NEXUS
[File created by TreeBASE:  7/26/07  21:03:48]
[Matrix accession#: M1696]

BEGIN TAXA;
	TITLE M1696;
	DIMENSIONS  NTAX=16;
	TAXLABELS
		Hirsutella_uncinata	Hirsutella_thompsonii	Hirsutella_sinensis_AJ309353	Hirsutella_sinensis_AJ243979	Hirsutella_rhossiliensis	Cordyceps_sinensis_AJ245559	Cordyceps_sinensis_AJ243776	Cordyceps_sinensis_AJ243775	Cordyceps_sinensis_AB067717	Cordyceps_robertsii	Cordyceps_nepalensis	Cordyceps_multiaxialis	Cordyceps_japonica	Cordyceps_emeiensis	Cordyceps_cochlidiicola_AB027377	Cordyceps_coccidiicola_AB031196
	;
END;

BEGIN CHARACTERS;
	TITLE M1696;
	DIMENSIONS NCHAR=570;
	FORMAT DATATYPE = DNA MISSING = ? GAP = -  ;
	MATRIX
		Hirsutella_uncinata                    CATTATCGAGT-TACCCG--ACTCCCAAAACCCCCGTGCGAACCGTACCCCACGCGTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAGCGGCCCGG-ACCAAGG-CGCCCG-CCGGAGG-ACCTCC-AGACT-CTCCTGTC-GC-A--GTGGCGTTT-------CTCTCC-AGT-CAAGAAAAAAACAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCGACCCTCGAGCCCCCCTCC-GCCCC-----GGCGGTGGCGGGGCCCGGCCTTGGGGGTTCCAC-GGCCCC--GC---------------------------GCCGCCCCC-GAAATGCAGTGGCGACCCCGCCGCGGCCTCCCCTGCGCAGTA-GCTC-CCAGAGAACCT-CGCACCGGACG-CGCGGAGG-CGG-TCACCC-G-
		Hirsutella_thompsonii                  CATTATCGAGTGTTT-AG-AACTCCCAAA-CCCAC-TGCGAACC--ACAGCGT-CGTTGCCTCGGCGG-ACCGCCCCGGCGCCC-TCG-GGCCCGG-ACCAAGG-CGCCCG-CCGGAGGGACC-AC-AAACT-CT--TGT-ATC-----TGG-ATG--CATTG-CTCT---AGT-------AAA--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCGGGCCCCCC-----CTTCGGGGA--CGG-G------CGCGGTGTTGGGGGT----CCGGCCTT--G----------------------------GCCGCCCCC-GAAATGCAGTGGCGACCCCGCCGCGGCCTCTCCTGCGCAGTAAGCA-AAC-G-----CT-CGCAACGAGGGACCCGGAGGACGAGTC-CCC-GT
		Hirsutella_sinensis_AJ309353           CATTATCGAGT-TA-CC---ACTCCCAAA-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCACC-GAGAACCT-CGCACCGGAAG-CGCGGAGG-CGG-TCACCC-GT
		Hirsutella_sinensis_AJ243979           -CTTATCGAGT-CA-CC---ACTCCCAAG-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGGCC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAGCAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCGC-TGAGGACCT-CGCACCGGGAG-CGCGGAGG-CGG-TCACCC-GT
		Hirsutella_rhossiliensis               CATTACCGAGT-TATTC--AACTCCCAAA-CCCCC-TGTGAACCTTACCACACACGTTGCCTCGGCGGGACCGCCCCGGCGCCC-TCGCGGCCCGG-ACCAAGG-CGCCCG-CCGGAGG-ACC-ACCAGACT-CTCCTGTC-GC-A--GTGGCATTT-------CTCTCC-AGT-CAAG-------CAAGCAAAA----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGCCC-G-TC-----TC-----GG-TG---------------TTGGGGGCCCCAC-GGCC----GCGAG------------------------GCCGCCCCC-GAAATGCATTGGCGACCCCGCCGCGGCCTCCCCTGCGCAGTA-GCTC-CCAGAGAACCTTCGCACCGGAAA-CGCGGAGG-CGG-TCACC--GT
		Cordyceps_sinensis_AJ245559            -ATTATCGAGT-CA-CC---ACTCCCAAG-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCAACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCGC-TGAGAACCT-CGCACCGGGAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_sinensis_AJ243776            -ATTATCGAGT-CA-CC---ACTCCCAAA-CCCCC-TGCGAACGCCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCA--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCAC-TGAGAACCT-CGCACCGGAAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_sinensis_AJ243775            CATTACCGAGT-CA-CC---ACTCCCAAA-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAC---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCACCTCAACCCTCGGGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTC-GCTCAC-TGAGAACCT-CGCACCGGGAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_sinensis_AB067717            -ATTATCGAGT-CA-CC---ACTCCCAAA-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----GGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCAACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCGC-TGAGAACCT-CGCACCGGGAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_robertsii                    CATTATCGAGT-TACCC--AACTCCCAAA-CCCCC-TGTGAACCCTACCTCACACGTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAGCGGCCCGG-ACCCAGG-CGCCCGGCCGGAGG-ACCCCC-AGACT-CTCCTGTC-GC-A--GTGGCATTT-------CTCTCC-AGT-CAAG--AAA--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGCCCCCCTCCGGCCCC-----GGCGGTGGCGGGGCTCGGCGTTGGGGGT-CCAC-GGCCCT--GC---------------------------GCCGCCCCC-GAAATGCAGTGGCGACCCCGCCGCGGCCTCCCCTGCGCAGTA-GCTC-CCAGAGAACCT-CGCACCGGAAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_nepalensis                   CATTATCGAGT-TA-CC---ACTCCCAAA-CCCCT-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCACC-GAGAACCT-CGCACCGGAAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_multiaxialis                 CATTATCGAGT-YA-CC---ACTCCCAAA-CCCCC-TGCGAACACCACAGCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-CAG-GGCCCGG-ACC-AGGGCGCCCG-CCGGAGG-ACCCCC-AGACC-CTCCTGTC-GC-A--GTGGCAT---------CTCTC--AGT-CAAG--AAG--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATCTCAACCCTCGAGCCCCCC----GCCTCGC---GGCGG---CGGGGCCCGGCCTTGGGGGT--CAC-GGCCCC--GC---------------------------GCCGCCCCC-TAAACGCAGTGGCGACCCCGCCGCGGC-TCCCCTGCGCAGTA-GCTCGC-TGAGAACCT-CGCACCGGGAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_japonica                     CATTACCGAGC-CATCAG---CTCCCAAA-CCCC--TGTGAACA-TACCTGA-ACGTTGCTTCGGCGGGAACGCCCCGGCGCCCACGGCGGCCCGGGACCA-GG-CGCCCG-CCGG-GGGACCC---AAACCCCTGATTTGATCTACTGTGGCATTTTC--TG--------AGT-CTCGT-GGG-------AAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCAAGCCCCCCCGCCCCCGCG----GGCT-TGG----------TGTCGGGG-----ACCGGCCTCCCCCCTCCCCCCCCCTCCCGGGGGGTTGGGCGCCGCCCCC-TAAATGCAGTGGCGACCCCGCCGCAGCCTCCCCTGCGTAGTA-GC--AC-----AACCT-CGCACTGGA-G-CGCGGAGG-CGG-TCACGCCGT
		Cordyceps_emeiensis                    CATTACCGAGT-TATCC--AACTCCCAAA-CCCCCCTGTGAACCTTT-CTCA---GTTGCCTCGGCGGGACCGCCCCGGCGCCC-TCGCGGCCCGG-ACCCAGG-CGCCCG-CCGGAGG-ACCCC--AGACT-CTCCTGTC-GC-A--GTGGCATTT-------CTCTCCGAGT-CT--T-ATA--CAAGCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGC---GCCACCGCCCCCGGGCGGCGG--------CTCGGTGTTGGGGGT-TCAC-GGCCCT--GC---------------------------GCCGCCCCC-GAAATGCAGTGGCGACCCCGCCGCGTCCTCCCCTGCGCAGTA-GCTC-CCAGAGAACCT-CGCACCGGAAG-CGCGGAGG-CGG-TCACCC-GT
		Cordyceps_cochlidiicola_AB027377       CATTACCGAGTTTAC----AACTCCCAAA-CCCCC-TGCGAACCGTACCA-----GTTGCCTCGGCGGGACCGCCCCGGCGCCCATCGCGGCCCGG-ACCCAGG-CGCCCG-CCGGAGGGCCCCA--AGACTCCAACTGTC----A--GCGGCAT---------CTCGC---GT--A---------CAAGCAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCAACCCTCGAGCACCGC-------TC-----GGC-G---------------TTGGGGGAG---C-GGCCC---GCGC-------------------------GCCGCCCCCCGAAATGCAGTGGCGACCCCGCCGCGTCCACCCCTGCGCAGTA-GCTCTCCCGAGAACCT-CGCATCGGCGG-CGCGGCGG-CGG-TCACCC-GT
		Cordyceps_coccidiicola_AB031196        CATTACCGAGT-CG--AGCAACTCCCAAA-CCCCCCTGCGAACCGTACCACACACGTTGCCTCGGCGGGAACGCCCCGGCGCCCACGGCGGCCCGG-ACCCAGG-CGCCCG-CCGGAGG-ACCCCCCAGACT-CTCCTGTC-GC-A--GCGGCAT------TG-CTCTCC-AGTCCAAGGCAAA--CA-GCAAA-----TGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGGGCATGCCTGTCCGAGCGTCATTTCACCCCTCGAGCCCCGCC------TC-----GG-TG---------------TTGGGGGAGCCAC-GGCCGCCCGCGCGC---------------------GCGCCGCCCCC-GAAATGCAGTGGCGACCCCGCCGCGTCCTCCCCTGCGCAGTA-GCTC-CCAGAGAACCT-CGCACCGGAAG-AGCGGAGG-CGG-TCACCC-GT
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 570 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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