NEXUS
[File created by TreeBASE:  7/26/07  21:02:35]
[Matrix accession#: M1505]

BEGIN TAXA;
	TITLE M1505;
	DIMENSIONS  NTAX=15;
	TAXLABELS
		Spinacia_oleracea	Zea_mays	Sorghum_bicolor	Flaveria_bidentis	Echinococcus_granulosus	Mycobacterium_leprae	Mycobacterium_tuberculosis	Sus_scrofa	Homo_sapiens	Trichomonas_vaginalis	Medicago_sativa	Arabidopsis_thaliana	Mesembryanthemum_crystallinum	Zea_mays	Thermus_flavus
	;
END;

BEGIN CHARACTERS;
	TITLE M1505;
	DIMENSIONS NCHAR=319;
	FORMAT DATATYPE = PROTEIN SYMBOLS = " 1 2 3 4 " MISSING = ? GAP = -  ;
	MATRIX
		Spinacia_oleracea                   ITIAISGAAGTISNHLLFKLASGVVFGPDQPIALKLLGSEKSFHALEGVAMELEDSLYPLLREVSIGIDPYEVFEDAEWALLIGAKPRGPGMERADLLDINGKIYAEQGKALNAVASPNVKVIVVGNPCNTNALICLKNPPNIPAKNFHSLTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFVNAQIGGVPVKEVIKAQKWLEEEFTEKVRKRGGVLIQKWGRSSAASTAVSIVDAINPLITPTPPGDWFPSGVYTNGPYGIAEDLIYSMPCRSKGDGDYELVKDVIFDDYLRKRIKTSEEELLAEKRCT
		Zea_mays                            VNVAVSGAAGMISNHLLFKLASGEVFGQDQPIALKLLGSERSFQALEGVAMELEDSLYPLLREVSIGIDPYVVFQDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASRNDEVLVVGNPCNTNALICLKNAPNIPAKNFHALTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFLNAKIDGRPVKEVIKDTKWLEEEFTLTVQKRGGVLIQKWGRSSAASTAVSIVDAIRSLVTPTPEGDWFSTGVYTTGPYGIAEDIVFSMPCRSKGDGDYELASDVLMDDFLWERIKKSEAELLAEKKCV
		Sorghum_bicolor                     VNIAVSGAAGMISNHLLFKLASGEVFGQDQPIALKLLGSERSFQALEGVAMELEDSLYPLLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCNTNALICLKNAPDIPAKNFHALTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFLNAKIDGRPVKEVIKDTKWLEEEFTITVQKRGGALIQKWGRSSAASTAVSIADAIKSLVTPTPEGDWFSTGVYTTGPYGIAEDIVFSMPCRSKGDGDYELATDVSMDDFLWERIKKSEAELLAEKKCV
		Flaveria_bidentis                   INVAVSGAAGMISNHLLFKLASGEVFGPDQPISLKLLGSERSFAALEGVAMELEDSLYPLLRQVSIGIDPYEIFQDAEWALLIGAKPRGPGMERADLLDINGQIFAEQGKALNAVASPNVKVMVVGNPCNTNALICLKNAPNIPPKNFHALTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFLNAKIHGIPVTEVIRDRKWLEDEFTNMVQTRGGVLIKKWGRSSAASTAVSIVDAIRSLVTPTPEGDWFSTGVYTNGPYGIAEDIVFSMPCRSKGDGDYEFVKDVIFDDYLSKKIKKSEDELLAEKKCV
		Echinococcus_granulosus             LRVLITGAAGQIAYNLSNMVANGNLFGKDQQIILHLLDIPEAKTVLDGVVMELQDCAFTVLAGIVPTHCLKEAFTDIDVALMVGAMPRKQGMERRDLLSSNVKIFKEQGEALDKYAKKTVKALVVGNPANTNCLIMSKYAPSIPKENFTALTRLDHNRAIYQVAAKAGVPNTCVKNVCIWGNHSNKQFPDLSHAVVTQHPAKELINDEKWVKEVFTPCVQNRGAAVIGLRKLSSAASAAKAIVDQMRDWWFGTKEGEWVSMSVYSTGHYGAPKDIYFSFPVTIK-DGHYKVVDGLSMDEWSRSLFNLSADELVDEREVA
		Mycobacterium_leprae                LKVAVTGAAGQIGYSLLFRLASGSLLGLDRPIELRLLEIEPALKALEGVVMELDDCAFLLLAGVEIGADPNKVFDGVNLALLVGARPRGPGMERGDLLEANGAIFTAQGKALNAVAAADIRVGVTGNPANTNALIAMTNAPDIPRERFSALTRLDHNRAIAQLATKTGSAVTDIRKMTIWGNHSATQYPDVFHAEIGGKNAAEVVGDQAWIEDYFIPTVAKRGAAIIDARGASSAASAASATIDAARDWLLGTPEGNWVSMAVVSDGSYGVPEGLISSFPVTTT-DGDWTIVRGLGIDDFSRGRIDKSTAELADERMAV
		Mycobacterium_tuberculosis          LKVAVTGAAGQIGYSLLFRLASGSLLGPDRPIELRLLEIEPALQALEGVVMELDDCAFPLLSGVEIGSDPQKIFDGVSLALLVGARPRGAGMERSDLLEANGAIFTAQGKALNAVAADDVRVGVTGNPANTNALIAMTNAPDIPRERFSALTRLDHNRAISQLAAKTGAAVTDIKKMTIWGNHSATQYPDLFHAEVAGKNAAEVVNDQAWIEDEFIPTVAKRGAAIIDARGASSAASAASATIDAARDWLLGTPADDWVSMAVVSDGSYGVPEGLISSFPVTTK-GGNWTIVSGLEIDEFSRGRIDKSTAELADERSAV
		Sus_scrofa                          IRVLVTGAAGQIAYSLLYSIGNGSVFGKDQPIILVLLDITPMMGVLDGVLMELQDCALPLLKDVIATDKEEIAFKDLDVAILVGSMPRRDGMERKDLLKANVKIFKCQGAALDKYAKKSVKVIVVGNPANTNCLTASKSAPSIPKENFSCLTRLDHNRAKAQIALKLGVTSDDVKNVIIWGNHSSTQYPDVNHAKVKEVGVYEAVKDDSWLKGEFITTVQQRGAAVIKAQKLSSAMSAAKAICDHVRDIWFGTPEGEFVSMGIISDGSYGVPDDLLYSFPVTIK-DKTWKIVEGLPINDFSREKMDLTAKELAEEKETA
		Homo_sapiens                        IRVLVTGAAGQIAYSLLYSIGNGSVFGKDQPIILVLLDITPMMGVLDGVLMELQDCALPLLKDVIATDKEDVAFKDLDVAILVGSMPRREGMERKDLLKANVKIFKSQGAALDKYAKKSVKVIVVGNPANTNCLTASKSAPSIPKENFSCLTRLDHNRAKAQIALKLGVTANDVKNVIIWGNHSSTQYPDVNHAKVKEVGVYEALKDDSWLKGEFVTTVQQRGAAVIKARKLSSAMSAAKAICDHVRDIWFGTPEGEFVSMGVISDGSYGVPDDLLYSFPVVIK-NKTWKFVEGLPINDFSREKMDLTAKELTEEKESA
		Trichomonas_vaginalis               IHILITGAAGQIGYALTFRIAKGDLCG-DRKVVLHLLEIPFGMKALEGCVMELQDCAFPNVAGIVWTDKVEEAFKGVDVAFLVGSFPRKDGMDRSDLLAKNGGIFTVQGKALNDYAKPTVKVLVVGNPANTNCLIAQASAPKLQNKNWCAMTRLDHNRMVGALAAKFGVTPEKIHKVCIWGNHSNTQVPDTTHATVDTVKVADKL-PKEYLEGEFAQMIATRGGAVIKMRGASSAASAANAALTCVKDWLYGTAEGDFVSMAIPVPDPYGIKQGTIFSFPVTVSKDGEVHVVEGLELNDWVKGRLEATEKELIGEKETA
		Medicago_sativa                     VRVLVTGAAGQIGYALVPMIARGVMLGPDQPVILHMLDIAPAAESLNGVKMELVDAAFPLLKGVVATTDVVEACTGVNIAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAANCKVLVVANPANTNALILKEFAPSIPERNISCLTRLDHNRALGQISERLNVQVSDVKNVIIWGNHSSTQYPDVNHATVNEKPVRQLVSDDAWLNGEFISTVQQRGAAIIKARKLSSALSAASAACDHIRDWVLGTPQGTFVSMGVYSDGSYNVPSGLIYSFPVTCA-NGEWKIVQGLSIDEFSRKKLDLTAEELTEEKNLA
		Arabidopsis_thaliana                VRVLVTGAAGQIGYALVPMIARGIMLGADQPVILHMLDIPPAAEALNGVKMELIDAAFPLLKGVVATTDAVEGCTGVNVAVMVGGFPRKEGMERKDVMSKNVSIYKSQAAALEKHAAPNCKVLVVANPANTNALILKEFAPSIPEKNISCLTRLDHNRALGQISERLSVPVSDVKNVIIWGNHSSSQYPDVNHAKVQEKPVRELVKDDAWLDGEFISTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPEGTFVSMGVYSDGSYSVPSGLIYSFPVTCR-NGDWSIVQGLPIDEVSRKKMDLTAEELKEEKDLA
		Mesembryanthemum_crystallinum       LRVLVTGAAGQIGYALVPMIARGIMLGANQPVILHMLDIPPAAEALNGVKMELVDAAFPLLKGVVATTDAAEACKGVNVAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEQHAAPNCKVLVVANPANTNALILKEFAPSIPEKNISCLTRLDHNRALGQISERLNVQVSDVKNVIIWGNHSSTQYPDVNHATVKDKPVRELVADDAWLNGEFITTVQQRGAAIIKARKLSSALSAASSACDHIHDWVLGTPEGTWVSMGVYSDGSYNVPAGIIYSFPVTCK-NGEWTIVQGLPIDDDSRKKMDATAAELVEEKTLA
		Zea_mays                            MRVLVTGAAGQIGYALVPMIARGVMLGADQPVILHMLDIPPAAEALNGVKMELVDAAFPLLKGVVATTDVVEACTGVNVAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEAHAAPNCKVLVVANPANTNALILKEFAPSIPEKNVTCLTRLDHNRALGQISERLNVQVSDVKNVIIWGNHSSSQYPDVNHATVKEKPVRELVSDDEWLNGEFITTVQQRGAAIIKARKFSSALSAASSACDHIRDWVLGTPEGTFVSMGVYSDGSYGVPSGLIYSFPVTCS-GGEWKIVQGLPIDEFSRKKMDATAQELTEEKTLA
		Thermus_flavus                      VRVAVTGAAGQIGYSLLFRIAAGEMLGKDQPVILQLLEIPQAMKALEGVVMELEDCAFPLLAGLEATDDPKVAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANTNALIAYKNAPGLNPRNFTAMTRLDHNRAKAQLAKKTGTGVDRIRRMTVWGNHSSTMFPDLFHAEVDGRPALELV-DMEWYEKVFIPTVAQRGAAIIQARGASSAASAANAAIEHIRDWALGTPEGDWVSMAVPSQGEYGIPEGIVYSFPVTAK-DGAYRVVEGLEINEFARKRMEITAQELLDEMEQV
	;
END;

BEGIN CODONS;
CODESET * UNTITLED = Universal: all ; 
 END;

BEGIN ASSUMPTIONS;
OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS ; 
 END;