NEXUS
[File created by TreeBASE:  7/26/07  20:58:12]
[Matrix accession#: M757]

BEGIN TAXA;
	TITLE M757;
	DIMENSIONS  NTAX=14;
	TAXLABELS
		Candida_glabrata	Torulaspora_delbrueckii	Saccharomyces_cerevisiae	Claviceps_purpurea	Hypocrea_rufa	Glomerella_graminicola	'P2-6'	Gelasinospora_nigeriensis	Ophiostoma_ulmi	Amphisphaeria_umbrina	Xylaria_hypoxylon	Elsino_australis	Phaeocryptopus_gaeumannii	Dothidea_hippophaeos
	;
END;

BEGIN CHARACTERS;
	TITLE M757;
	DIMENSIONS NCHAR=580;
	FORMAT DATATYPE = DNA MISSING = ? GAP = -  ;
	MATRIX
		Candida_glabrata                AGGTGTTTTATCACACGACTCGAC--A-CTTTCTAATTACTACACACAGTGGAGTTTACTTTACTACTATCTTTTGTTCGTTGGGGGAACGCTCTCTTTCGGGG----GGGAGTTCTCCCAGTGGATGCAAACACAAACAAATATTTTTTT--AAACTAATTCAGTCAACA-CAAGA--TTTCTTTT-----AGTAGAAAACAACTTCAAAACTTTCAACAATGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCCGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCTCTGGTATTCCGGGGG-GCATGCCTGTTTGAGCGTCATTTC-CTTCTCA-AACACATTGT--G---TTTGGTAGTGAGTGATACTCGTTTT--------TGAGTTAACTTGAAATTGTAGGCCATATCAGTATGTGGGACACGAGCGCAAGCTTCTCTATTAATCTGCTGCTC-------GTTTGCGCGA-G--CGGCGGGGGTTAATACTGTATTAGGTTTTACCAACTCGGTGTTGATCTAGGGAGGG
		Torulaspora_delbrueckii         ACTGTTTCTCTGTCTGCGGTTCAC---TGCCTAAAAATTATACACACACTGGAGTTTTCTTTTAAAACACTTCTTCTTCTTTGGG----------C-TT---------GCAA--GAGCCCGGAGTTGACAAACACAAACAATTTTGTT-AT--ATTATAATCAAGTCAAAACCAA----TTTCGTTA-T-GAAATAC-AAATAA-TTTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCCGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCCTTGGTATTCCAGGGG-GCATGCCTGTTTGAGCGTCATTTC-CTTCTCA-AAGAACTCTT--C---TTTGGTAGTGAGTGACACTCTTTCT--------AGAGTTAACTTGAAATTGCTAGCCATATAA-----TAGCTGTTGATTGCTGACTT-TGGACGGAGCGATTTGTCCA-----GTCTGCT-G-----ATACCG--ATT---GTCGTATTAGGTTTTACCAACTTCGACGG-ACGTAGTGTTAG
		Saccharomyces_cerevisiae        TGTGCTTTTGTTATAGGACTTAAA--ACCG-TTTCAATACAACACACTGTGGAGTTTTCATATCTTTG-CAACTTTTTCTTTGGG----------CATTCG-A-----GCAATCGGGGCCAGAGGTAACAAACACAAACAATTTTATTTATTCATTAAATTTTTGTCAAAAACAAGAATTTTCGTAACTGGAAATTTTAAAATA-TTAAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCCGTGAATCATCGAA-TCTTTGAA-CGCACATTG-NCCCCTTGGTATTCCAGGGG-GCATGC-TGTTTGAGCGTCATTTC-CTTCTCA-AACA--TTCT--G---TTTGGTAGTGAGTGATACTCTTTG----------GAGTTAACTTGAAATTGCTGGCCTTTTCA-----TTG--GATGTTTTTTT--TT-TCCAAAGAGAGGTTTCTCT------GCGTGCTTGA-GGTATAATGCAAGTACGGTCGTTTTAGGTTTTACCAACTGCGGCTAATCTTTTTTATAC
		Claviceps_purpurea              CCGAGTT-----TA-CAACTCCCA-AACCCATTGTGAACTTATACCC-AAAACG-TTGCCTCGGCGGACACA-GCGGTACCCGA-GCCCC-CGCAAGGGAGCAAA--GGCGCCC-----CGTCCGCCAGGGGACCAAAACTCTT-CTGTAT-ACCCATAGCGGCATGTCTG---AGTGGATTTA--A--AAAC-----AAATGA-ATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGACTTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCGCCAGTATTCTGGCGG-GCATGCCTGTTCGAGCGTCATTTCAACCCTC--AAGCCCTGCTTGG--TGTTGGGGACCGGCTCAGCGGGTGCGGG-----CTTC--GGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGT--CTCGTCGCAGCCTTCTTTGCGTAGTAAC---------ATAC-CACCTCGCAACAGGAGCGCGGCGCGGCCACTGCCGTAAA------ACGCCC-AACTTTTTAGA-G
		Hypocrea_rufa                   CCGAGTT-----TA-CAACTCCCA-AACCCAATGTGAACC-ATACC--AAACTG-TTGCCTCGGCGGGGTCACGCCCCGGGTGC-GTCGC-AGCCCCGGAACCA---GGCGCCC------GCCGGAGGGACCAACCAAACTCTTTCTGTAG-TCCCCTCGCGGACGTTATTTTTACAGCTCTGAGCA--AAAATTCA-AAATGA-ATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCGCCAGTATTCTGGCGG-GCATGCCTGTCCGAGCGTCATTTCAACCCTCG-AACCCCTCCGGGG--GGTCGGCGTTGGGGACTTCGGGAACCC------CTAA--GACGGGATCC----CGGCCCCGAAATACAGTGGCGGT--CTCGCCGCAGCCTCTCATGCGCAGTAGT---------TTGCACAACTCGCACCGGGAGCGCGGCGCGTCCACGTCCGTAAA------ACACCC-AACTTCTGAAATG
		Glomerella_graminicola          TCGAGTT-----AC-CG-CTCTAC-AACCCTTTGTGAAC--ATACCT--AACTG-TTGCTTCGGCGGGCAGGGGGTCCCCCCGGGGACGC-CCTCCCGGCCCC-----GCCCCC-----CTACCAGGGGACGTGGCGCCCGCCGGAGGATA--CCCAACTCTATTTTAACGACGTTTCTTCTGAGTG--GCACAAGC-AAAT-A-ATTAAAACTTTTAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCGCCAGCATTCTGGCGG-GCATGCCTGTTCGAGCGTCATTTCAACCCTC--AAGCTCTGCTTGG--TGTTGG-----GGCCCTACGGTTGACG-------TA------------------GGCCCTCAAAGGTAGTGGCGGACCCTCCCGG-AGCCTCCTTTGCGTAGTAAC---------TA--ACGTCTCGCA-TCGGGATCCGGAGGGACTCTTGCCGTAAA------ACCCCCCAATTTTTCAATGG
		'P2-6'                          CTGAGTT-----TA-CG-CTCTAC-AACCCTTTGTGAAC--ATACCTATAACTG-TTGCTTCGGCGGGTAGGGTCTCCGC-----GAC---CCTCCCGGCCTC-------CCGC-----CT-CCGGGCGGGTCGGCGCCCGCCGGAGGATA-ACCAAACTCTGATTTAACGACGTTTCTTCTGAGTG--GTACAAGC-AAAT-A-ATCAAAACTTTTAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGC-AAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCGCCAGCATTCTGGCGG-GCATGCCTGTTCGAGCGTCATTTCAACCCTC--AAGCTCTGCTTGG--TGTTGG-----GGCCCTACAGCTGATG-------TA------------------GGCCCTCAAAGGTAGTCGCGAACCCTCTCGGGAGCCTCCTTTGCGTAGTAAC---------TT-TACGTCTCGCACTGGGGATCCGGAGGGACTCTTGCCGTAAA------ACCCCC-AACTTTCCAAAGG
		Gelasinospora_nigeriensis       CAGAGTTG---CAA--AACTCCCACAAACCATCGCGAATC-TTACCC-GTAC-GGTTGCCTC-GGCGCTGGCGGTCCGGAAGGCCCTCGG-GCCCCCGGATCCTCGGGTCTCCC-GCTCG--CGGGAGGCTGGCCCGCCGGAGTGCCGAA--ACCAAACTCTTGATATTTTATGTCTC-TCTGAGTA--AACTT-TT-AAATAA-GTCAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCTCGCCAGTATTCTGGCGA-GCATGCCTGTTCGAGCGTCATTTCAACCATC--AAGCTCT---------GCTTGCGTTGGGGATCCGCGG--CTGC-----CCGC----------------GGTCCCTCAAAAACAGTGGCGGGCTCG-CTAGTCA-CACCGA-GCGTAGTAAC----------TCTACATC--GTTCTGGTCGTGCGGCGGGT-TCTTGCCGTAAA------ACCCCCCAATTTCT-AA-GG
		Ophiostoma_ulmi                 CAGAGTTT---TTT-CAACTCCCA-ACCCTTGCGAA--CC-GTACCCCGTTCTGTTTGCTTCTGGCGGGAGGGGAGGGGCGCGTCTTCGG-GGCGCTGCCTC-TC---TCTCCCAGGTCCTTCGGGCGCCCGCCACGGCCGCGAGCCGCCTGAACCTTTTCTAAACCAGTAACGAAACGTCTGAGAA--ACAAA-CA-AAAACA-GCCAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATCGATGAAGAACGCAGCAAAATGCGATACGTAATGCGAATTGCAGAATTCAG-GAGTCATCGAA-TCTTTGAA-CGCACATTGGGCCCGCCAGTATTCTGGCGG-GCATGCCTGTCCGAGCGTCATTTCCCCCCTCAGATGCCCTTTTGGGAGGGCTGGTGTTGGGCTCCTGCCCT-CTGC-----GTGC--G-A-----------GGGCCCTCAAAACCAGTGGCGGGCCCGTCTGGTTGGCTCCGA-GCGCAGTACCGAACGCAAGTTCTCTCTCTCGCTCTGCAGCCCCGGTCGGTGCCCAGCCGTCAACGGCGCTCGGCCCTGCTTGC--A-GG
		Amphisphaeria_umbrina           AAGAGTTT---ACA-AAACTCCCA-AACCCATGTGAAT---TTACCC----CTG-TTGCCTCGGCGGA-A---GT-TACCCTGTAG-CAC-CTACCCTACAG-------CGGTTCGAGCCTACCCTGTAA----CCCGCCGGTGGATTTTGAAACTCT-TGT-TATTACAG---TGTCATCTGAGCG--TCTTATTCTAAATAA-GTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGA-TTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCATTAGTATTCTATTGG-GCATGCCTGTTCGAGCGTCATTTCGACCATT--AAGCC--------TAGCTTAGCGTTGGGAATCTACTGTCCGGGCGGAGCTACCTGTAGCTTACCCTGTAGTTCCTGAAAATGAACGGCGGATTCG--TGGTGTCCTCTGA-GCGTAGTAAT---------ATTTCTCGCT---TCTGTTAGGTGCTACGATCT--GGCAGTTAA---------CCC-AATCT-T------
		Xylaria_hypoxylon               AAGAGTTT---TGATAAACTCCCA-AACCCATGTGAA-C--TTACCT--T-CTG-TTGCCTCGGCAGGTCGC-GTCTACCCTGTGGGCAC-CTACCCTGTAGGAC----CCGACCTGGTGGTCGCGGTCATG--CCTGCCGGTGGCCCTTTAAACTTTCTGTGTATTCTAT---GTTATTCTGAGTT--GGCAACTA-AAATAA-GTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCATTAGTATTCTAGTGG-GCATGCCTGTTCGAGCGTCATTTCAACCCTT--AAGCCCCT----GTCGCTTAGTGTTGGGAGCCTACAGTC--------------------TT---CTGTAGCTCCCTAAAGTTAGTGGCGGAGTCG--GTTTGTACTCTAG-ACGTAGTAGA---------TTCTATCTCG---TCTAT-AGTTAAGCCGGTCTCTTGCCGTAAAA------CCCCCTAATTTCTCAA-GG
		Elsino_australis               AAGGGTTTCCGAAAGGAGCCCGAACTCCCCACCCTTTGCTGTTGCGAAT--CT-GTTGCTTCGGCGGGCCC--GCCCCCCCATCCCTGGG-GGGGCGGCCGGG-------CCTCA----CCGCCCGGACA----GCGCCCGCCGGAGGACCGAATCAACTCTGTTTTT-AACCATAATGTCGGAGTA--CTTTTGTACAATCAA-ATTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCCTTGGTATTCCGAGGG-GCATGCCTGTTCGAGCGTCATTTCACCAATC--AAGCCCC-----G---CTTGGTATTAGGCGCCTGGCCGCCCCCC----CCGTGGCC----------GGCCCGCCCGAAATGCATCGGCGAGG------CACCGACCCCCG-GCGTGTTAGAATTTC-----GAAACGTC---AGGAGCACCGGTGTTAAC--CTCTGCCGTGAAACCTTT-CAAAC-TATTTTTCTAA-G
		Phaeocryptopus_gaeumannii       AAGGGTTA---TTCGTAGCC-CGACCTCCAAMCCTTTGTTGTTATAACTACCTCGTTGCTTTGGCGGGACC--GCTCGGTC-TC--------GAGCTG-CTGG-------TCTT-----CGGCCCGGCAA----GTGCCCGCCAGAGT-CTACTCAAACTCTTGTTTT-AA-CCGGTCGTCTGAGT---TAAACTTTTAATTAA-ATTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAAATCTTTGAAACGCACATTGCGCTCCCTGGTATTCCGGGGGAGCATGCCTGTTCGAGCGTCATTACACCACTC--AAGCACT-----G---CTTGGTATTAGGCC----ATCGTCCCCC----GAAAGGTG----------GGCGTGCCTCAAACACCTCGGCGGAACCT---CACCGGCTTTGG-GCGTAATAAAATTTC----TC-AACGTCT-TATAAGTACCGGTTCTGACTCCTTTGCCGTTAAACCCCA-------AACTTTTAAA-GG
		Dothidea_hippophaeos            CGACCTAA---AAAATCGCGACCACTTCCAACCCTCTGTTGTTATAACTACCTTGTTGCTTTGGCGGGACC--GTTCGGTCCTCC-------GAGCGCACCAG-------TCCT-----CGGACAGGTGA----GCGCCCGCCAGAGT-CCAACCAAACTCTTGTTTTTAA-CCAGTCGTCTGAGTA--TAAAATTTTAATTAA-ATTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAA-TCTTTGAA-CGCACATTGCGCCCCTTGGTATTCCGAGGG-GCATGCCTGTTCGAGCGTCATTACACCACTC--AAGCACT-----G---CTTGGTATTGGGC-----ATCGTCCGTC----GAAAGGCG----------GGCGTGCCTCGAAGACCTCGGCGGGGTTT---CTCCAACTTCGG-GCGTAGTAGAGTTAAA---TCGAACGTCT-TATAAG--CTTGGTGGGACTCCATTGCCGTTAAACCTTT-------TATTTTTATA-GG
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 580 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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