NEXUS
[File created by TreeBASE:  7/26/07  21:01:33]
[Matrix accession#: M723]

BEGIN TAXA;
	TITLE M723;
	DIMENSIONS  NTAX=12;
	TAXLABELS
			Claviceps_purpurea_clp1	Claviceps_purpurea_clp2	Claviceps_fusiformis_clf1	Claviceps_paspali_cpas1	Claviceps_paspali_cpas2	Claviceps_sorghicola_cjap2	Claviceps_sorghicola_cjap4	Claviceps_africana_cla2	Claviceps_africana_cla7	Claviceps_africana_cls1	Claviceps_africana_cls2
	;
END;

BEGIN CHARACTERS;
	TITLE M723;
	DIMENSIONS NCHAR=418;
	FORMAT DATATYPE = DNA MISSING = ? GAP = -  ;
	MATRIX
		                                 catcgagaagttcgagaaggtgaga-----tatatctctttcac---tcc--acgcataatatgtgacgttcagtcgttgcaatgcgagcctgccttgcgtgtcgctttgcaacctcaaggt-----gggcaagcaagcg--actgcccctcttttcgcccgcgatacgatttttttttttttttcggtcgcggggctc---------agtttga-ctttt---ggtggggcacctctcaacccgtcactggtctgtgctag-a-----gacgcaaacgagagatacaac--atgacattcg-cgtg--atctcccaaaaa-------------------aaatgtgat-gaca-aatcactgacttgccttt-gctctacaggaagccgccgaactcggaaagggttccttcaagta
		Claviceps_purpurea_clp1          CATCGAGAAGTTCGAGAAGGTAAGA-GCTTTTTTATTCTTGTTCACGTCGATTTCAGA-----------GATTGCTTGCGCG------GTCACCAAAGTGTGAATTTGATTCTACCTTAG------CGG-----------G-----CCCCTCTTTGAGGCAG-GACTCGAAAAAA----ATTCTTCAGCCGTGGGGCTCACCCTCTCATGTCTGA-CTCGCCGAGGCGGGGTGTCTCCACCTACCCCAATCCGTCCGGC--GAGCA-TGGA----ATTGCGCTGCGA--CATCTATCAATGAGCATGGCTGCGCAGAA-GATGA----------AAGTCCACACACATACGACATTGTCGCTGACCTGTTTT--AAACTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_purpurea_clp2          CATCGAGAAGTTCGAGAAGGTAAGA-GCTTTTTT-TTCTTGTTCACGTCGATTTCAGA-----------GATTGCTTGCGCG------GTCACCAAAGTGTGAATTTGATTCTACCTTAG------CGGGCATGCAATGTG-----CCCCTCTTTGAGGCAG-GACTCGAAAAAA----ATTCTTCAGCCGTGGGGCTCACCCTCTCATGTCTGA-CTCGCCGAGGCGGGGTGTCTCCACCTACCCCAATCCGTCCGGC--GAGCA-TGGA----ATTGCGCTGCGA--CATCTATCAATGAGCATGGCTGCGCAGAA-GATGA----------AAGTCCACACACATACGACATTGTCGCTGACCTGTTTT--AAACTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_fusiformis_clf1        CATCGAGAAGTTCGAGAAGGTGAGAAGCTTTTTTTTTCTGCT-G---TCGTTTTCACAAACCAGGCCGTGTCCGCTCGCCGTC-GTCCGCCA------TAAGTTGCTTCTGCTGCTGTGGATGTGACGGTCAAGCGTGGT-ACT-ACCACTC-TTTTGGCCGCGCCTCGA---AATTTT-TTCTTCGGTCGCGGGACTCCATTAGTTGGGTCTGACTTTGCC-TAGTGGGGCATCCC-GTCTCC-TCACTTAGCTGAGCTGGTGATGCAGACG-AAGGGTGCTCCTATCC--CTCCT---CA-AGTG--TGGATACAAC-ATCAGGAAGATAGGAACA--AATGAGGCAAGTCA-TGTTGCTGACCTGGTTTTCGAATTGTAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_paspali_cpas1          CATCGAGAAGTTCGAGAAGGTAAGA-----TATTTC-CTCTC-C---TCCCTCCCCTTAA------------AAACCCTGC----CAAGCCAGTATTGTGTGTCTTTTTTGAGTCACTAGCT-----AGGCATGCCAG-T--TTTGCCCCTCTT----------------TTGTC-TTTTTTTTTC--TCTC------C---------ACTTGGATCTTTTC--AGTGGAGCATC-CTCAACCCCTCA----TCTCAGATGGAA-----GACGC-AACG-------CCTCGGATGAC--TCC-CCTG--TTCATCCAACAAGGA-------------C--AAATGACCTGGACA-TGTCGCTGACTAGAC-TC-GAATTATAGGAAGCTGCCGAACTTGGTAAGGGTTCCTTCAAGTA
		Claviceps_paspali_cpas2          CATCGAGAAGTTCGAGAAGGTAAGA-----TATTTC-CTCTC-C---TCCCTCCCCTTAA------------AAACCCTGC----CAAGCCAGTATTGTGTGTCTTTTTTGAGTCACTAGCT-----AGGCATGCCAG-T--TTTGCCCCTCTT----------------TTGTCTTTTTTTTTTC--TCTC------C---------ACTTGGATCTTTTC--AGTGGAGCATC-CTCAACCCCTCA----TCTCAGATGGAA-----GACGC-AACG-------CCTCGGATGAC--TCC-CCTG--TTCATCCAACAAGGA-------------C--AAATGACCTGGACA-TGTCGCTGACTAGAC-TC-GAATTATAGGAAGCTGCCGAACTTGGTAAGGGTTCCTTCAAGTA
		Claviceps_sorghicola_cjap2       CATCGAGAAGTTCGAGAAGGTAAGA-----GCTTT--CTTCC-C---TCA-TGCCACACGTTTAGCTTTGTTCTCTCCTGCGA-GCATGCCA------TAAGCCATTTCGGCTA---TGG------CGAGCAAGCATGGTGCCTGGCCCCTCTTTTTGACCGCGACTCGAAGAAATTTTTTTCTCCGGTTGC--GGGTC---------AGTCCGAC-TTTTT-TGGTGGGGCGTTTC-AAACCCCTCACTTGTCCTAGCTGGAAGAGCGGACG--ATCGTGATGCCACTCAGCTT-----CA-CGTG--TG-----ACCG-TGAACAACAT--GAACG--AAT----CAATACA-GGTTGCTGATCACCTTTC-GAATTACAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_sorghicola_cjap4       CATCGAGAAGTTCGAGAAGGTAAGA-----GCTTT--CTTCC-C---TCA-TGCCACACGTTTAGCTTTGTTCTCTCCTGCGA-GCATGCCA------TAAGCCATTTCGGCTA---TGG------CGAGCAAGCATGGTGCCTGGCCCCTCTTTTTGACCGCGACTCGAAGAAATTTTTTTCTCCGGTTGC--GGGTC---------AGTCCGAC-TTTTT-TGGTGGGGCGTTTC-AAACCCCTCACTTGTCCTAGCTGGAAGAGCGGACG--ATCGTGATGCCACTCAGCTT-----CA-CGTG--TG-----ACCG-TGAACAACAT--GAACG--AAT----CAATACA-GGTTGCTGATCACCTTTC-GAATTACAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_africana_cla2          CATCGAGAAGTTCGAGAAGGTAAGA-----GTTTTTCCTCGC-C---TCG-TGCC--------------GTTATCTTCT-----------------------TCCTTTCGGCTACAGTGG------CCTGCAAGCATGGTGGCT-ACCCCTC-ATTCCTCCGCGACACGAAG-AATTTTCTTCTCGGGTTGCGAGTGTC---------AGCCCGCG-TTGCC-TGGT-GTACCTTTC--AATCCGTCACTTGTTTTCGATGGAGCAATGGGCG--AGCGTGATG-AACGCAGCTTTC---CA-CGTG--TG-----AACGATGATGAGGA---GAAGT--AAA----CAGGA-A-AGTCGCTGACCACCTTTT-GATGTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_africana_cla7          CATCGAGAAGTTCGAGAAGGTAAGA-----GTTTTTCCTCGC-C---TCG-TGCC--------------GTTATCTTCT-----------------------TCCTTTCGGCTACAGTGG------CCTGCAAGCATGGTGGCT-ACCCCTC-ATTCCTCCGCGACACGAAG-AATTTTCTTCTCGGGTTGCGAGTGTC---------AGCCCGTG-TTGCC-TGGT-GTACCTTTC--AATCCGTCACTTGTTTTCGATGGAGCAATGGGCG--AGCGTGATG-AACGCAGCTTTC---CA-CGTG--TG-----AACGATGATGAGGA---GAAGT--AAA----CAGGA-A-AGTCGCTGACCACCTTTT-GATGTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_africana_cls1          CATCGAGAAGTTCGAGAAGGTAAGA-----GTTTTTCCTCGC-C---TCG-TGCC--------------GTTATCTTCT-----------------------TCCTTTCGGCTACAGTGG------CCTGCAAGCATGGTGGCT-ACCCCTC-ATTCCTCCGCGACACGAAG-AATTTTCTTCTCGGGTTGCGAGTGTC---------AGCCCGTG-TTGCC-TGGT-GTACCTTTC--AATCCGTCACTTGTTTTCGATGGAGCAATGGGCG--AGCGTGATG-AACGCAGCTTTC---CA-CGTG--TG-----AACGATGAT---GA---GAAGT--AAA----CAGGA-A-AGTCGCTGACCACCTTTT-GATGTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
		Claviceps_africana_cls2          CATCGAGAAGTTCGAGAAGGTAAGA-----GTTTTTCCTCGC-C---TCG-TGCC--------------GTTATCTTCT-----------------------TCCTTTCGGCTACAGTGG------CCTGCAAGCATGGTGGCT-ACCCCTC-ATTCCTCCGCGACACGAAG-AATTTTCTTCTCGGGTTGCGAGTGTC---------AGCCCGTG-TTGCC-TGGT-GTACCTTTC--AATCCGTCACTTGTTTTCGATGGAGCAATGGGCG--AGCGTGATG-AACGCAGCTTTC---CA-CGTG--TG-----AACGATGAT---GA---GAAGT--AAA----CAGGA-A-AGTCGCTGACCACCTTTT-GATGTATAGGAAGCCGCCGAACTCGGTAAGGGTTCCTTCAAGTA
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 418 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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