#NEXUS
[File created by TreeBASE:  1/16/09  15:09:02]
[Matrix accession#: M1000]

BEGIN TAXA;
	TITLE M1000;
	DIMENSIONS  NTAX=10;
	TAXLABELS
		Phytophthora_cinnamomi	Phytophthora_vignae	Phytophthora_cajani	Phytophthora_melonis	Phytophthora_sinensis	'Phytophthora drechsleri-like'	Phytophthora_pistaciae_b	Phytophthora_pistaciae_a	Phytophthora_sojae_b	Phytophthora_sojae_a
	;
END;

BEGIN CHARACTERS;
	TITLE M1000;
	DIMENSIONS NCHAR=835;
	FORMAT DATATYPE = DNA MISSING = ? GAP = -  ;
	MATRIX
		Phytophthora_cinnamomi               CCACACCTAAAAAA-CTTTCCACGTGAACCGTTTCAACCCAATTAGTTGGGGGCCTGCTCTGGGCGGCGGT-TGTC-GATGTCAAAGTCGACGG-TTGCTGTTGCGTGGGGGGCCCTATCACTGGCGAGCG-TTTGGGTCCCCCTCG-GGGGAACTGAGCTAGTAGCCTCTCTTTTAAACCCATCCTGTAATACTGAACATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTGGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGGTGCCAGACGTGAGGTGTCTTGCGG-GCGGTCTTCGGACTGGCTGTGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGCTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTCCGATTCGCGGTATGGTTGGCTCCGGCTGAACAAAGCGCTTATTGGATGTTCCTCCCTGCTGTGGCGGTACGGATCGGTGAACCGTAGCTGTGCTAGGCTTGGCGTTTGAACCGGCGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTCTCTCCGGCGCACTTGTGTGCTTGTGGTGGCATCTCAA
		Phytophthora_vignae                  CCACACCTAAAAAAACTTTCCACGTGAACCGTTTCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTAGCTGTC-GATGTCAAAGTCGGCGACTGGCTGCTATGTGACGGGCTCTATCA-TGGCAATTGGTTTGGGTCCTCCTCGTGGGGAACTAGATCATGAGCCCACTTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGGGCTGGTGAACCGTAGTTGTGCAAGGCTTGGCTTTTGAACCGGTGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTTTGTGTTGTCTCTGCGGCTTGCTGTG---GAGGTAGCATCTCAA
		Phytophthora_cajani                  CCACACCTAAAAAA-CTTTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTAGCTGTC-GATGTCAAAGTCGGCGACTGGCTGCTATGTGGCGGGCTCTATCA-TGGCAATTGGTTTGGGTCCTCCTCGTGGGGAACTAGATCATGAGCCCACTTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTCGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTATGGTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGGGCTGGTGAACCGTAGTTGTGCAAGGCTTGGCTTTTGAACCGGTGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGTG---GAGGTAGCATCTCAA
		Phytophthora_melonis                 CCACACCTAAAAAA-CTTTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTAGCTGTC-GATGTCAAAGTCGGCGACTGGCTGCTATGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACCTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGTGGTATGGGCTGGTGAACCGTAGTTGTGCGAGGCTTGGCTTTTGAACCGGCGGTGTTGTAGCGAAGTAGAGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGTG---GAGGTAGCATCTCAA
		Phytophthora_sinensis                CCACACCTAAAAAA-CTTTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTAGCTGTC-GATGTCAAAGTCGGCGACTGGCTGCTATGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACCTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGTGGTATGGGCTGGTGAACCGTAGTTGTGCGAGGCTTGGCTTTTGAACCGGCGGTGTTGTAGCGAAGTAGAGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGTG---GAGGTAGCATCTCAA
		'Phytophthora drechsleri-like'       CCACACCTAAAAAA-CTTTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTAGCTGTC-GATGTCAAAGTCGGCGACTGGCTGCTATGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACCTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGAAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGTGGTATGGGCTGGTGAACCGTAGTTGTGCGAGGCTTGGCTTTTGAACCGGCGGTGTTGTAGCGAAGTAGAGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGTG---GAGGTAGCATCTCAA
		Phytophthora_pistaciae_b             CCACACCTAAAAAA-CTTTCCACGTGAACCGCATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTGGCTGTC-GATGTCAAAGTCGGCGGCTGGCTGCTATGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACTTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGGGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTAAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGGGCTGGTGAACCGTAGCTGTGCGAGGCTTGGCTTTTGAACCGGCGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGAGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGCG---GAGGTGGCATCTCAA
		Phytophthora_pistaciae_a             CCACACCTAAAAAA-CTTTCCACGTGAACCGCATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTGGCTGTC-GATGTCAAAGTCGGCGGCTGGCTGCTATGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACTTTTTAAACCCATTCTTGATTACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGGGGTGTCTTGCGGCGCGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTAAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCAGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGGGCTGGTGAACCGTAGCTGTGCGAGGCTTGGCTTTTGAACCGGCGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGAGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGCG---GAGGTGGCATCTCAA
		Phytophthora_sojae_b                 CCACAACTAAAAAA---TTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGGCTGCTCTGTGTGGCTGTCTGTC-GATGTCAAAGTCGGCGGCTGGCTGCTGTGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACTTTTTAAACCCATTCTTAAATACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGTGGCCTTCGGCCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGCCTGCCTGTATGGCCAGTCGGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGAGCTGGTGAACCGTAGCTGTGTGAGGCTTGGCTTTTGAACCGGCGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGCG---GAG--TGCATCTCAA
		Phytophthora_sojae_a                 CCACACCTAAAAAA-CTTTCCACGTGAACCGTATCAAC--AAGTAGTTGGGGGCCTGCTCTGTGTGGCTGTCTGTCCGACGTCAAAGTCGGCGGCTGGCTGCTGTGTGGCGGGCTCTATCA-TGGCGATTGGTTTGGGTCCTCCTCGTGGGGAACTGGATCATGAGCCCACTTTTTAAACCCATTCTTAAATACTGAATATACTGTGGGGACGAAAGTCTCTGCTTTTAACTAGATAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGGAGACGCCAGACGTGAGGTGTCTTGCGGCGTGGCCTTCGGGCTGCCTGCGAGTCCCTTGAAATGTACTGAACTGTACTTCTCTTTGCTCGAAAAGCGTGACGTTGTTGGTTGTGGAGGCTGCCTGTATGGCCAGTCGGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTGAACAATGCGCTTATTGGATGCTTTTCC-TGCTGTGGCGGTATGGGCTGGTGAACCGTAGCTGTGTGAGGCTTGGCTTTTGAACCGGCGGTGTTGTTGCGAAGTAGGGTGGCGGCTTCGGCTGTCGAGGGTCGATCCATTTGGGAACTCTGTGTTGTCTCTGCGGCTTGCTGCG---GAGGTGGCATCTCAA
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 835 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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