NEXUS
[File created by TreeBASE:  7/26/07  21:14:00]
[Matrix accession#: M2835]

BEGIN TAXA;
	TITLE M2835;
	DIMENSIONS  NTAX=19;
	TAXLABELS
		Tuber_texense	Tuber_taiyuanense	Tuber_sp._mg02	Tuber_sp._mg01	Tuber_rufum_eu01	Tuber_rufum_AY940646	Tuber_rufum_AY112894	Tuber_rufum_AF106892	Tuber_quercicola	Tuber_liaotongense_mg02	Tuber_liaotongense_mg01	Tuber_liaotongense_fs04	Tuber_huidongense_pzh09	Tuber_huidongense_pzh08	Tuber_huidongense_hd01	Tuber_ferrugineum	Tuber_excavatum	Tuber_dryophilum	Tuber_candidum
	;
END;

BEGIN CHARACTERS;
	TITLE M2835;
	DIMENSIONS NCHAR=501;
	FORMAT DATATYPE = DNA MISSING = ? GAP = -  ;
	MATRIX
		Tuber_texense                 CACAAACCCTCTCTGCGTATCAATCCATGT-TGCTTT-CCCAGG-TG---------------------------CTCGCT--------------------------CTCCTGGG-AGAGGGCCTATCCATAGCG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCATATTC--TTTGAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTACAAACCCGCTCATACATATTATGGTATTGATGGAAGTGGACTGAG-CCTACTAATAATATGCTTAGAGTCACCCCATTGAAATGTATAGGCAGGACAG-TCAACCTCTGCAATGGACTTAGTAACTGTTGTGAAA-ACATAGACCAGTCCTTTGCCTGG-TT-CCAG-CCTGGCCTCCAC-GGACCTC-TAT
		Tuber_taiyuanense             TC------------------CAATCCATGT-TGCTTT-CCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-CTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAC---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAA-GACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_sp._mg02                TC------------------CAATCCATGT-TGCTTT-CCCAGGGTGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTGGGGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAT---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAA-GACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_sp._mg01                TC------------------CAATCCATGT-TGCTTT-CCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAT---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAA-GACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_rufum_eu01              TACAAACCCTCTCTGTGTACCAATCCATGT-TGCTTT-CCCAGG-TGGTTGGTTTCAGTTGATGTCCAATCCTGCATGCTAGCTGAGTTAATATCACTAAGTGGGT-CCCTGGG-AAAGGGCCTTACCAATGC-AAA-C-ATTTGAATCAGCCGTCTGAGTTGGCCCAGTGCCGTATTA--TTTGAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCGCTCATAAATATTATGGTAATGATGGAAGTGAAGTGAG-GACAGTAAT---GTGCCTCG-GTCACCCCATTGAAATGTATTGGCAGGACAA-TTAACCTCTGCAATGGACTTAGTAACTGTATTGAA-GACATCAATCAGTCAATAGCGAGG-TT-CTGG-CCTGGCCCCGAT-GGATTTC-CAT
		Tuber_rufum_AY940646          CCCAAATCCTCTTTGTGTACTTATCCATGT-TGCTTT-CCCAGG-TGGTTGGTTTTACTAGTTGTTTAACCCTTCCTGCTAGTTGAGTTAACTTTACTATGTAGG-CTCCTGGG-AGAGGGCCTATTTCAAGC-AAA-CTA-TTAAATCAGTTGTCTGAGTTGGCCTAGTGTCATATCTT-TTTAAATAAATTAAAACTTTCAACAACGGATCTCTTGGCTCTCGTATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTACAAACCCACTCATAAATATTATGGTAATGGTGGATGTGAAAGGAG-GCTACTAGT---ATGTCTC-AGTCACCCCATTGAAATACATAGGCAGGACAA-TTATCTTTAGCAAAGGACTTAGTAACTGTTATGAA-AACATATATTAGTTTCTTGCTAGGATT--TGGAC-TGACTTCTAT-GGATCTC-CAT
		Tuber_rufum_AY112894          CCCAAATCCTCTTTGTGTACTTATCCATGT-TGCTTT-CCCAGG-TGGTTGGTTTTACTAGTTGTTTAACCCTTCCTGCTAGTTGAATTTACTTTACTATGTAGG-CTCCTGGG-AGAGGGTCTGTTCAAAGC-AAA-CTA-TTGAATCAGCAGTCTGAGTTGGCCCAGTGCCATATTTT-TTTGAATGAATTAAAACTTTCAACAACGGATCTCTTGGCTCTCGTATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCTCTTGGTATTCCTTGA-GGCATGCCTGTTCGAGCGTCACTGCAAACCTACTCATAACTATTATGGTAATGGTGGATGTGAAGAGAG-GCTACTAAT---ATGTCTC-AGTCACCCCATTGAAATATATAGGCAGGACAA-TTATCTTTAGCAAAGAACTTAGTAACTGTTTTGAA-GACATATATTAGTTTCTTGCTAGGACT--TGGAC-TGACTTCTAT-GGATCTC-CAT
		Tuber_rufum_AF106892          TACAAACCCTCTCTGTGTACCAATCCATGT-TGCTTT-CCCAGG-TGGTTGGTTTCAGTTGATGTCCAATCCTGCATGCTAGCTGAGTTAATATCACTAAGTGGGT-CCCTGGG-AAAGGGCCTTACCAATGC-AAA-C-ATTTGAATCAGCCGTCTGAGTTGGCCCAGTGCCGTATTA--TT-GAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCGCTCATAAATATTATGGTAATGATGGAAGTGAAGTGAG-GACAGTAAT---GTGCCTCG-GTCACCCCATTGAAATGTATTGGCAGGACAA-TTAACCTCTGCAATGGACTTAGTAACTGTTTTGAA-GACATCAATCAGTCAATTGCGAGG-TT-CTGG-CCTGGCCCCGAT-GGATTTC-CAT
		Tuber_quercicola              GCTA-----TTATTGAAACTTGGAACCTGA-CACTTT-CCCGATAGTGTGAGCTTTAATGAGTCAGCAAGCTCAATTGTTATCCGTCGGGATGAGCTATTC-AGGT-CCCTGGG-AAAGGGCCTATCCAAAGTT-AA-C-ACTTCAATCAGCTGTCTGAGTTGGCCGAGTGCCATATTC--TTTGAACAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTACTGATGGAAGTGAACCCTG-GGCACTAAT---ATGCCTAGA-TCATTCCATTGAAATGCATAGGCGGGACGA-TCAACCTTCGCAACTGACTTAGTAACTGTTTTCAA-GACAAAAACCAGTCACTTGCACGG-TT-CCAG-CCCAGCCTCCAT-GGACCTCGCAT
		Tuber_liaotongense_mg02       TCTGAACACTTTCTGCGTACCAATCCAGGT-TGCTTT-CCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGA-TCT-TTGAACGCACATTGGCGCCCCTTGGCATTCCT-GGGGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATAGATGGAAGTGAACGGAA-CCAATCTAT---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAAAGACATAAACCAGTTTGTTGCTTGG-TT-TAGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_liaotongense_mg01       TCTGAACACTTTCTGCGTACCAATCCAGGT-TGCTTTTCCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGGGAAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGGGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTGGGGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAT---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAAAGACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTACCTTCCAT-GGACCTC-CAT
		Tuber_liaotongense_fs04       TC------------------CAATCCATGT-TGCTTT-CCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAT---GTGTTCAG-GTCATCCCATCGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAA-GACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_huidongense_pzh09       TCTAAACTCCCTCTGTGTACCAATCCATGT-TGCTTT-CCCAGA-TG------------------------------------------------------CGGGTCATCTGGG-AAAGGATCTCTT-AAAACCAAATCAA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCATATATGGTTTAAACAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATCATGGTATTGATGGAAGTGAACTGAG-TCAAACAAT---GTACTTGGG-TCACCCCGTTGAAATGCATAGGCAGGACAA-TAAACCTCTGCAATGAACTTAGTAACTGTCT-GAAAGACACAAACCAGTTCCTTGTTGGG-TT-CAGA-CCTTGCTTCCAT-GGACCTC-CAT
		Tuber_huidongense_pzh08       TCTAAACTCCCTCTGTGTACCGATCCATGT-TGCTTT-CCCAGA-TG------------------------------------------------------CGGGTCATCTGGG-AAAGGATCTCTT-AAAACCAAATCAA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCATATATGGTTTAAACAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCATACCCACTCATAAATATCATGGTATTGATGGAAGTGAACTGAG-TCAAACAAT---GTACTTGGG-TCACCCCGTTGAAATGCATAGGCAGGACAA-TAAACCTCTGCAATGAACTTAGTAACTGTCT-GAAAGACACAAACCAGTTCCTTGTTGGG-TT-CAGA-CCTTGCTTCCAT-GGACCTC-CAT
		Tuber_huidongense_hd01        TCTAAACTCCCTCTGTGTACCAATCCATGT-TGCTTT-CCCAGA-TG------------------------------------------------------CGGGTCATCTGGG-AAAGGATCTCTT-AAAACCAAATCAA-TTGAATCAGCTGTCTGAGTTGGCCCAGCGCCATATATGGTTTAAACAAGTTAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACTGAG-TCAAACAAT---GTACTTGGGGTCACCCCGTTGAAATGCATAGGCAGGACAA-TAAACCTGTACAATGAACTTAGTAACTGTCT-GAAAGACACAAACCAGTTCCTTGTTGGG-TTACAGA-CCTTGCTTCACT-G-ACCTC-CAT
		Tuber_ferrugineum             TACAAACCCTCTCTGTGTACCAATCCATGT-TGCTTT-CCCAGG-TGGTTGGTTTCAGTTGATGTCCAATCCTGCATGCTAGCTGAGTTAATATCACTAAGTGGGT-CCCTGGG-AAAGGGCCTTACCAATGC-AAA-C-ATTTGAATCAGCCGTCTGAGTTGGCCCAGTGCCGTATTA--TTTGAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCGCTCATAAATATTATGGTAATGATGGAAGTGAAGTGAG-GACAGTAAT---GTGCCTCG-GTCACCCCATTGAAATGTATTGGCAGGACAA-TTAACCTCTGCAATGGACTTAGTAACTGTTTTGAA-GACATCAATCAGTCAATTGCGAGG-TT-CTGG-CCTGGCCCCGAT-GGATTTC-CAT
		Tuber_excavatum               GTCCC-------CGAGATCAAACCTCCCCGAGTACCCATCCATGTTGCTTCCCTAGGCCAGCAGCCATTGCTGCCCGTCCGACCCTGCCCGGTCACAGGACGGAGGTGCCTGGG-GAGGGGCCCAACCAAAAAGGAAACTATTGCACACAGCTGTCTGAGTTGGCCACGTGTCCAGTGA--ATTGAGCAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCTTTGGCATTCCTTA-GGGCATGCCTGTTCGAGCGTCACTAGCAACCTCCTCACGGATCCCGTGGTAATGGCGGAAGCTTTCGCTGTTGTCCCTTGGACAGCGGTGCAGCTCCGCTGAAATGAATAAGCAGGACAAAAACAGGCCCCGGCGA-GCGACTTAGTAAGTGTCGTGAA-GACGTAGACCAGTCAGCAGCCAGGCCTTGCCCTGCCCACCCAGATCTCCCCCGTCTG
		Tuber_dryophilum              TC------------------CAATCCATGT-TGCTTT-CCCAGG-TGTTTGGT-----------------------------------------------------CATCTGGG-AAAGTGTCCTTTCAAAACG-AAT-TA-TTGAATCAGCTGTCTGAGTTGGCCCAGTGCCTTATTC--TTTAAATAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-CCGAACGCACAT-GGCGCCCCTTGGCATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTGCAAACCCACTCATAAATATTATGGTATTGATGGAAGTGAACGGAA-CCAATCTAT---GTGTCCAG-GTCATCCCATTGAAATGTATAAGCAGGACAA-TCAACCTGTGCAATGGACTTAGTAACTGTCTTGAAAGACATAAACCAGTTTGTTGCTTGG-TT-TTGA-CTTAGCTTCCAT-GGACCTC-CAT
		Tuber_candidum                GTTAA-------CTTGGAGTTTGATCT-ATTTTACTGATGGGTTAAGCTTTAAT-GGG--TCAG-C-GAGCTTAAT-TTATATCTATCAGGATCAGC-TATGTAGGCCCCTGGG-AAAGGGTCCATCGC-AAGTGAA--TATTTCAATCAGCTGTCTGAGTTGGCCGAGTGCCATATTC--TTTGAACAAGTTAAAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGAATCT-TTGAACGCACATTG-CGCCCCTTGGTATTCCTTG-GGGCATGCCTGTTCGAGCGTCACTACAAACCCGCTCATAAATGTTATGGTATTGATGGAAGTGAACTGTT-GCAACTAAA---GTGTGTGGA-TCACCCCATCGAAATACATAGGCAGGACAA-CAAACCTCTGTAGCTGACTTAGTAACTGTTTTCAA-GACACAAACCAGTCACTTGCTAGG-TT-CTAG-CCTGGCCTC-ATTAGACCTC-CAT
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 501 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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