#NEXUS [written Sat Dec 14 13:02:51 WET 2013 by Mesquite version 2.75 (build 566) at pjs-macbook-pro.home/192.168.1.4] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=16; TAXLABELS 'Saccharomyces cerevisiae RM11-1A sace d 04120' Saccharomyces_mikatae_IFO_1815_sami_a_c798_9285 Kluyveromyces_lactis_CLIB210_klla0d19941g Kluyveromyces_lactis_CLIB210_klla0e09879g Saccharomyces_mikatae_IFO_1815_sami_a_c124_14118 Saccharomyces_kudriavzevii_IFO_1802_saku_c1383.2 'Saccharomyces paradoxus NRRL Y-17217 sapa c403 13057' 'Saccharomyces paradoxus NRRL Y-17217 sapa c84 2187' Saccharomyces_cerevisiae_S288C_sace0k07392g Saccharomyces_cerevisiae_YJM789_sace_e_0518 Saccharomyces_cerevisiae_S288C_sace0c00132g Saccharomyces_cerevisiae_YJM789_sace_e_3474 'Saccharomyces cerevisiae RM11-1A sace d 05344' 'Kluyveromyces waltii NCYC2644 klwa 298-snap.4' Kluyveromyces_thermotolerans_CBS6340_klth0b10142g Kluyveromyces_thermotolerans_CBS6340_klth0b00132g ; END; BEGIN CHARACTERS; TITLE 'Additional_file_9_character_matrix'; DIMENSIONS NCHAR=632; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX 'Saccharomyces cerevisiae RM11-1A sace d 04120' --------------------------MKS-----------------------------------------TLSLTLCVISLLLTLFLAALDIVIVVTLYDTIGIKFHDFGNIGWLVTGYALSNAVFMLLWGRLAEILGTKECLMISVIVFEIGSLISALSNSMATLISGRVVAGFGGSGIESLAFVVGTSIVRENHRGIMITALAISYVIAEGVGPFIGGAFNEHLSWRWCFYINLPIGAFAFIILAFCNTSGEPHQKMWLPSKIKKIMNYDYGELLKASFWKNTFEVLVFKLDMVGIILSSAGFTLLMLGLSFGGNNFPWNSGIIICFFTVGPILLLLFCAYDFHFLSLSGLHYDNKRIKPLLTWNIASNCGIFTSSITGFLSCFAYELQSAYLVQLYQLVFKKKPTLASIHLWELSIPAMIATMAIAYLNSKYGIIKPAIVFGVLCGIVGSGLFTLINGELSQS--IGYSILPGIAFGSIFQATLLSSQVQITSDDPDFQNKFIEVTAFNSFAKSLGFAFGGNMGAMIFTASLKNQMRSSQLNIPQFTSVETLLAYSTEHYDGPQSSLSKFINTAIHDVFYCALGCYALSFFFGIFTSSKKTTI-SAKKQQ------------------- Saccharomyces_mikatae_IFO_1815_sami_a_c798_9285 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MLASQIQLDKESPTIKSDFVSITTFNTFCKALGQALGGVVSNTVFSAAVMTKVTRSNIKLPGGNTVNNLVVYRQTNFDGSHSELGHIVSESLTDVFYMALGFYTLSFIFAIFASNKKISAKPKQVKDDVESGEDLEGIMTH---- Kluyveromyces_lactis_CLIB210_klla0d19941g -------------MDQKLQQEESLNNSMDGPMSKNAIMQVEVTADNASIDANT----PDHNDNSNVRLMSGLRLYVCVAALVLATFIFALDVFIVNTIIDSVSASLGGYSKSGWLIAGYSLPNSLFSLIWGRTASLLGFQASMTLSIFIFEVGSIVSASATSMDNLIVGRVIAGVGGSGLQTLSLVIGSSIVEEKNRAMIVSIVMSAFAAASLIGPFVGGAFTTHVIWRWCFWINLPIGAVTALLFYFTYNPKRLSAASRFTSCFKSVKALSFEKLASWETYRCMGKNLLFRFDIVGFATGCAGVCLLLLGLTLGGEDDSWKSAIVICFLIVGFLLSVLSVVYDFYIFDKINPEPSNLSFRPMLVKGLLNNRFILLPNLVTCASAIAFSGYMLYSVQFFQLVMGSSAWNAGLHLIPLVIASIVSAIICGGIMKKTGQVKPLMISTVSILLIGGGVSTLLDNHSGNSMQIGVWILPGFGLGAALQCALISSQLQIDKESPNSEIELVEVTAFNSFTKSLGSSIGGVLCTAIFTSSLWSKINAVKLEGYYGKSTNEFVKYRLQHFDSRYSEASTIFSDSVTNVFWMALAFAAFAFVCSCLSSTNTVEI-ADKQKVHSDRDMSLISDSKLEA--- Kluyveromyces_lactis_CLIB210_klla0e09879g MSSLAKQVSSTSLDKNSTVNIIFSLVKRESEPVSKKYEDKKAGEDAEDVPVDLKNVFTSDNEKTQSSIMAGMRLYVCLFALVLAQLIVALDVFIVNTVIDVVSKNLGGYAKSGWLITGYSLPNSLLSLIWGRATSLLGFQSSMLISIFIFEVGSIVSATATSMNNLVVGRVVAGIGGSGLQTVSMIIGCSLVEERNRTIVIAVIMSAFAVSSLIGPFIGGAFTTHATWRWCFWISLPVGGSAAFLFFFTYNPERLSITARLVRCLKLVKAIPLKQFQYVETYKTIVRNLVFRFDLIGFTLNCTGICLFLLGLTFGSEDNSWKRAFVVCFLVIGGLLVVCSVVYDFYIFDRINPEPANASYRPLMVRTLIGHKYFLLANTVTCAAAVVFAGYMVYSVQFFQLVLGYTAWNAGLHLIPLVIASLLSAIFCGGFTKKTGHVKYVMIANIALLLIGSGVCTLLDNYSNNSMQIGVWILPGFGLGATLQCALISSQLQIDKNSPDAKTELVEITAFNSFCKSLGSSIGAVLSTTTFISALWRKINKAKLEGYYGKKINELVKYRLQNFDGKSTEAAEIFSAAVTYVFWMCYAFSALAFFCACLSSNRRVET-EKKVAQEEHDGLPSIPEFKQGTTV- Saccharomyces_mikatae_IFO_1815_sami_a_c124_14118 --------------------------MGEEKNSSQAEVK--AYESDTELNVNS------S-DERG-----GISLYLCLTSLTLVLFITALDILIVGTIIDVVAEQFGNYSKTGWLVTGYSLPNAILSLVWGRFASIIGFQHSLILAVLIFEAGSLVAALANSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVNERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGFAVIMFLLTYKTKSENILQQTRNILGRISKFELRRLTEPGNLRKALIGILFKFDFLGFALSSAGLVLFLLGLTFGGNKYSWNSGQIITYLVLGILLFVFSLIYDFFIFQKFNPEPDNTSYRPLFLKRLVAKPAVIIVNMVTFLLCIGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGILGVIGAGLMTLMSNNSTSSTQIGVLILPGLSLGFALQASLMSAQLQIKKDRPEATTDFIEITAFNTFMKSLGTTLGGVLSTTVFSASLRNKVKHAQLEMYVGKTVDDMILYRLQNFDGPHSSIGNILSDSIKNVFWMDMGFYALGFIFCIFSSNRRLVI-PKKDIPSEESVESN----------- Saccharomyces_kudriavzevii_IFO_1802_saku_c1383.2 --------------------------MAETKCSSQPEIEE-ASDSDTSLNVNG-------GDAKM-----GLSLYLCLASLTLVLFITALDILIVGTIIDVVAKQFGNYSKTGWLVTGYSLPNAVLSLLWGRFASIIGFQHSLILAVLIFEAGSLVAALANSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVDERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAVIMFLLTYDAKNDGIIQQMKGALRKISGFEFSRLKKPGNLRKAINCLIFKFDFFGFALSSTGLVLFLLGLTFGGNKYTWSSGQVITYLVLGIVLFIFSLVYDFFLFDKFNPERDNISYRPLFLRRLVAKPAIIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGIITKKLGLVKPLLILGG------------------------------------------------------------------------------------FAWCYWR----------------------------------------------------------RAYDTDEK?---------------------------- 'Saccharomyces paradoxus NRRL Y-17217 sapa c403 13057' --------------------------MKETKYSSQPEIEE-ACDSDASLNAKS------SNDPPM-----RLSLYLCLASLTLVLFITALDILIVGTIIDVVAAQFGNYSKTGWLVTGYSLPNAILSLIWGRFASIIGFQHSLVLAILIFEAGSLIAALASSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKGENKSILQQTKDIMGKISSFEFGKFRKQVNSKRVMNGIIFKFDFFGFSFCSAGLVLFLLGLTFGGNKYSWNSGQVITYLVLGTLLFMFSLVYDFFIFNKFNPEPDNISYRPLLLKRLIAKPAVIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLMFGGFLGVIGAGLMTLMKNNSTRSTQIGVLLLPGFSLGFALQASLMSAQLQINKDHPEASMDFIEITAFNTFMKSLGTTLGGVLSTTVFSASLHNKVSQARLEPYVGKTVDDMILYRLQNYDGSHSTIGNILSDSIENVFWMDLGFYALGFLFCIFSSNKKLII-PKKNPTPEDNIEDK----------- 'Saccharomyces paradoxus NRRL Y-17217 sapa c84 2187' --------------------------MKETKYSSQPEIEE-ACDSDASLNAKS------SNDPPM-----RLSLYLCLASLTLVLFITALDILIVGTIIDVVAAQFGNYSKTGWLVTGYSLPNAILSLIWGRFASIIGFQHSLILAILIFEAGSLIAALASSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKGENKSILQQTKDIMGKISSFEFGKFRKQVNSKRVMNGIIFKFDFFGFSFCSAGLVLFLLGLTFGGNKYSWNSGQVITYLVLGTLLFMFSLVYDFFIFNKFNPEPDNISYRPLLLKRLIAKPAVIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLMFGGFLGVIGAGLMTLMKNNSTRSTQIGVLLLPGFSLGFALQASLMSAQLQINKDRPEASMDFIEITAFNTFMKSLGTTLGGVLSTTVFSASLHNKVSQARLEPYVGKTVDDMILYRLQNYDGSHSTIGNILSDSIENVFWMDLGFYALGFLFCIFSSNKKLII-PKKNPTPEDNIEDK----------- Saccharomyces_cerevisiae_S288C_sace0k07392g --------------------------MEETKYSSQQEIEG-ACGSDASLNARG------SNDSPM-----GLSLYLCLASLTLVLFITALDILIVGTIIDVVAEQFGNYSKTGWLVTGYSLPNAILSLIWGRFASIIGFQHSLILAILIFEAGSLIAALASSMNMLIFGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKAENKGILQQIKDAIGTISSFTFSKFRHQVNFKRLMNGIIFKFDFFGFALCSAGLVLFLLGLTFGGNKYSWNSGQVITYLVLGVLLFIFSLVYDFFLFDKFNPEPDNISYRPLLLRRLVAKPAIIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGVLGVIGAGLMTLMTNTSTKSTQIGVLLLPGFSLGFALQASLMSAQLQITKDRPEAAMDFIEVTAFNTFMKSLGTTLGGVLSTTVFSASFHNKVSRAHLEPYEGKTVDDMILYRLQNYDGSHSTIGNILSDSIKNVFWMDLGFYALGFLFCSFSSNKKLII-PKKDDTPEDNLEDK----------- Saccharomyces_cerevisiae_YJM789_sace_e_0518 --------------------------MEETKYSSQQEIEE-ACGSDASLNARG------SNDSPM-----GLSLYLCLASLTLVLFITALDILIVGTIIDVVAEQFGNYSKTGWLVTGYSLPNAILSLIWGRFASIIGFQHSLILAILIFEAGSLIAALASSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKAENKGILQQIKDAIGTISSFTFSKFRHQVNFKRLMNGIIFKFDFFGFALCSAGLVLFLLGLTFGGNKYSWNSGQVIAYLVLGVLLFIFSLVYDFFLFDKFNPEPDNISYRPLLLRRLVAKPAIIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGVLGVIGAGLMTLMTNTSTKSTQIGVLLLPGFSLGFALQASLMSAQLQIIKDRPEAAMDFIEVTAFNTFMKSLGTTLGGVLSTTVFSASFHNKVSRAHLEPYEGKTVDDMILYRLQNYDGSHSTIGNILSDSIKNVFWMDLGFYALGFLFCSFSSNKKLII-PKKDETSEDNLEDK----------- Saccharomyces_cerevisiae_S288C_sace0c00132g ------------------------------------------------------------------------------------------------------------------------------------------------------------------MNMLIVGRVVASVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKAENKGILQQIKDAIGTISSFTFSKFRHQVNFKRLMNGIIFKFDFFGFALCSAGLVLFLLGLTFGGNKYSWNSGQVIAYLVLGVLLFIFSLVYDFFLFDKFNPEPDNISYRPLLLRRLVAKPAIIIINMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGVLGVIGAGLMTLMTNTSTKSTQIGVLLLPGFSLGFALQASLMSAQLQITKDRPEAAMDFIEVTAFNTFMKSLGTTLGGVLSTTVFSASFHNKVSRAHLEPYEGKTVDDMILYRLQNYDGSHSTIGNILSDSIKNVFWMDLGFYALGFLFCSFSSNKKLII-PKKDETPEDNLEDK----------- Saccharomyces_cerevisiae_YJM789_sace_e_3474 ------------------------------------------------------------------------------------------------------------------------------------------------------------------MNMLIVGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKAENKGILQQIKDAIGTISSFTFSKFRHQVNFKRLMNGIIFKFDFFGFALCSAGLVLFLLGLTFGGNKYSWNSGQVIAYLVLGVLLFIFSLVYDFFLFDKFNPEPDNISYRPLLLRRLVAKPAIIIVNMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGVLGVIGAGLMTLMTNTSTKSTQIGVLLLPGFSLGFALQASLMSAQLQITKDRPEAAMDFIEVTAFNTFMKSLGTTLGGVLSTTVFSASFHNKVSRAHLEPYEGKTVDDMILYRLQNYDGSHSTIGNILSDSIKNVFWMDLGFYALGFLFCSFSSNKKLII-PKKDETPEDNLEDK----------- 'Saccharomyces cerevisiae RM11-1A sace d 05344' --------------------------MEETKYSSQQEIEE-ACGSDASLNARG------SNDSPM-----GLSLYLCLASLTLVLFITALDILIVGTIIDVVAEQFGNYSKTGWLVTGYSLPNAILSLIWGRFASIIGFQHSLILAILIFEAGSLIAALASSMNMLIVGRVVAGVGGSGLQTLCFVIGCTMVGERSRPLVISILSCAFAVAAIVGPIIGGAFTTHVTWRWCFYINLPIGGLAIIMFLLTYKAENKGILQQIKDAIGTISSFTFSKFRHQVNFKRLMNGIIFKFDFFGFALCSAGLVLFLLGLTFGGNKYSWNSGQVIAYLVLGVLLFIFSLVYDFFLFDKFNPEPDNISYRPLLLRRLVAKPAIIIINMVTFLLCTGYNGQMIYSVQFFQLIFASSAWKAGLHLIPIVITNVIAAIASGVITKKLGLVKPLLIFGGVLGVIGAGLMTLMTNTSTKSTQIGVLLLPGFSLGFALQASLMSAQLQITKDRPEAAMDFIEVTAFNTFMKSLGTTLGGVLSTTVFSASFHNKVSRAHLEPYEGKTVDDMILYRLQNYDGSHSTIGNILSDSIKNVFWMDLGFYALGFLFCSFSSNKKLII-PKKDETPEDNLEDK----------- 'Kluyveromyces waltii NCYC2644 klwa 298-snap.4' --------------------------MSTGKESLCPEQEE--CETSKAKNNNT-------------------RLLLSLFSLGLSMFVTALDVLIVGTIIDTVCKSFGDYTKSGWIVTGYSLPNALFSLLWGRISANLGPRISIVACIVLFEAGSLISALARSMNMLIAGRVVSGVGGSGLQTLSLVIGCQLVDEKSRPLVLSLLNCTFAIASIIGPFIGGAFTTHVTWRWCFYINLPIGGVAILTFLCFYNPHNENLLEEGKKAFKRVLKFKPTSLFSS----KAMHQLLFGFDIVSFALFTAGWVLFLLALTFGGQSYSWDSGVVISFLVVGILLILLSLFYDFKLFEAMKSQE---NIRPLLCWRLMSQPTIVLSNFSGFFSTVAYNVQMIYSVQFFQLVYGFTAWKAGLHLIPILVSTVVFSIMSGVLTKKTGHIKPLLVFGSAMGVLGGGLMTLLNNTSTKHTQIGVLILPGVALGFVLPSALIACHVQLDKSNSRYGADMLEVTSVNALLKSLGTTLGSILSTMIFSTSMYNKMKSRGMSLEEYMKLDGIASYRMSNFDGARSEMGYMLSDSIKNTFWMALGSSATAFLCSLFVSKSKVNT-Q------------------------ Kluyveromyces_thermotolerans_CBS6340_klth0b10142g --------------------------MSDIETGIHSDRDRKISGESDDLSLKHKRCITLDRPKIN-----KVKLFLSLFSLGLSMFVTALDVLIVGTIIDTVCKTFGDYTKSGWIVTGYSLPNALFSLLWARLSAVLGPRISVVSCIILFEAGSLISALANSMNMLIAGRVVAGIGGSGLQTLSLVIGCQLVDEKSRPLVLSLLNCTFAVASIVGPFLGGAFTTHVTWRWCFYINLPIGGLAIAIFVFFYNPEGVNLLEKFGNTFKKVSSFHPVK----KSPKKVLQQLLFGFDILSFISFTAGWLLFLLALTFGGQTHAWNSGIVISFIIIGVLLIAISLVYDFKVFEQIKTQD---SFRPLLSWEIMSNRSILLSNFTGFFSTVAYNVQMIYSVQFFQLVYGFSAWKAGLHLIPILVSTVVFSIASGILTKKTGHIKPLLVFGSAMGVLGGGLMTLLDNKSTKHTQIGVLILPGVALGFVLPSALIACHVQLDKGNPSYGADLLETTSVNALLKSLGTTLGSILSTMVFSTSMNNKMKHGGLSLEEYDRLDGIASYRMDHFDGPRSEMGYILSDSIKNAFWMALGSSAIAFLCSIFVSKRKIAM-------------------------- Kluyveromyces_thermotolerans_CBS6340_klth0b00132g --------------------------MTEIETGQNSEYNRKISDETKDLSVKQSACIAPDASKRN-----RVKLFLSLLSLGLSMFVTALDVLIVGTIIDTVCTSFGDYTKSGWIVTGYSLPNALFSLLWGRLSAVLGPRISVISCIILFETGSLISALAKSMNMLISGRVIAGVGGSGLQTLSLVIGCQLVNEKSRPLVLSLLNCTFAVASIVGPFLGGAFTTHVTWRWCFYINLPIGGLAIAIFIFFYNPEGADLLEKGSQTFKKLLSYR----RANLSLKQLLDQLLFGFDIVSFVLFTAGWLLFLLALTFGGQTHPWKSGIVISFIIVGVLLIALSLIYDFRLFDHIKTMD---TFRPLLSWHLMSQRAILNANFTGFFSTIAYNVQMIYSVQFFQLVYGFSAWKAGLHLIPILVSTVVFSIASGVIIKKTGHIKPLLVFGSAMGVLGSGLMILLNNTSTKHTQIGVLILPGVALGFVLPAALITCHVQLDRTSPSYGADMLETTSVNALLKSLGTTVGSILSTMVFSTSLHNKMKNSNILFEVSGELDSIASYRLDHFDGPRSEMGCMLNDSIRNTFWMALGSSVVAFLCSLLVSRRKVSM-------------------------- ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 632; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 632; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 632; END; BEGIN TREES; Title 'Additional_file_9_phylogenetic_tree'; LINK Taxa = Taxa; TRANSLATE 1 'Saccharomyces cerevisiae RM11-1A sace d 04120', 2 Saccharomyces_mikatae_IFO_1815_sami_a_c798_9285, 3 Kluyveromyces_lactis_CLIB210_klla0d19941g, 4 Kluyveromyces_lactis_CLIB210_klla0e09879g, 5 Saccharomyces_mikatae_IFO_1815_sami_a_c124_14118, 6 Saccharomyces_kudriavzevii_IFO_1802_saku_c1383.2, 7 'Saccharomyces paradoxus NRRL Y-17217 sapa c403 13057', 8 'Saccharomyces paradoxus NRRL Y-17217 sapa c84 2187', 9 Saccharomyces_cerevisiae_S288C_sace0k07392g, 10 Saccharomyces_cerevisiae_YJM789_sace_e_0518, 11 Saccharomyces_cerevisiae_S288C_sace0c00132g, 12 Saccharomyces_cerevisiae_YJM789_sace_e_3474, 13 'Saccharomyces cerevisiae RM11-1A sace d 05344', 14 'Kluyveromyces waltii NCYC2644 klwa 298-snap.4', 15 Kluyveromyces_thermotolerans_CBS6340_klth0b10142g, 16 Kluyveromyces_thermotolerans_CBS6340_klth0b00132g; TREE 'Additional_file_9_phylogenetic_tree' = (2:0.52887,((14:0.13427,(15:0.09471,16:0.11929)7ir3u0udtf:0.04184)red905tmjy:0.25897,((3:0.24592,4:0.29911)q8o9g0sn3k:0.27905,(5:0.07724,((7:0.0032,8:2.4E-4)i7rckp104l:0.03923,(6:0.15777,(9:0.00271,(10:0.00135,(12:6.3E-4,(11:0.00309,13:-8.8E-4)w6h8xjopd0:0.00158)lwplpa0o0t:0.0028)pgyfmptd9i:0.00255)f7vbtntklr:0.02507)8cyzye6w7a:0.01641)ghx9eo2xu8:0.05652)u026927hh4:0.21208)xhyhv17uhx:0.02267)rowxfnf7tf:0.1856,1:0.62558)fhb0sgap85; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1387026172084; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 2750683769126815710; tell It; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 4791580557619435843; mqVersion 275; checksumv 0 3 3165808824 null getNumChars 632 numChars 632 getNumTaxa 16 numTaxa 16 short false bits 1048575 states 1048575 sumSquaresStatesOnly 8.3542547473903E13 sumSquares 8.3542547473903E13 longCompressibleToShort false usingShortMatrix false NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 409; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1125 488; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #2750683769126815710 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #2750683769126815710; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 716 421; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.trees.ManageTrees.ManageTrees; tell It; showTrees 0 #mesquite.lists.TreesList.TreesList; tell It; setTreeBlock 1; getWindow; tell It; newAssistant #mesquite.lists.NumForTreeList.NumForTreeList; tell It; suppress; setValueTask #mesquite.trees.NumberOfTaxa.NumberOfTaxa; desuppress; endTell; newAssistant #mesquite.lists.TreeListRooted.TreeListRooted; newAssistant #mesquite.lists.TreeListPolys.TreeListPolys; newAssistant #mesquite.lists.TreeListPolyAssumption.TreeListPolyAssumption; getTable; tell It; rowNamesWidth 411; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 716 421; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TreesList.TreesListWindow.ibeam; endTell; setActive; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #2750683769126815710 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlockInt 0; toggleUseWeights off; endTell; setAssignedID 838.1387025233408.4619432612894321287; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 716 421; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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; orientUp; 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 '(2:0.52887,((14:0.13427,(15:0.09471,16:0.11929)7ir3u0udtf:0.04184)red905tmjy:0.25897,((3:0.24592,4:0.29911)q8o9g0sn3k:0.27905,(5:0.07724,((7:0.0032,8:2.4E-4)i7rckp104l:0.03923,(6:0.15777,(9:0.00271,(10:0.00135,(12:6.3E-4,(11:0.00309,13:-8.8E-4)w6h8xjopd0:0.00158)lwplpa0o0t:0.0028)pgyfmptd9i:0.00255)f7vbtntklr:0.02507)8cyzye6w7a:0.01641)ghx9eo2xu8:0.05652)u026927hh4:0.21208)xhyhv17uhx:0.02267)rowxfnf7tf:0.1856,1:0.62558)fhb0sgap85;'; 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; endTell; end;