NEXUS
[File created by TreeBASE:  7/26/07  21:01:29]
[Matrix accession#: M1309]

BEGIN TAXA;
	TITLE M1309;
	DIMENSIONS  NTAX=28;
	TAXLABELS
		Cladonia_arbuscula_57095	Cladonia_arbuscula_202	Cladonia_arbuscula_5124	Cladonia_arbuscula_5122	Cladonia_arbuscula_5536	Cladonia_arbuscula_5537	Cladonia_arbuscula_5471	Cladonia_arbuscula_5300	Cladonia_arbuscula_5429	Cladonia_arbuscula_9910	Cladonia_arbuscula_215	Cladonia_arbuscula_212	Cladonia_arbuscula_57256	Cladonia_arbuscula_5323	Cladonia_arbuscula_5372	Cladonia_mitis_201	Cladonia_mitis_216	Cladonia_mitis_9915	Cladonia_mitis_5304	Cladonia_mitis_5524	Cladonia_mitis_5501	Cladonia_mitis_s.n.	Cladonia_mitis_217	Cladonia_mitis_218	Cladonia_mitis_5500	Cladonia_mitis_5376	Cladonia_mitis_5339	Cladonia_mitis_5381
	;
END;

BEGIN CHARACTERS;
	TITLE M1309;
	DIMENSIONS NCHAR=278;
	FORMAT MISSING = ? GAP = - DATATYPE = DNA ;
	MATRIX
		Cladonia_arbuscula_57095       TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCGCTTAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-TGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAAATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_202         TAACAAGGTTTCCGTAGGTGAAC-GGTTTGCCTACCGAAGCCCTTGGCCAGCGACTCTAAAGAATTCAGCCCATAGTCGCCCC-TCCGGGGGCTGGCGACGCCGTCAATCTGTGTCTGGCAGTGCCTCTCTCAGGGGATACCATCAGCAGCTCGTTGTCCTTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACCTCGGTGGTTGAGATATGATCGGCCTCCAGTTCTCACCGAGCTGGCGAAAATTTGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5124        TAACAAGGTTTCCGTAGGTGATAAGGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGCTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATCTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5122        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5536        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5537        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5471        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5300        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5429        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_9910        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_215         TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_212         TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_57256       TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5323        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_arbuscula_5372        TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_201             TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_216             TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_9915            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5304            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5524            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5501            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_s.n.            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_217             TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_218             TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5500            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5376            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5339            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
		Cladonia_mitis_5381            TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
	;
END;

BEGIN CODONS;
GENCODE UNIVNUC 
 ; 
 END;

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