NEXUS
[File created by TreeBASE:  7/26/07  20:57:59]
[Matrix accession#: M718]

BEGIN TAXA;
	TITLE M718;
	DIMENSIONS  NTAX=17;
	TAXLABELS
		Claviceps_purpurea	Claviceps_fusiformis	Claviceps_sulcata	Claviceps_grohii	Claviceps_zizaniae	Claviceps_paspali	Claviceps_citrina	Claviceps_sp._PM	Claviceps_sp._SG	Claviceps_phalaridis	Claviceps_sorghicola	Claviceps_viridis	Claviceps_pusilla	Claviceps_africana	Claviceps_gigantea	Claviceps_sorghi	Epichloe_amarillans
	;
END;

BEGIN CHARACTERS;
	TITLE M718;
	DIMENSIONS NCHAR=559;
	FORMAT DATATYPE = DNA MISSING = N GAP = -  ;
	MATRIX
		Claviceps_purpurea         ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCN-CGCAAGGGA-GCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_fusiformis       ATCATTACCGAGTTTACACTCCCAAACCCAATGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCC-CGCAAGGGAGGCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGACCGACCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGTGTCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_sulcata          ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCCCCGCAAGGGAGGCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGATGAA
		Claviceps_grohii           ATCATTACCGAGTTTACACTCCCNAACCCATTGTGAACTTCTACCCCAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCCCCGCAAGGGG-GCCAAGGC--GCCCGCCCGCCAGGGGACCCCAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACCAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCGC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGTTTCGGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAACCAGGAGCGCGGCGCGGCCACGGCCGTAAAACGCCCAACTTTTTC-AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_zizaniae         ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGTACCCTCGTCGACGACCCCCCTCCCACGGGGCGACAAGGA--GCCCCCCCGCCAGAGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCCGCGGGTGCGGGCTTCGGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCANCNTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_paspali          ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACATATACCCAAACGTTGCCTCGGCGGGCTCCGNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGNGCCNGCCGGGGGTCCCGAACCC-TCTGTTTTCTCCAGCGGCACGTCTGAGTGGATATAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_citrina          ATCATTAACGAGTTTACACTCCCAAACCCACTGTGAACCTGTACCT-ANNGTTGCCTCGGCGTGNNNCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGGCGCCCGCCGGGGGACCCAAACTCTTCTGTATCTTCTAGGGGCATGTCTGAGTGGATTTTAAATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCGCC-CGCCTGGTGTTGGGGGACGGCACCCGNNNNNNN-NNNNNNNNNNNNNNNCTGCCGCCCCTGAAATAGATCGGCGGCCCCGCCGCGGCCTTCCCTTGCGCAGTAACATACCACCTCGCAAACAGGAGCCCGGCGCGGCCACTGCCGTAAAACGCACGACTC-CTCCAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_sp._PM           ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCG-AACGTTGCCTCGGCGGGACCCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-CCGCCGGGGGACCCAAANNCTCCTGTATCTCTTNGCGGCATGTCTGAGTGGATTTNNNTACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTNTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGTGCTTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCTCGCGCGGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGACGCGGCCTCCCCCTGCGCAGTAACATACCACCTCGCAGGCGGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_sp._SG           ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCC-AACGTTGCCTCGGCGGGACCCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-CCGCCGGGGGACCNGAACACTCCTGTATCTCTTCGCGGCTTGTCTGAGTGGATTTTCTTACGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCGCCGCGCCTGGTGTTGGGGACCGGCTCCCGGGGGGGGGCATTGCGGGGGCGCCCTGCCGCCCCCCAAATAGATCGGCGGCCACGACGCGGCCTCCCCCTGCGCAGTAACGTACCACCTCGCAGGCGGGAGCGCGGCGCGGCCACCGCCGTAAAACGCCCAACTT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCAGCTGAA
		Claviceps_phalaridis       ATCATTACCGAGTTGCAACTCCCCAACCCCCTGTGAACCTCTACCGAACCGTTGCCTCGGCGGGNNCCGCCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGCCCGCCGGGGGACCCCAACCATCCTGTATNTCTTAGCGGCGTGTCTGAGTGGATTTAGTATCGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGNGCATGCCTGTTCGAGCGTCGTTTCAACCCTCAAGCCCTGGGCTTGGTGTTGGGGACCGGCACCCNNNNNNNN-NNNNNNNNNNNNNNNNNGCCGCCCCCGAAATGCATCGGCGGCCACGCCGCGGCCTCCCCCCGCGCAGTAGCGTACCACCTCGCGGGCGGGATCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTT-CNCACGAGTTGACCTCGAATCAGGCAGGAATACCCGCTGAA
		Claviceps_sorghicola       ATCATTACCGAGTTTACACTCCCAAACCCCCTGTGAACCTCTACCG-AACGTTGCCTCGGCGGGGNNNGCNGCGGACGCGCGCCGTCNNNNNNNNNNNNNNNCCNNGNCCNCCCGCCGGGGGACCCAAACCCTCTTGTATCTCCTCGTGGCATGTCTGAGTGGATTTNNNATCAAATGAATCAAAACTTTCAACAACGGATCTCTAGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCCCCGGGCCTGGTGTTGGGGACCGGCTCCCCGGGGCCCGGTCTGACCCGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGCGGCTCGGCGCGGCCACNGCCGTAAAACGCCCAACTT-CTCCAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_viridis          ATCATTACCGAGTTTACACTCCCAAACCCCCTGTGAACCTCTACCG-AACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCCTCGCGGGGCG-CCGGAGCCATGGCCGCCCGCCGGGGGACCCAAACC-NNCTGTATCTCTNCGCGGCATGTCTGAGTGGATTTNNNATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCNNGGCTTGGTGTTGGGGACCGGCTCCCGGGGGGCCGCCACGCGCGGGCGCCCTGCCGCCCCCTAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACGTACCANNNCGCAGGCGGCGGCTCGGCGCGGCCACTGCCGTAAAACGCACAACCT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_pusilla          ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCC-AACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCATCGCAGGGTG-CCGGA-CCAAGGCGGCCCGCCGGGGGACCCAAACT-CACTGTATCTCTTTTTGGCATGTCTGAGTGGATTANNNCACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCTNNGCTTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCTCGCGCGGGCG-CCTGCCGCCCCCTAAATCGATCGGCGGCCACGACGCGGCCCCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGNAGCCCGCCGCGGCCACTGCCGTAAAACGCCCAACTt-CTCAAGAGTTGACCTCGAATCAGGTAGgAATACCcGCTGAA
		Claviceps_africana         ATCATTACCGAGTTTACACTCCCAAACCCCATGTGAACCTCTACCGAAACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCCTCT-GGGGTG-CCGGAACCAAGGCGGCCCGCCGGGGGACCCCAACCACTCTGTAACACCTCCGGGAACGTCTGAGTGGATTTNNNACCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCCCCGGGCCTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCACGCGCGGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAGCATACCACCTCGCAGGCGGCGGACCGGCGCGGCCACGGCCGTAAAACGCCCAACNN-NTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_gigantea         ATCATTACCGAGTTTACACTCCCAAACCCCATGTGAACCTCTACCG-AACGTTGCCTCGGCGGGACGCGTCCCGGCCCCGCCCCTTCTCGGGGTG-CCGGAGCCGAGCCCGCCCGCCGGGGGACCCCAACCACTCTGCATATATCATNGGCATGTCTGAGTGGATTTAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGGGTTTGGTGTTGGCGACCGGCACACGGGGAGGGGCCACGTGCCCCCCCCGCGCCGTCGCCCAAATGGATCGGCGGCCACGCCGCGGCATCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGCGGCCCGGCCCGGTCTCTGCCGTAAAACCCCCAACTTTCTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Claviceps_sorghi           ATCATTACCGAGTTTACACTCCCNAACCCCATGTGAACCTCTACCG-AACGTTGCCTCGGCGGGACGCGCCCCGGCC-CGCCCCCCCCAGGGGCGCCGGGAACCAGGGCCGCCCGCCGGGGGACCAAAACC-CTCTGTATCTCNCANNGGAACGTCTGAGTGGATTTAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGGGCTTGGTGCTGGGGACCGGCTCCCGGGGGGGGGAAAANNNCCCCCCCCCTGNCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACATACTNNCTCGCAGGCGGCGGCCCGGCGCGGCCACTGCCGCAAAAAGCCCAACTC-CTCACGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA
		Epichloe_amarillans        ATCATTACCGAGTTTACACTCCCAAAACCCCTGTGCACCTATACCCTACTGCTGCCTCGGCGGGCACGGCCGCGGAC-NGCCCCCTCGC-GGGGGCGCCGGGGC-TAGGCGCCCGCCGGGGGACCCAAACCCTTCTGTATTTTCTTACNGCATGTCTGAGTGGATTGAATATCGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATANGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCNNNNNNGCCCGCCTCGCGGCGGNNNCGNGCCGCCCCTGAAATGAATCGGCGGTCTCGTCGCAGCCTCC-TTTGCGTAGTAACACACCACCTCGCAACCGGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTCTCCAAGAGTTGACCTCGAATCAGGTAGGACTACCCGCTGAA
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 559 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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