#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 16, 2024; 22:24 GMT TreeBASE (cc) 1994-2008 Study reference: Seifert K., & Boulay H. 2004. Hirsutella uncinata, a new hyphomycete from Australia. Mycologia, null. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S1099] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=16; TAXLABELS Cordyceps_coccidiicola_AB031196 Cordyceps_cochlidiicola_AB027377 Cordyceps_emeiensis Cordyceps_japonica Cordyceps_multiaxialis Cordyceps_nepalensis Cordyceps_robertsii Cordyceps_sinensis_AB067717 Cordyceps_sinensis_AJ243775 Cordyceps_sinensis_AJ243776 Cordyceps_sinensis_AJ245559 Hirsutella_rhossiliensis Hirsutella_sinensis_AJ243979 Hirsutella_sinensis_AJ309353 Hirsutella_thompsonii Hirsutella_uncinata ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M767] TITLE 'Hirsutella uncinata, ITS'; LINK TAXA = Taxa1; DIMENSIONS NCHAR=570; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] 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 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_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_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_multiaxialis CATTATCGAGT-{CT}A-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_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_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_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_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_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_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 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 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_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_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_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- ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = 'Hirsutella uncinata, ITS') = N: 1-570; CODONPOSSET CodonPositions (CHARACTERS = 'Hirsutella uncinata, ITS') = N: 1-570; END; BEGIN TREES; TITLE Tb6743; LINK TAXA = Taxa1; TRANSLATE 1 Hirsutella_uncinata, 2 Hirsutella_thompsonii, 3 Hirsutella_sinensis_AJ309353, 4 Hirsutella_sinensis_AJ243979, 5 Hirsutella_rhossiliensis, 6 Cordyceps_sinensis_AJ245559, 7 Cordyceps_sinensis_AJ243776, 8 Cordyceps_sinensis_AJ243775, 9 Cordyceps_sinensis_AB067717, 10 Cordyceps_robertsii, 11 Cordyceps_nepalensis, 12 Cordyceps_multiaxialis, 13 Cordyceps_japonica, 14 Cordyceps_emeiensis, 15 Cordyceps_cochlidiicola_AB027377, 16 Cordyceps_coccidiicola_AB031196; TREE Fig._1 = [&R] (13,((14,((1,(11,(3,(((12,(6,4),9),8),7)))Cordyceps_sinensis_complex),10)),((15,16),5)),2); END;