NEXUS
[File created by TreeBASE:  7/26/07  21:02:35]
[Matrix accession#: M1508]

BEGIN TAXA;
	TITLE M1508;
	DIMENSIONS  NTAX=22;
	TAXLABELS
		Pythium_ultimum	Cercomonas_sp.	Cyanophora_paradoxa	Guillardia_theta	Plaesiobystra_sp.	Macropharyngomonas_halophila	Soginia_sp.	Reclinomonas_americana	Jakoba_libera	Malawimonas_jakobiformis	Jakoba_incarcerata	Trimastix_marina	Trimastix_pyriformis_sulcatus	Trimastix_pyriformis_pyriformis	Chlorarachnion_sp.	Pisum_sativum	Volvox_carteri	Stylonychia_lemnae	Trypanosoma_brucei	Naegleria_gruberi	Euglena_gracilis	Toxoplasma_gondii
	;
END;

BEGIN CHARACTERS;
	TITLE M1508;
	DIMENSIONS NCHAR=431;
	FORMAT DATATYPE = PROTEIN SYMBOLS = " 1 2 3 4 " MISSING = ? GAP = -  ;
	MATRIX
		Pythium_ultimum                       RELVHIQGGQCGNQIGAKFWEVISDEHGVDPTGSYHGDSDLQLERINVYYNEATGGRYVPRAILMDLEPGTMDSVRAGPFGQLFRPDNFVFGQPGAGNNWAKGHYTEGAELIDSVLDVARKEAESCDCLQGFQITHSLGGGTGSGMGTLLISKIREEYPDRIMCTYSVCPSPKVSDTVVEPYNATLSVHQLVENADEVMCLDNEALYDICFRTLKLTTPTYGDLNHLVCAAMSGITTCLRFPGQLNSDLRKLAVNLIPFPRLHFFMIGFAPLTSRGSQQYRALTVPELTQQQFDAKNMMCAADPRHGRYLTAACMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKASVCDIPPKGLKMSTTFVGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAEE
		Cercomonas_sp.                        --------------IGAKFWEVISDEHGIDPTGTYRGDSDLQLERINVYFNEATGGRYVPRAILMDLEPGTMDSVRAGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKESESCDCLQGFQITHSLGGGTGSGMGTLLISKIREEYPDRMMCTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMVIDNEASYDICFRTLKLTTPTYGDLNHLVSASMSGITCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMIGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMCASDPRHGRYLTAAAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMAVTFVGNSTSIQEMFKRVSEQFTLMFRRKAFLHWYTGEG------------------------------
		Cyanophora_paradoxa                   REIVHVQGGQCGNQIGAKFWEVISDEHGVDPTGTYHGDSDLQLERINVYYNEATGGRYVPRAVLMDLEPGTMDSVRAGPYGQLFRPDNFIFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAEGCDCLQGFQITHSMGGGTGSGMGTLLIAKVREEYPDRMMCTYSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMVIDNEALYDICFRTLKLTTPTYGDLNHLVSACISGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMIGFVPLTSRGSQQYRALTVPELTQQMFDAKNMMCAADPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKASVCDIPPKGLKMSATFIGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAEE
		Guillardia_theta                      --------------IGAKFWEVISDEHGVDPTGTYHGDSDLQLERINVYFNEATGGRYVPRAVLMDLEPGTMDSVRAGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQISHSLGGGTGAGMGTLLISKIREEYPDRIMLTFSIVPSPKVSDTVVEPYNATLSVHQLVENADECFCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCSLRFPGQLNSDLRKLAVNIVPFPRLHFFMVGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMCAADPRHGRYLTAAAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKASVCDIPPKGLKMAVNFIGNSTAIQEMFKRVSEQFTGMFRRKAFLHWYTGEG------------------------------
		Plaesiobystra_sp.                     --------------IGAKFWEVISDEHGVDPTGTYHGDSDLQLERINVYYNEATGGRYVPRAILMDLEPGTMDSVRAGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMMTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLIGFAPLTSRGSQQYRALTVPELTQQMFDTKNMMAASDPRHGRYLTATAMFRGRLSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMAATFIGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Macropharyngomonas_halophila          --------------IGSKFWEVISDEHGIDPTGAYDGDSDLQLERINVYYNEATGGRYVPRSILMDLEPGTMDSVRAGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMLSTFSVFPSPKVSDTVVEPYNATLSIHQLVENSDEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSVVMSGVTCCLRFPGQLNSDLRKLAVNLVPFPRLHFFMIGFAPLTSRGSQQYRALSVPELTQQMFDAKNMMAASDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFIEWIPNNIKSSVCDIPPRGLKMSSAFIGNSTAIQEMFKRVNEQFSSMFRRKAFLHWYTGEG------------------------------
		Soginia_sp.                           --------------IGSKFWEVIADEHGVDPTGTYHGDSDLQLERINVYFNEAAGGRYVPRAVLMDLEPGTMDSVRAGPYGQMFRPDNFIFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMMTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCCLRFPGQLNSDLRKVAVNLIPFPRLHFFLIGFAPLTSRGSQKYRHLTVPELTQQMFDAKNMMAASDPRHGRYLTASAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLRMAATFVGNSTAIQEMFKRVSEQFTVMFRRKAILHWYTGEG------------------------------
		Reclinomonas_americana                --------------IGAKFWEVISDEHGVDPTGTYHGDSDLQLERINVYFNEATGGRYVPRAVLMDLEPGTMDSVRAGPYGQLFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMIGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAACDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNVKSSVCDIPPKGLKMAVTFIGNSTAIQELFKRVSEQFTATFRRKAFLHWYTGEG------------------------------
		Jakoba_libera                         --------------IGAKFWEVISDEHGVDPTGTYHGDSDLQLERINVYYNEATGGRYVPRAVLMDLEPGTMDSVRAGPYGQLFCPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMIGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAACDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNVKSSVCDIPPKGLKMAVTFIGNSTAIQELFKHVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Malawimonas_jakobiformis              --------------IGAKFWEVISDEHGVDPTGAYHGDSDLQLERINVYFNEATGGKYVPRAVLVDLEPGTMDSVRAGPFGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQICHSLGGGTGSGMGTLLIAKIREEYPDRMMCTFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVFCIDNEALYDICFRTLKLTTPTYGDLNHLVSAVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMVGFAPLTSRGSQQYRALTVPELVQQMFDAKNMMAASDPRHGRYLTAAAVFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNVKAAVCDIPPKGLKMSVTFVGNCTAIQELFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Jakoba_incarcerata                    --------------IGAKFWEVISDEHGIDPTGTYRGDSDLQLERINVYYNEATGGRYVPRAILMDLEPGTMDSVRAGPFGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQISHSLGGGTGSGMGTLLISKIREEYPDRMMMTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVMSGVTCSLRFPGQLNADLRKLAVNLIPFPRLHFFMIGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAAADPRHGRYLTASAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMAVNFVGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Trimastix_marina                      --------GQCGNQIGAKFWEVISDEHGIDPTGAYHGESELQLERINVYFNEATGGKYVPRAVLVDLEPGTMDSVRAGPFGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLIAKIREEYPDRMMCTFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTYGDLNHLVSAVMSGITCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLVGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAASDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMSVTFIGNSTAIQELFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Trimastix_pyriformis_sulcatus         --------GQCGNQIGAKFWEVISDEHGIDPTGASHGESDLQLERINVYYNEATGGKYVPRAVLVDLEPGTMDSVRAGPFGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLIAKIREEYPDRMMCTFSVVPSPKVSDTVVEPYNATLSVHQLVENSDEVMCIDNEALYDICFRTLKLTTPTYGDLNHLVSAVMSGITCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLVGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAASDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSICDIPPKGLKMAVTFIGNSTAIQELFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Trimastix_pyriformis_pyriformis       --------GQCGNQIGAKFWEVISDEHGIDPTGNYHGESELQLERINVYYNEATGGKYVPRAVLVDLEPGTMDSVRAGPFGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLIAKIREEYPDRMMCTFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTYGDLNHLVSAVMSGITCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLVGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAASDPRHGRYLTASALFRGRMSSKEVDEQMLNVQNKNSSYFVEWIPNNIKSSICDIPPKGLKMAVTFIGNSTAIQELFKRVSEQFTAMFRRKAFLHWYTGEG------------------------------
		Chlorarachnion_sp.                    --------------IGSKFWEVVSDEHGVDPTGSYQGESDLQLERINVYYNEATGGRYVPRAILMDLEPGTMDSVRAGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLVSKIREEYPDRMMCTFSVFPSPKVSDTVVEPYNAVLSFHQLVENSDECFGLDNEALYDICFRTLKLTTPTYGDLNHLVSAAMSGVTCCLRFPGQLNADLRKLAVNLIPFPRLHFFITGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMCASDPRHGRYLTAAAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSAVCDIPPKGLKMSTTFVGNSTCIQEMFQRVSAQFTMMFRRKAFLHWYTGEG------------------------------
		Pisum_sativum                         RQILHIQGGQCGNQIGAKFWEVVCAEHGIDPTGRYTGDSDLQLERIDVYYNEASGGRFVPRAVLMDLEPGTMDSIRSGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMVLDNEALYDICFRILKLSNPSFGDLNHLISATMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMVGFAPLTSRGSQQYRTLSVPELTQQMWDAKNMMCAADPRHGRYLTASAMFRGKMSTKEVDEQMMNVQNKNSSYFVEWIPNNVKSTVCDIPPTGLKMASTFIGNSTSIQEMFRRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVAEYQQYQDATAD-
		Volvox_carteri                        REIVHIQGGQCGNQIGAKFWEVVSDEHGIDPTGTYHGDSDLQLERINVYFNEATGGRYVPRAILMDLEPGTMDSVRSGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVVPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICFRTLKLTTPTFGDLNHLISAVMSGITCCLRFPGQLNADLRKLAVNLIPFPRLHFFMVGFTPLTSRGSQQYRALTVPELTQQMWDAKNMMCAADPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNVKSSVCDIPPKGLKMSATFIGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDASAEE
		Stylonychia_lemnae                    REIVHIQGGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLERINVYYNEATGGRYVPRAVLMDLEPGTMDSVRAGPFGQLFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAEGCDCLQGFQITHSLGGGTGSGMGTLLISKVREEYPDRIMATFSVVPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTYGDLNHLVSAGISGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMTGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMCASDPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMAVTFLGNSTAIQEMFKRVGEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAED
		Trypanosoma_brucei                    REIVCVQAGQCGNQIGSKFWEVISDEHGVDPTGTYQGDSDLQLERINVYFDEATGGRYVPRSVLIDLEPGTMDSVRAGPYGQIFRPDNFIFGQSGAGNNWAKGHYTEGAELIDSVLDVCCKEAESCDCLQGFQICHSLGGGTGSGMGTLLISKLREQYPDRIMMTFSIIPSPKVSDTVVEPYNTTLSVHQLVENSDESMCIDNEALYDICFRTLKLTTPTFGDLNHLVSAVVSGVTCCLRFPGQLNSDLRKLAVNLVPFPRLHFFMMGFAPLTSRGSQQYRGLSVPELTQQMFDAKNMMQAADPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFIEWIPNNIKSSVCDIPPKGLKMAVTFIGNNTCIQEMFRRVGEQFTLMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATIEE
		Naegleria_gruberi                     REIVHIQAGQCGNQIGAKFWEVISDEHGVDPTGAYHGDSDLQLERINVYYNEATGGRYVPRAILMDLEPGTMDSVRAGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMMTFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVMCIDNEALYDICFRTLKLTTPTFGDLNHLVSIVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLIGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAASDPRHGRYLTASAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPRGLKMAATFIGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAEE
		Euglena_gracilis                      REIVHIQAGQCGNQIGSKFWEVISDEQGVDPP-DIPGDSDLQLERINVYYNEATGGRYVP-AILMDLEPGTMDSVRAGPYGQIFRPDNFVFGQTGAGNNWAKGHYTEGPELIDSVLDVVRKEAESCDCLQGFQIAHSLGGGTGSGMGTLLISKIREEYPDRMMMTFSVIPSPKVSDTVVEPYNTTLSVHQLVENADEVMCIGNEALYDICLPTLKLTTPTFG-HETLVSAVMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFLVGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAASDPAHGRYLTASAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPKGLKMSATFIGNNTAIQEMFKRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATVEE
		Toxoplasma_gondii                     REIVHVQGGQCGNQIGAKFWEVISDEHGIDPTGTYCGDSDLQLERINVFYNEATGGRFVPRAILMDLEPGTMDSVRAGPFGQLFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAEGCDCLQGFQITHSLGGGTGSGMGTLLISKVREEYPDRIMETFSVFPSPKVSDTVVEPYNATLSVHQLVENADEVQVIDNEALYDICFRTLKLTTPTYGDLNHLVSAAMSGVTCCLRFPGQLNSDLRKLAVNLVPFPRLHFFLIGFAPLTSRGSQQYRALSVPELTQQMFDAKNMMCASDPRHGRYLTASAMFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNMKSSVCDIPPKGLKMSVTFVGNSTAIQEMFKRVSDQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATAEE
	;
END;

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

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