATPVPIDVA-------EPSTKKILIGSTSSE--------------------------- Homo_sapiens_NASP MAMESTATAAVAAELVSADKIEDVPAPSTSADKVESLDVDSEAKKLLGLGQKHLVMGDIPAAVNAFQEAASLLGKKYGETANECGEAFFFYGKSLLELARMENGVLGNALEGVHVEEEEGEKTEDESLVENNDNIDEEAREELREQVYDAMGEKEEAKKTEDKSLAKPETDKEQDSEMEKGGREDMDISKSAEEPQEKVDLTLDWLTETSEEAKGGAAPEGPNEAEVTSGKPEQEVPDAEEEKSVSGTDVQEECREKGGQEKQGEVIVSIE-------EKPKEVSEEQPVVTLEKQGTAVEVEAESLDPTVKPVDVGGDEPEEKVVTSENEAGKAVLEQLVGQEVPPAEESPEVTTEAAEASAVEAGSEVSEKPGQEAPVLPKDGAVNGPSVVGDQTPIEPQTSIERLTETKDGSGLEEKVRAKLVPSQEETKLSVEESEAAGDGVDTKVAQGATEKSPEDKVQIAAN----------------------EETQEREEQMKEGEETEGSEEDDKENDKTEEMPNDSVLENKSLQENEEEEIGNLELAWDMLDLAKIIFKRQETK--------EAQLYAAQAHLKLGEVSVES-ENYVQAVEEFQSCLNLQEQYLEAHDRLLAETHYQLGLAYGYNSQYDEAVAQFSKSIEVIENR-MAVLNEQVKEAEG-----------------------------------------------SSAEYKKEIEELKELLPEIREKIEDAKESQRSGNVAELALKATLVESSTSGFTPGGGGSSVSMIASRKPTDGAS-----SSNCVTDISHLVRK------KRKPEEESPRKDDAKKAKQEPEVNGGSGDAVPSGNEVSENMEEEAENQAESRAAVEGTVEAGATVESTAC---- Saccharomyces_cerevisiae_HIF1 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MKLRAEDVLANGTSRHKVQIDMERQ-------------------------------VQIAKDLLAQKKFLEAAKR--------------------CQQTLDSLPKDGLLPDPELFTIFAQAVY-------------NMEVQNSGNLFGDALLAGDDGSGSESESE----------------------------------------------------------------------------------------PESDVSNGEEGNENGQTEIPNS----------------------------------RMFQFDQEEEDLTGDVDSGDSEDSGEGSE-------------EEEENVEKEEERLALHELANFSPANEHD--------DEIEDVSQLRKSGFHIYFEN-DLYENALDLLAQALMLLGRPTADGQSLTENSRLRIGDVYILMGDIEREAEMFSRAIHHYLKA-LGYYKTLKPAEQVT---------------------------------------------EKVIQAEFLVCDALRWVDQVPAK-DKLKRFKHAKALLEKHMTTRPKDSELQQARLAQIQDDIDEVQENQQHGSKR------PLSQPTTSIGFPA--------LEKPLGDFNDLSQLVKKKPRRH-------------------------------------------------- Selaginella_moellendorffii_418586 MERLRARVPGPLLERIERSKEAEIASTAAALAAFLDRDPVFRHALDRLLQPTTCGKDYESAAKYKADGNRAFQQRNYKQAIQDYTKALKLMPWNSASCNDLATIFSNRATSFHKSGLKMEGIRDCGRAIALNESYAKAWYRRGLIKADLCDYQGAVLDMEAAHTRECSVSGKKQVEVELLQVRQKLKLASPQAQRDLSTSLKAGISAQTAMYWSADKQWG----LRTTSEVQAGTLVHSEEALAGILLKKHRPTHCHGCFGVVPADSVPCIGCGVVSYCNDACRDDATVEHKLECGGSGWAAALPEEGVLAARILVTNLQCEVDLCHHYNDLPSQTKVELYLLAATLAKCLKASWLAFSFEDLLAKLVLLLAMLRFNAMGIIHIYSSDETGSSSGAHICGIEHVVVAQALFVRGSKFNHSCSPNVHVSYVKRTLRAHCTEALPAFCPLEISYGVQVGESEKSQRKIWLRDHYLFECSCEPCRLGLVSDLLHIAYYCCQPGCQGIVLDPDASDEDILLPGGSGTVRFLIEHCN--ILPQKELEDLQICGSRLNGNEAIADGLRLLENGRKCFHPFNKQLAQMEDIVARLYCEAGQQPAAAIVHARRSIEILERIYGKDHIAMAYERLKLASIAGITGAARECLAMAERTFSFYYGFDYGAVFPDLKRVMVP---------------------------------EELLEEILSRVDKGTRQGLQEVFEWNHVLQKMVGLPYEILGIKAVPCPIVGGNQVNWEVMCCSEGFVIMYSRELGQSHLFDLSKGTS-IQITRDLCATTFSSNPQMVYLRGSLYIAADGKTLGRYDLDVKEWSVLAELPTDCKLERLLVFQDGIVGAFERVTFPVGIKAGAIASVQRVGVNLLPLA ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 889; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 889; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 889; END; BEGIN TREES; Title Histone_chaperone_NASP_tree; LINK Taxa = Taxa; TRANSLATE [0] 1 Physcomitrella_patens_Phpat.024G019400.2.p, [1] 2 Physcomitrella_patens_Phpat.024G019400.1.p, [2] 3 Arabidopsis_thaliana_NASPLa, [3] 4 Arabidopsis_thaliana_NASPLb, [4] 5 Oryza_sativa_NASPL, [5] 6 Picea_abies_MA_102821g0020, [6] 7 Homo_sapiens_NASP, [7] 8 Saccharomyces_cerevisiae_HIF1, [8] 9 Selaginella_moellendorffii_418586; TREE Imported_tree_1 = ((((((3:0.0,4:0.00365556)1.0000:0.36910662,5:0.43757143)0.7660:0.13438549,6:0.37457974)0.8790:0.1867099,(1:0.0,2:0.0)1.0000:0.61112357)0.8180:0.0,7:1.38905872)0.9280:4.06696213,(8:3.1247496,9:5.09743083)0.9280:0.35859003); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1419520213614; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 4712201085749754327; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7964451118951973446; mqVersion 301; checksumv 0 3 354781094 null getNumChars 889 numChars 889 getNumTaxa 9 numTaxa 9 short false bits 1048575 states 1048575 sumSquaresStatesOnly 3.1870297179554E13 sumSquares 3.1870297179554E13 longCompressibleToShort false usingShortMatrix false NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 184; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1304 690; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #4712201085749754327 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1927.1419515064046.1187672403612956379; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1120 618; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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; 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 off; 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.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #7964451118951973446 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 232; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1120 618; setLocation -8 0; 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 off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; 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.align.AlignToDropped.AlignToDropped; tell It; gapCosts 8 3 2 2; subCosts 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;