#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 April 03, 2026; 3:19 GMT TreeBASE (cc) 1994-2008 Study reference: Dodd S., Lieckfeldt E., & Samuels G. 2002. Hypocrea atroviridis sp. nov., the teleomorph of Trichoderma atroviride. Mycologia, 95(1): 27-40. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S876] [ The following blocks are input data for analysis step 1458 ] BEGIN TAXA; TITLE TaxaForAnalysisStep1458; DIMENSIONS NTAX=18; TAXLABELS Hypocrea_neorufa_GJS8772 Hypocrea_neorufa_GJS96132 Hypocrea_neorufa_GJS96135 Hypocrea_neorufa_GJS96143 Trichoderma_aggressivum_CBS100526 Trichoderma_aggressivum_DAOM222156 Trichoderma_asperellum Trichoderma_atroviride Trichoderma_hamatum Trichoderma_harzianum Trichoderma_inhamatum Trichoderma_koningii_CBS457.96 Trichoderma_koningii_GJS94.115 Trichoderma_koningii_GJS95.175 Trichoderma_strigosum Trichoderma_viride_vb Trichoderma_viride_vd Trichoderma_viride_ve ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M337] TITLE 'EF1-alpha'; LINK TAXA = TaxaForAnalysisStep1458; DIMENSIONS NCHAR=656; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Hypocrea_neorufa_GJS8772 CATCGAGAAGTTCGAGAAGGTAAGCCCATTG-CAACTTTTTTT--CCATCATTTTTTTTTTTTGGTATTCACGT-GTGCGCGACGATTCTGTTCTCAGCTTT-------GTCAA---TTCTTTTCA-CTCTCCCACAATCA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGGCATGGT---GCAAAA-TTTTTCTGGCTGCCTTGTTTGGTTTTTTAGTGGGGTGTTTCAA--TTCTTT-----GGC-AGCAACCCCGCTA--TCGCCAC-TGTCCCT------CATCCATCGC----AACACAATTTGTCTCC-----ATTGCACCGT-CT--GCCCT-CAAAT----GCTTTGT-GATTCA-TTGTGCTGACCA-GGTATTCAATTA-TAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTCTGTT---CTTCTCCC--------AGACCGCGTCT----------G-AAGA--TGGCCA-TTCTAACACGCTGCTT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Hypocrea_neorufa_GJS96132 CATCGAGAAGTTCGAGAAGGTAAGCCCATTA-CAACTTTTTTTT-CCATCA-TTTTTTTTTT-GGTATTCACGT-GTGCGCGACGATTCTGTTCTCAGCTTT-------GTCAA---TTCTTTTCA-CTCTCCCACAATCA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGGCATGGT---GCAAAA-TTTTTCTGGCTGCCTTGTTTGGTTTTTTAGTGGGGTGTTTCAA--TTCTTT-----GGC-AGCAACCCCGCTA--TCGCCAC-TGTCCCT------CATCCATCGC----AACACAATTTGTCTCC-----ATTGCACCGT-CT--GCCCT-CAAAT----GCTTTGT-GATTCA-TTGTGCTGACCA-GGTATTCAATTA-TAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTCTGTT---CTTCTCCC--------AGACCGCGTCT----------G-AAGA--TGGCCA-TTCTAACACGCTGCTT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Hypocrea_neorufa_GJS96135 CATCGAGAAGTTCGAGAAGGTAAGCCCATTA-CAACTTTTTTTT-CCATCA--TTTTTTTTT-GGTATTCACGT-GTGCGCGACGATTCTGTTCTCAGCTTT-------GTCAA---TTCTTTTCA-CTCTCCCACAATCA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGGCATGGT---GCAAAA-TTTTTCTGGCTGCCTTGTTTGGTTTTTTAGTGGGGTGTTTCAA--TTCTTT-----GGC-AGCAACCCCGCTA--TCGCCAC-TGTCCCT------CATCCATCGC----AACACAATTTGTCTCCTCC--ATTGCACCGT-CT--GCCCT-CAAAT----GCTTTGT-GATTCA-TTGGGCTGACCA-GGTATTCAATTA-TAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTCTGTT---CTTCTCCC--------AGACCGCGTCT----------G-AAGA--TGGCCA-TTCTAACACGCTGCTT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Hypocrea_neorufa_GJS96143 CATCGAGAAGTTCGAGAAGGTAAGCCCATTG-CAACTTTTTT---CCATCA---TTTTTTTT-GGTATTCACGT-GTGCGCGACGATTCTGTTCTCAGCTTT-------GTCAA---TTCTTTTCA-CTCTCCCACAATCA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGGCATGGT---GCAAAA-TTTTTCTGGCTGCCTTGTTTGGTTTTTTAGTGGGGTGTTTCAA--TTCTTT-----GGC-AGCAACCCCGCTA--TCGCCAC-TGTCCCT---------CCATCGC----AACACAATTTGTCTCCTCC--ATTGCACCGG-CT--GCCCT-CAAAT----GCTTTGT-GATTCA-TCGTGCTAACCA-GGTATTCAATTA-TAGGAAGCCGCTGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTCTGTT---CTTCTCCC--------AGACCGCGTCT----------G-AAGA--TGGCCA-TTCTAACACGCTGCCT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_aggressivum_CBS100526 CATCGAGAAGTTCGAGAAGGTAAGC-----GCCAACTGACTTTCGCCTCGATTCTCCCTCC---ACATCCAATT-GTGCTCGATCATTCTGAAGAGAATTGTC------GACAA-----TTTTTC------------ATCA-CCCCGCTTT-CCA------TTACCCCTCCTTTG---CAGCGACACAAGATTTTTTTT-GCTGTC--GTTTGG--TTTTAGTGGGG---------TTCCTTGT-----GC-A-C--CCCCACTAGCT---CAC-TGCTTTTTTTTTGTGCTTCAC-T----ATCACTACCCA--GCCGTC--GTT-CAACGTGCTCTGTCTC-------------TCGT-CATCCAGTGATGCTAACCA-CTTTTTCCATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGT---CTCCTT--CATCACCCC--------GATGCAGCAATT-------------A-CAAGCCAGTGCTAACAGGCAA-TT-CACAGACGCTCCCGGCCACCGTGATTTTATCAAG Trichoderma_aggressivum_DAOM222156 CATCGA{CG}AAGTTCGAGAAGGTAAGC-----GCCAACTGACTTTCGCCTCGATTCTCCCTCC---ACATTCAATT-GTGCTCGATCATTCTGAAGAGAATTGTC------GACAA-----TTTTTC------------ATCACCCCCGCTTT-CCA------TTACCCCTCCTTTG---CAGCGACACAAATTTTTTTTT-GCTGTC--GTTTGG--TTTTAGTGGGG---------TTCCTTGT-----GC-A-C--CCCCACTAGCT---CAC-TGCTTTTTTTT-GTGCTTCAC-T----ATCACTACCCA--GCCGTC--GTT-CAACGTGCTCTGTCTCTCG-------------T-CATCCAGTGATGCTAACCA-CTTTTTCCATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGT---CTCCTT--CATCACCCC--------GATGCAGCAATTACA----------A----GCCAGTGCTAACAGGCAA-TT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_asperellum CATCGAGAAGTTCGAGAAGGTAAGCTCATTT-CACTGCTTTT--CCCATCA---A-TTTTT--GGCACAATCA-TATGCCCGACAATTCTGCTCTCAGTTTTT------GTC----TTTTTTTTCC------AGCGT--CA-CCCCGCTTTGCCAGTCTACCTACCCCTCCTTTGGCACAGC-----AAAAA-TTTTCTGGCTGCCTTGTTTGGC-TTTTAGTGGGGTGT--CAAATTTTTT------GGC-AGCAACCCCGCTA--TCGCCAC-TGCACCT------CTTCCATCA--CCCACCACA-TGCTATTTGCTC-AATCGCGTCGTC--------------------TTTTTTTG-TTCA-TTATGCTGATCATGC--TTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTGGACT---CTTCTCTCTAGC-TATCGAC---ATTCC------------A-AGTCCGCCA-TTCTAACATGCTCTTCCCACAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_atroviride CATCGAGAAGTTCGAGAAGGTAAGCTCATTT---CTGCTTTTT---CACTCCGCTCCCT---GAGCACAATCG---TGTCCGACAATTCTGTCCTCAGTCTT-------GTC-A--TTTTTTTTCC--TCGCAGCATCACA-CCCCGCTTTACCTG----TCTACCCCTCCTTTGGCACAGC-----AAAA--TTTTCTGGCTGCCTTGCTTGGC-TTTTAGTGGGGTGC--CAACTTTTTTTTGTTTGGC-TGCAACCCCGCTA--TCGCCAC-TGTCCC---------------GT-CCCAACGAATTGTACTC------AATTGCATCGTCTTCT-----------CCATCTCTGTGTGGTTCA-TTGTGCTAATCATGC--TTCAATCAATAGGAAGCCGCCGAGCTCGGCAAGGGTTCTTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTTCGCTTTT-----CCTC------ATTGAT---ACTTG---------G-A---GACCAAGA-TTCTAACGTGCCGCT-CTGTAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_hamatum CATCGAGAAGTTCGAGAAGGTAAGTTCATTT-CGCTGCTTTTTTT--ATTCC-----TTTT-GGGCACAATTG---TGCCAGACAATTCTGTTCTCAGTCTT-------GTCAACA--TTTTTTCCCA-CCAAGCATCGCA-CCCCGCTTTGTCTGCCTACCTACCCCTCCTTTGGCACAGC-----AAAAA-TTTTCTGGCTGCCTTGGTTGG-TTTTTAGTGGGGTGC--CAAATTTTT-------GGC-AGTGACCCCGCCA--TCGCCAC-TGTTCCT------CATGCACTA--CCCAACACA-TGCTACGTA-TC-AA---------------------------CTGC-TT---GGTTCA-TTGTGCTAATCATAC--TTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTT-CAG------TCCGACT-GG----TCACT--ATCCC-----------AACA--TCATCA-TGCTAACGTGCGACT-CCACAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_harzianum CATCGAGAAGTTCGAGAAGGTAAGC---TT--CAACTCATTTTCGCCTCGATTCTCCCTCC---ACATTTAATT-GTGCCCGATAATTCTGCAGAGAATTTTCGTG-TCGACAA-----TTTTTC------------ATCA-CCCCGATTTG-CA------TTACCCCTCCTTTG---CAGCGACGCAAA--TTTTTTTGGCTGTC--GTTTGG--TTTTAGTGGGG---------TTTCTCGT-----GC-A----CCCCACTAGGT---CAC-TGCTTTTTTT--CTGCTTCGC-T---CTT-ACTGCCCA--GCCATC--ATT-CAACGTGCTCTGCGTCTCA----------TC-A-CTTTCAGCGATGCTAACCA-C-TTTTCCATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTT--CT--TT-CCATCAACTTCA--------CACAGCGATTACA----------A----GCCAGTGCTAACAAGCAA-TT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_inhamatum CATCGAGAAGTTCGAGAAGGTAAGC---TT--CAACTGATTTTCGCCTCGATCCTCCCTCT---ACATTCAATT-GAACCCGACAATTCTGAAGAGAATTTTCGTGTTCGACAA-----TTTTTC------------ATCA-CCCCGCTTT-CCA------TTACCCCTCCTTTG---CAGCGACGCAAA--TTTTTTT-GCTGTCT-G-TTGG--TTTTAGTGGGG---------TTTCTTGT-----GC-A----CCCCACTAGCT---CACCTG-TATTTTT--CTGCTTCAC-T------CACTTCCCA--GCCATC--ATT-CAGCGTGTTCTGTGTCC-----------TTGGT-CATTCAGCGATGCTAACCA-C-TTTTCCATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTACGCTTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCTCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGT---CTTCTT--CATTAACTTCATGCTT--------CAATT--------------GCAAGTCAGTGCTAACAGGCAA-TT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_koningii_CBS457.96 CATCGAGAAGTTCGAGAAGGTAAGCTCATTTCCACTGCTTTTT---CACCACGC-----TT-GA-CACAATCG---TGTCCGACAATTCTGTTCTCAGTCTT-------GTCCA----TCTT--CC--TCGCAGCATCACA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGG--CAGC-----AAAATTTTTTCT-GCTGCATCGTTTGG-TTTTTAGTGGGGTGT--CAA-TTTTTTT------G--AGCAACCCCGCTA--TCGCCGC-TGTCCCTC-------------GT--CCATC-----GTCTCAAC---AAATTGCA-C-TCTTT-------CAATCGCATCGCCTTT--ATTCA-TTGTGCTGATCATG--TTTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGT----CATTT---CTAACTC-------TTGAC---ATGTC---------GAAATTCATCATCA-TTCTAACGTGCCGCT---GCAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_koningii_GJS94.115 CATCGAGAAGTTCGAGAAGGTAAGCACATTT-T-CTGCTTTTTTT-CGCTTCACA-TCTTT-GAACACAGCCG---TGTCCGACAATTCTGTTCTCAGAACT-------GTCAAAATTTTCTCTCA----GCATCACCACA-CCCCGCTTTGCCTG----TCTACCCCTCCTTTGGCACAGC-----AAAATTTTTTCTGTCTGCCTTGTTTGGCC-TTTAGTGGGGTAC--CA--TTTTTTT-----GG-TAGCAACCCCGCTA--TCGTCAC-TGT-----------ATC-TT-GT--CCATC-G-TCTCAACAAATTCCAATCGCATCGTC----G--CTCCAAG----TCTTTCTT---TTCA-TTGTGCTGATCAT-C-ATTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTT-CACAT----GT--CCTC--G----TTGAC--GAC-GC---------G-AA-AGATCATCA-TTCTAACATGCTGCTT-CACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_koningii_GJS95.175 CATCGAGAAGTTCGAGAAGGTAAGCTCATTT-CACTGCTTTTT--CCACCACGC-----TT--GGCACAATCG---TGTCCGACAATTCTGTTCTCAGTCTT-------GTC------TGTTTTCC--TCGCTGCGTCACA-CCCCGCTTCACCTG----TCTACCCCTCCTTTGG--CAGC-----AAA--TTTTTCT-GCTGTCTCGTTTGAC--TTTAGTGGGGTGC--CAA-TTTTTTTTT---GG---GCAACCCCGCTA--TCGCCAC-TGTCTCTCC-----ATC----GT-CCCAACAAAATG-CACTCATTC-AATCGCATCGTCTTTTGA-CTCGA----TTTCTCTAT--GGTTCA-TTGTGCTAATCATG--TTTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTGTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTT----A------TT-CCT---GGCTCTTGAC---ATATC---------G-A---CATCATCA-TTCTAACGTGCCACT---ACAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_strigosum CATCGAGAAGTTCGAGAAGGTAAGCTCATTT-CATTGCTTTTT---CGCCATGCACTTCC----------------AGCACGACAATTCTGTTCTCAGTCTT-------GTCAA---TTTTTTTCAA---TCAGCGTCACA-CCCCGCTTTGGTTG----TCTACCCCTCCTTTGGCACAGC-----AAAA--TTTTCTGGCTGCCTTGTTTGGC-TTTTAGTGGGGTGC--CAGC-TTGTTTTTT--GGCAAGCAACCCCGCTA--TCGCCAC-TGTAGCT------CGTCCATCGC-CCCAACACA-TTCTACTCTACC--ATCGCATCGT-CTTTG-CCTCGAAAT--CT-C-TT---GATTCA-TTATGCTGATCAT-C-TTTCAATCAATAGGAAGCCGCCGAACTCGGAAAGGGTTCCTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTT-TAG----TTTCCTC-------ATTGAC---ATCTC---------G-AA-A--TCATCA-TTCTAACATGTTGCCT-CACAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_viride_vb CATCGAGAAGTTCGAGAAGGTAAGCTCATTT-CACTGCTTTTT---CGCTACGCG-TTCAT--GGCCCAATCG---TGCCCGACAATTCTGTTCTCAGTCTT-------GTCAAC-----TTTTCCC-TCGCAGCATCACA-CCCCGCTTTGTCTGCC--TCTACCCCTCATTTTGCACAGC-----AAAA-TTTTTCTGGCAGTCTTGTTTGGC-TCTGAGTGGGGTGT--CAA-TTTTT-GTT---GGC-AGCGACCCCGCCA--TCGCCAC-TGTCCCT------CATCCATCGT-CCCAACACA-TTGTGCTCATTC-AATCGCATCGTCTTTTG-CCTC-AA---TTCCTTTGT--GGTTCA-TTGTGCTGATCATG--TTTCAACCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAGATACTATGTCACCGTCATTGGTATGTTTTT------GGTTCCCTC------AATGAC---ATTTC---------GC--CA--TCATCA-TTCTAACGTGCCACTGT-GCAGACGCTCCCGGCCACCGTGATTTCATCAAG Trichoderma_viride_vd CATCGAGAAGTTCGAGAAGGTAAGCTCATTT-CATTGCTTTTT---CACTACGC-TTTCTT--GGCACAATCG---TGTCCGACAATTCTGTTCTCAGTCTT-------GACAAA-----TTTTC-----GCGTCGTCACA-CCCCGCTCTACCTG----TCTACCCCTCCTTTGGCACAGC-----AGAAA-TTTTCTGGCTGCCTTGTTTGGC-TTTTAGTGGGGTGC--CAA-TTTTTTTT----GGC-AACAACCCCGCTA--TCGCCGT-TGTCCCT------CATCCATCGT-CCCAACA-ATTTGATCTCACTC-AATCACATCGTCTTCTG-CCTC-A---TTTTCTCCCT--AGTTCA-TTGTACTGATCATG--ATTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAAGTACTATGTCACCGTCATTGGTATGTTTT-------GGTTTCCTC------ATTGAC---ACCCCC--------GCA--A--TCATTA-TTCTAACGTGCCGCT-CCACAGACGCTCCCGGTCACCGTGATTTCATCAAG Trichoderma_viride_ve CATCGAGAAGTTCGAGAAGGTAAGCTCAATT-CACCCTTTTT----CATCACGCA-TTTTT--GGCACAATTG---TGCTCCACGACTCTGTCCTCAGTCTT-------GTCA----TTTCTCTC-----TCAGCGTCACA-CCCCGCTCTACCTG----TCTACCCCTCCTTTGGCACAGC-----AAAAA-TTTTCTGGCTGCCTTGCCTGG--TTTTAGTGGGGTGC--CAACTTTTTTCT----GGC----AACCCCGCTG--TCGCC----GTCCCT------CATCCATCG-CCCCAACAGA-TTGCACTCAGTC-AATCGCATCGTCTTCTG-CCTC-AA-------TTTGTTTG-TTCA-TTGTGCTGATCATT--TTTCAATCAATAGGAAGCCGCCGAACTCGGCAAGGGTTCTTTCAAGTATGCGTGGGTTCTTGACAAGCTCAAGGCCGAGCGTGAGCGTGGTATCACCATCGACATTGCCCTCTGGAAGTTCGAGACTCCCAGGTACTATGTCACCGTCATTGGTATGTTTTTTT-----CTTTCCGCT-GC---TTGAC---ACCTC----------CA-GA--CCATCC-TTCTAACGTGCCACT---ACAGACGCTCCCGGCCACCGTGATTTCATCAAG ; END; BEGIN SETS; CHARSET EFpolyT (CHARACTERS = 'EF1-alpha') = 51-63; CHARSET EFambig2 (CHARACTERS = 'EF1-alpha') = 291-374; CHARSET EFIntron2 (CHARACTERS = 'EF1-alpha') = 540-656; CHARSET EFambi1 (CHARACTERS = 'EF1-alpha') = 125-141; CHARSET EFexon (CHARACTERS = 'EF1-alpha') = 392-539; CHARSET EFIntron1 (CHARACTERS = 'EF1-alpha') = 1-410; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = 'EF1-alpha') = N: 1-656; CODONPOSSET CodonPositions (CHARACTERS = 'EF1-alpha') = N: 1-656; END; [ The following blocks are output data for analysis step 1458 ] BEGIN TREES; TITLE Tb6234; LINK TAXA = TaxaForAnalysisStep1458; TREE Fig._1d = [&R] ((((((Trichoderma_atroviride,Trichoderma_koningii_CBS457.96),((Trichoderma_koningii_GJS94.115,Trichoderma_koningii_GJS95.175),(Trichoderma_viride_vd,Trichoderma_viride_vb))),((Trichoderma_hamatum,Trichoderma_asperellum),Trichoderma_strigosum)),Trichoderma_viride_ve),((Hypocrea_neorufa_GJS96132,Hypocrea_neorufa_GJS96135),Hypocrea_neorufa_GJS8772,Hypocrea_neorufa_GJS96143)),(Trichoderma_aggressivum_CBS100526,Trichoderma_aggressivum_DAOM222156),(Trichoderma_harzianum,Trichoderma_inhamatum)); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr4035] END;