NEXUS
[File created by TreeBASE:  7/26/07  21:02:34]
[Matrix accession#: M1500]

BEGIN TAXA;
	TITLE M1500;
	DIMENSIONS  NTAX=27;
	TAXLABELS
		Cyanophora_paradoxa	Phytophthora_capcisi	Blastocystis_hominis	Spironucleus_barkhanus	Hexamita_inflata	Giardia_lamblia	oxymonad	Dinenympha_exilis	Trichomonas_vaginalis	Stylonychia_lemnae	Tetrahymena_pyriformis	Cryptosporidium_parvum	Plasmodium_falciparum	Porphyra_purpurea	Entamoeba_histolytica	Dictyostelium_discoideum	Physarum_polycephalum	Naegleria_andersoni	Acrasis_rosea	Trypanosoma_brucei	Euglena_gracilis	Nicotiana_tabacum	Arabidopsis_thaliana	Podospora_anserina	Schizosaccharomyces_pombe	Homo_sapiens	Caenorhabditis_elegans
	;
END;

BEGIN CHARACTERS;
	TITLE M1500;
	DIMENSIONS NCHAR=269;
	FORMAT DATATYPE = PROTEIN SYMBOLS = " 1 2 3 4 " MISSING = ? GAP = - ;
	MATRIX
		Cyanophora_paradoxa             STTTGHLIYKCGGIDKRTIEKFKEAAEIGKSFKYAWVLDKLKAERERGITIDIALWKFETPKYYVTIIDAPGHRDFIKNMITGTSQADCAVLVIPATREHALLAYTLGVKQMIVAVNKMDNYGQPRFEEIFVPISGFNGDNMGWYPTLVEALDPKRPSEKPLRLPLQDVGRVETGVIKGMTVVFAPSAVTTEVKSVMHALPGDNVGFNIGAGYSPVVDCHTAHIACKFSELITKIDKFVKSGDACMARLIPMCVEAFTNYPPLGRFAVR
		Phytophthora_capcisi            STTTGHLIYKCGGIDKRTIEKFKEAAELGKSFKYAWVLDNLKAERERGITIDIALWKFESPKYFFTVIDAPGHRDFIKNMITGTSQADCAILVVASTREHALLAFTLGVKQMVVAINKMDMYGQARYEEIFVPISGWEGDNMPWYPFLLEALDPKRPSDKPLRLPLQDVGRVETGVIKGMVATFGPVGLSTEVKSVMHAVPGDNVGFNIGNGYSPVLDCHTAHVACKFKEITEKMDKFVKSGDACMVILEPMTVESFQEYPPLGRFAVR
		Blastocystis_hominis            STTTGHLIYACGGIDKRTIERFEGGQRIGKSFKYAWVLDKMKAERERGITIDISLWKFQTEKYFFTIIDAPGHRDFIKNMITGTSQADVAILIIAATREHALLANTLGVKQMICCVNKMDNYSEARYKEIFIPISGFNGDNMPWYPTLIEALDPKRPVDKPLRLPLQDVGRVETGILKGMTVTFAPVGVTTEVKSVMHALPGDNVGFNIRPGYCPVMDCHTAHIACKFEKIMSEMDDIVKNGKSMMAELVPLCVESFQDYPPLGRFAVR
		Spironucleus_barkhanus          STLTGHLIYKCGGIDQRTLDEYKRANEMGKSFKYAWVLDQLKDERERGITINIALWKFETKKFTVTIIDAPGHRDFIKNMITGTSQADVAILVIASTREHATLAHTLGIKTLIVCVNKMDNYSEARYKEIFIPTSGWTGDSIPWYPCLIDAIDPKRPTDKPLRLPIQDVGRVESGLLINMTVVFAPSTTTAEVKSVMHAGPGDNVGFNIQPGYSPVIDCHTAHIACKFDAFLQKLNTEASRGECIVVRMVPLSCESFNDYAALGRFAVR
		Hexamita_inflata                STLTGHLIYKCGGIDQRTLEDYKKANEIGKSFKYAWVLDQLKDERERGITINIALWKFETKKFIVTIIDAPGHRDFIKNMITGTSQADVAILVVAATREHATLANTLGIKTMIVAVNKMDNYSEARYTEIFVPLSGWTGDNIPWYKCLIECIDPKRPNDKPLRLPIQDVGRVESGELIGMMVVFAPAGEKTEVKSVMHAGPGDNVGFNINPGYTPVLDCHTSHLAWKFDKFLAKLNTEAVRGECVLMQIVPLCVESFEQYPALGRFAVR
		Giardia_lamblia                 STLTGHLIYKCGGIDQRTIDEYKRATEMGKSFKYAWVLDQLKDERERGITINIALWKFETKKYIVTIIDAPGHRDFIKNMITGTSQADVAILVVAATREHATLANTLGIKTMIICVNKMDKYSKERYDEIYIPTSGWTGDNIPWYPCLIDAIDPKRPTDKPLRLPIQDVGRVETGELAGMKVVFAPTSQVSEVKSVMHAGPGDNVGFNIQPGYTPVIDCHTAHIACQFQLFLQKLDPDAGRGDCIIVKMVPLCCETFNDYAPLGPFAVR
		oxymonad                        STTTRHLIYKCGGIDQRTLDRFKESEAMGKSFKYAWVLDKLKAERERGITIDIALWKFETGKYYFTIIDAPGHRDFIKNMITGTSQADGAILVVAATREHALLAYTLGVRQMIVCVNKMDNWAESRYNEVMIPISGFNGDNMPWYPVLFEALDPKRPSEKPLRLPIQDVGRVETGILTGQVITIAPCMITTEVKSVMHAVPGDNVGFNIQNGYTPVLDCHTSHIACKFKEIQSKIDKSIKSGDSAFVEMQPMVVETFVEYPPLGRFAVR
		Dinenympha_exilis               STTTGHLIYKCGGIDERTIKKFQESEAMGKSFKYAWVLDKLKAERERGITIDIALWKFETNKYYFTIIDAPGHRDFIKNMITGTSQADAAILVVAATREHALLAYTLGVEQMIVCVNKMDNWAESRYNEIMIPISGFNGDNMPWYPILFDALDPKRPSDKPLRLPIQDVGRVETGILTGQVITIAPCMITTEVKSVMHAVPGDNVGFNIQNGYTPVLDCHTSHIACKFKEIQSKIDKFIKTGDSAIVEMQPMVVETFVEYPPLGRFAVR
		Trichomonas_vaginalis           STTTGHLIYKCGGLDKRKLAAIKEAEQLGKSFKYAFVMDSLKAERERGITIDISLWKFEGQKFSFTIIDAPGHRDFIKNMITGTSQADAAILVIDSTREHALLAFTLGIKQVIVAVNKMDNYNKARFDEIFVPISGWAGDNMPWYPYLLEALDPKRPFDKPLRLPLQDVGRVESGTMKGMIVNFAPSTVTAEVKSIMHALPGDNIGFNIHAGYQPVFDCHTAHIACKFDKLIQRIDEYIQKDDAAIVEVVPLVVESFQEYPPLGRFAIR
		Stylonychia_lemnae              STSTGHLIYKCGGIDKRTIEKFKEAAEMGKSFKYAWVLDKLKAERERGITIDIALWNFETAKSVFTIIDAPGHRDFIKNMITGTSQADAAILIIASTREHALLAFTMGVKQMIVAVNKMDNWDQGRFIEIFIPISGWHGDNMPWFSTLIDALDPKRPKDKPLRLPLQDVGRVETGLLKGMVLTFAPMNITTECKSVMHAEPGDNVGFTIQKGYAPVLDCHTAHIACKFDEIESKVDKFIKSGEAALVRMVPMCVEAFNQYPPLGRFAVR
		Tetrahymena_pyriformis          STTTGHLIYKCGGIDKRVIEKFKESAEQGKSFKYAWVLDKLKAERERGITIDISLWKFETAKYHFTIIDAPGHRDFIKNMITGTSQADVAILMIASTREHALLAFTLGVKQMIVCLNKMDNFSEERYQEIFIPISGFNGDNMPWYPILVEALDPKRPVDKPLRLPLQDVGRVETGVIKGMSIQFAPNKVIAECKSVMHAVPGDNVGFNIQAGYTPVLDCHTAHIACKFETIHDKIDKFIKNGDAALVTLIALCVEVFQEYPPLGRYAVR
		Cryptosporidium_parvum          STTTGHLIYKLGGIDKRTIEKFKESSEMGKSFKYAWVLDKLKAERERGITIDIALWQFETPKYHYTVIDAPGHRDFIKNMITGTSQADVALLVVPATREHALLAFTLGVRQMIVGINKMDEYKQSRFDEIFVAISGFVGDNMPWYKTLVEALDPKRPTDKPLRLPLQDVGRVETGIIRGMNVTFAPAGVTTEVKSVMHAVPGDNVGFNIKNGYSPVVDCHTAHISCKFQTITAKMDKLIKSGDAALVVMQPLCVEAFTDYPPLGRFAVR
		Plasmodium_falciparum           STTTGHIIYKLGGIDRRTIEKFKESAEMGKSFKYAWVLDKLKAERERGITIDIALWKFETPRYFFTVIDAPGHKDFIKNMITGTSQADVALLVVPATKEHALLAFTLGVKQIVVGVNKMDKYSEDRYEEIFIPISGFEGDNLPWYRTLIEALDPKRPYDKPLRIPLQGVGRVETGILKGMVLNFAPSAVVSECKSVMHARPGDNIGFNIKNGYSPVLDCHTAHISCKFLNIDSKIDKSIKSGDSALVSLEPMVVETFTEYPPLGRFAIR
		Porphyra_purpurea               STTTGHLIYKCGGIDKRAIEKFKEAAEMGKSFKYAWVLDKLKAERERGITIDIALWKFETDKYNFTIIDAPGHRDFIKNMITGTSQADLAILVIASTREHALLAYTLGVKQMIVACNKMDNWSKERYEEVKVPTSGWTGENLKWYPCLLEALDPKRPVDKPLRLPLQDVGRVETGVIKGMVVTFAPSGLSTEVKSVMHAGPGDNVGFNIHAGYAPVLDCHTAHIACKFSELILKMDKMIKSGDAAMVKMVPMCVEAFTSYPPLGRFAVR
		Entamoeba_histolytica           STTTGHLIYKCGGIDQRTIEKFKESAEMGKSFKYAWVLDNLKAERERGITIDISLWKFETSKYYFTIIDAPGHRDFIKNMITGTSQADVAILIVAATREHILLSYTLGVKQMIVGVNKMDQYKQERYEEIFVPISGFQGDNMPWYPTLIGALDPERPVDKPLRLPLQDVGRVETGILKGTIVQFAPSGVSSECKSIMHAIPGDNVGFNIRKGYTPVLDCHTSHIACKFEELLSKIDEYIKNGDSALVKIVPLCVEEFAKFPPLGRFAVR
		Dictyostelium_discoideum        STTTGHLIYKCGGIDKRVIEKYKEASEMGKSFKYAWVMDKLKAERERGITIDIALWKFETSKYYFTIIDAPGHRDFIKNMITGTSQADCAVLVIASTREHALLAYTLGVKQMIVAINKMDNYSQARYDEIFVPISGWNGDNMEWYPTLLEALDPKRPHDKPLRIPLQDVGRVETGIIKGMVVTFAPAGLSTEVKSVMHARPGDNVGFNIHAGYSPVLDCHTAHIACKFTEIVDKVDVVLKNGDAAMVELTPMCVESFTEYPPLGRFAVR
		Physarum_polycephalum           STTTGHLIYKCGGIDKRTIEKFKEAAEMGKSFKYAWVLDKLKSERERGITIDIALWKFETAKYYITIIDAPGHRDFIKNMITGTSQADAAVLVIASTREHALLAYTLGVKQMIVAINKMDNWSQARYDEIFVPISGWNGDNMPWYPTLLEALDPKRPTDKPLRVPLQDVGRVETGILKGMIVTFAPANLSTEVKSVMHAVPGDNVGFNIHAGYAPVLDCHTAHIACKFTEILSKVDKNIKNGDAAIVKLTPMCVESFTDFPPLGRFAVR
		Naegleria_andersoni             STTTGHLIYKCGGIDKRVIEKFKEAAEMGKSFKYAWVLDKLKAERERGITIDIALWKFESKKYVFTIIDAPGHRDFIKNMITGTSQADVAILVVDSTREHALLAYTLGIKQMIVCMNKFDSYKEDRYNEIFVPISGWTGDNMPWYPCLLDALDPVRPTDKPLRLPFQDVGRVETGKLKGMMIHFAPGQADTEVKSVMHAGPGDNVGFNIRAGYTPVLDCHTSHIACKFDKLIDKIDEKIKKGDSAIVQVIPMCVEGFTEYPPLGRFAVR
		Acrasis_rosea                   STTTGHLIYKCGGIDKRVIEKFKEAAEIGKSFKYAWVMDKLKAEKERGITIDISLWKFQSAKYDFTIIDAPGHRDFIKNMITGTSQADVAILMIDSTREHALLAQTLGVKQMIVCLNKFDNFSQARYDEIFIPLSGFQGYNMPWYPCLLEALDPKRPTDKPLRLPLQDVGRVETGLLKGMNVTFAPGNKTTEVKSVMHAEPGDNVGFNISNGYSPVLDCHTAHIACKFETIKSLIDKGLKRGDSGIVKLVPMCVESYTEYPPLGRFAVR
		Trypanosoma_brucei              STATGHLIYKCGGIDKRTIEKFKEAADIGKSFKYAWVLDKLKAERERGITIDIALWKFESPKSVFTIIDAPGHRDFIKNMITGTSQADAAILIIASTREHALLAFTLGVKQMVVCCNKMDNYGQERYDEIFVPISGWQGDNMPWYPTLLEALDPVRPSDKPLRLPLQTCGRVETGVMKGDVVTFAPANVTTEVKSIMHATPGDNVGFNIGNGYAPVLDCHTSHIACKFAEIESKIDKSIKSGDAAIVRMVPMCVEVFNDYAPLGRFAVR
		Euglena_gracilis                STTTGHLIYKCGGIDKRTIEKFKEASEMGKSFKYAWVLDKLKAERERCITIDIALWKFETAKSVFTIIDAPGHRDFIKNMITGTSQADAAVLVIDSTREHALLAYTLGVKQMIVATNKFDKYSQARYEEIFIPISGWNGDNMGWYLTLIGALDPKRPSDKPLRLPLQDVGRVETGVLKGDVVTFAPNNLTTEVKSVMHAVPGDNVGFNIGNGYAPVLDCHTCHIACKFATIQTKIDKFIKSGDAAIVLMKPMCVESFTDYPPLG-VSCG
		Nicotiana_tabacum               STTTGHLIYKLGGIDKRVIERFKEAAEMNKSFKYAWVLDKLKAERERGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTREHALLAFTLGVKQMICCCNKMDKYSKARYDEIFVPISGFEGDNMDWYPTLLEALDPKRPSDKPLRLPLQDVGRVETGVLKGMVVTFGPTGLTTEVKSVMHALPGDNVGFNIGNGYAPVLDCHTSHIAVKFAEILTKIDKFLKNGDAGMVKMIPMVVETFSEYPPLGRFAVR
		Arabidopsis_thaliana            STTTGHLIYKLGGIDKRVIERFKEAAEMNKSFKYAWVLDKLKAERDRGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTREHALLAFTLGVKQMICCCNKMDKYSKARYDEIFVPISGFEGDNMDWYPTLLEALDPKRPSDKPLRLPLQDVGRVETGMIKGMVVTFAPTGLTTEVKSVMHALPGDNVGFNIGNGYAPVLDCHTSHIAVKFSEILTKIDKFLKNGDAGMVKMTPMVVETFSEYPPLGRFAVR
		Podospora_anserina              STTTGHLIYKCGGIDKRTIEKFKEAAELGKSFKYAWVLDKLKAERERGITIDIALWKFETPKYYVTVIDAPGHRDFIKNMITGTSQADCAILIIAATREHALLAYTLGVKQLIVAINKMDKWSEARFNEIFVPISGFNGDNMPWYKTLLEAIDPKRPTDKPLRLPLQDVGRIETGILKGMVVTFAPSNVTTEVKSVMHGVPGDNVGFNVGAGYAPVLDCHTAHIACKFSELLQKIDKFIKSGDAAIVKMVPMCVEAFTEYPPLGRFAVR
		Schizosaccharomyces_pombe       STTTGHLIYKCGGIDKRTIEKFKEATELGKSFKYAWVLDKLKAERERGITIDIALWKFETPKYNVTVIDAPGHRDFIKNMITGTSQADCAVLIIGGTREHALRAYTLGVKQLIVAVNKMDGWSQARFEEIFVPVSGFQGDNMPWYKTLLEAIDPARPTDKPLRLPLQDVGRVETGVIKGMIVTFAPAGVTTEVKSVMHGLPGDNVGFNISAGYSPVLDCHTAHIACKFAELIEKIDKFVKSGDACIAKMVPMCVEAFTDYAPLGRFAVR
		Homo_sapiens                    STTTGHLIYKCGGIDKRTIEKFKEAAEMGKSFKYAWVLDKLKAERERGITIDISLWKFETSKYYVTIIDAPGHRDFIKNMITGTSQADCAVLIVAATREHALLAYTLGVKQLIVGVNKMDPYSQKRYEEIFVPISGWNGDNMPWFTTLLEALDPTRPTDKPLRLPLQDVGRVETGVLKGMVVTFAPVNVTTEVKSVMHALPGDNVGFNISAGYAPVLDCHTAHIACKFAELKEKIDKFLKSGDAAIVDMVPMCVESFSDYPPLGRFAVR
		Caenorhabditis_elegans          STTTGHLIYKCGGIDKRTIEKFKEAQEMGKSFKYAWVLDKLKAERERGITIDIALWKFETAKYYITIIDAPGHRDFIKNMITGTSQADCAVLVVACTREHALLAQTLGVKQLIVACNKMDPFSEARFTEIFVPISGFNGDNMPWFKTLLEALDPQRPTDRPLRLPLQDVGRVETGIIKGMVVTFAPQNVTTEVKSVMHAVPGDNVGFNISNGYTPVLDCHTAHIACKFNELKEKVDKFLKSGDAGIVELIPLCVESFTDYAPLGRFAVR
	;
END;

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

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