#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 March 30, 2026; 19:21 GMT TreeBASE (cc) 1994-2008 Study reference: Tooley P., Goley E., Carras M., Frederick R., Weber E., & Kuldau G. 2000. Characterization of Claviceps species pathogenic on sorghum by sequence analysis of the beta-tubulin gene intron 3 region and EF-1 alpha gene intron 4. Mycologia, 93(3): 541-551. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S943] [ The following blocks are input data for analysis step 1592 ] BEGIN TAXA; TITLE TaxaForAnalysisStep1592; DIMENSIONS NTAX=30; TAXLABELS Claviceps_africana_cla1 Claviceps_africana_cla10 Claviceps_africana_cla12 Claviceps_africana_cla14 Claviceps_africana_cla17 Claviceps_africana_cla2 Claviceps_africana_cla25 Claviceps_africana_cla26 Claviceps_africana_cla3 Claviceps_africana_cla33 Claviceps_africana_cla34 Claviceps_africana_cla35 Claviceps_africana_cla4 Claviceps_africana_cla5 Claviceps_africana_cla56 Claviceps_africana_cla58 Claviceps_africana_cla7 Claviceps_africana_cla8 Claviceps_africana_cla9 Claviceps_africana_cls1 Claviceps_africana_cls2 Claviceps_africana_cls3 Claviceps_africana_cls4 Claviceps_fusiformis_clf1 Claviceps_paspali_cpas1 Claviceps_purpurea_GAM12885 Claviceps_purpurea_clp1 Claviceps_purpurea_clp2 Claviceps_sorghicola_cjap2 Claviceps_sorghicola_cjap7 ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2689] TITLE ITS; LINK TAXA = TaxaForAnalysisStep1592; DIMENSIONS NCHAR=633; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Claviceps_africana_cla1 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla10 TTTCCGTAGGTGAACCTGCGGAAGGATCATTACCTAGAGTTTG---------TGGA--CT-TCGG---------TCTGCT-ACCTCTT-ACCCA---TGT--CTTTTGAG----------TACCT-TCGTTTCCTCGGC--GGG------------TCCGCCCGCCGGTTGGAC-AACATTCAAACCCTT-TGCAGTTGCAATCAGCG---------TCTGA--------AAAAACTTAATAGTTACAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAGTGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCTTGGTATTCCATGGGGCATGCCTGTTCGAGCGTCATTTGTACCTTCAAGCTC----TGCTTGGTGTTGGGTGTTTTGTCTC-GC---------CTCC--GCGCG----CAGACTCGCCTTAAAACAATTGGCAG--CCGGCGTACTGATTTCGGAGCGCAGTA------CATCTCGCGCTTTGCACTCA--TAACGACGA-CGTCCA-AAA--GTACATCTTTACACTCTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAA Claviceps_africana_cla12 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla14 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla17 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla2 TTTCCGTAGGTGAACCTGCGGAAGGATCATTACCTAGAGTTTG---------TGGA--CT-TCGG---------TCTGCT-ACCTCTT-ACCCA---TGT--CTTTTGAG----------TACCT-TCGTTTCCTCGGC--GGG------------TCCGCCCGCCGGTTGGAC-AACATTCAAACCCTT-TGCAGTTGCAATCAGCG---------TCTGA--------AAAAACTTAATAGTTACAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAGTGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCTTGGTATTCCATGGGGCATGCCTGTTCGAGCGTCATTTGTACCTTCAAGCTC----TGCTTGGTGTTGGGTGTTTTGTCTC-GC---------CTCC--GCGCG----CAGACTCGCCTTAAAACAATTGGCAG--CCGGCGTACTGATTTCGGAGCGCAGTA------CATCTCGCGCTTTGCACTCA--TAACGACGA-CGTCCA-AAA--GTACATCTTTACACTCTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAA Claviceps_africana_cla25 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla26 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCAACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla3 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla33 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla34 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla35 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCAACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla4 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla5 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla56 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGGCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAA-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATTTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCA-AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla58 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGGCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAA-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCA-AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla7 TCTCCGTAGGTGAACCTGCGGAGGGATCATTACACA-AATATGAAGGCGGGCTGGAACCTCTCGGGGTTACAGCCTTGCTGAATTATTCACCCT---TGT--CTTTTGCG----------TACTTCTTGTTTCCTTGGT--GGG------------TTCGCCCACCACTAGGACAAACAT--AAACCTTT-TGTAATTGCAATCAGCG---------TCAGT--------AACAAATTAATAATTACAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAGTGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGTATTCCAAAGGGCATGCCTGTTCGAGCGTCATTTGTACCCTCAAGCTT----TGCTTGGTGTTGGGCGTCTTGTCTCTAG---------CTTT--GC-TG----GAGACTCGCCTTAAAGTAATTGGCAG--CCGGCCTACTGGTTTCGGAGCGCAGCA------CAAGTCGCACTCT-CTATCAGCAAAGGTCTAGCATCCATTAA--GCCTTTTTTTCAACTTTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTAA Claviceps_africana_cla8 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTCGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cla9 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cls1 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TACAAACTCCC-----AAACCCTTTGTGAACCT-T--A-CCATATTGTTGCTTCGGCGGG-ACCGC---CCC---GGCGCCTTCGGGCCCGGAACC--AGG-----CGCCCGCCGG-AGGCC---CC---AAACTCTTATGT-----CTTT-AGTGGTTTTCTCCTCTGAGT-GACACATAAACAAATAAATAAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCCCCCAGTGCCTGGTGTTGGGGATC--GGCCCAGC---------CTTCTCGCAAGGCC---GCCGGCCCCGAAATCTAGTGGCGGTCTCGCTGTA-GTCCTCCTCTGCGTAGTAGC--ACAACCTCGCAGTTGGAACGCGGC-GGTGGCCA--TGCCGTTAAACACCCCACTTCTGAAAGTTGACCTCGGATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cls2 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cls3 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_africana_cls4 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_fusiformis_clf1 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_paspali_cpas1 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_purpurea_GAM12885 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCATTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGACACAGCGGTACC---CGAG-CCCCCGCAAGGGA-GCAAAGGCGCCCCGTCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGACTTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_purpurea_clp1 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAGTTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_purpurea_clp2 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCCATGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_sorghicola_cjap2 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAGAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-CCCGCCAGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGAGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA Claviceps_sorghicola_cjap7 TCTCCGTTGGTGAACCAGCGGAGGGATCATTACC--GAGTT-----------TAC-AACTCCC-----AAACCCACTGTGAACTTAT--ACCCAAAACGTTGCCTCGGCGGGCACAGCGGTACC---CGAGCCCCCCGCAAGGGAGGCAGAGGCG-GCCGCCCGCCAG-GGGAC---CA---AAACTCTTCTGTA-TACCCAT-AGCGG----CATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTAAACCCTCAAGCTC----TGCTTGGTGTTGGGGACC--GGCTCAGCGGGTGCGGGCTTC-GGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGC--AGCCTTCTTTGCGTAGTAACATACCACCTCGCAACAGGAGCGCGGC--GCGGCCA-CTGCCGTAAAACGCCCAACTTTTTAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAACTTAA ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = ITS) = N: 1-633; CODONPOSSET CodonPositions (CHARACTERS = ITS) = N: 1-633; END; [ The following blocks are output data for analysis step 1592 ] BEGIN TREES; TITLE Tb6368; LINK TAXA = TaxaForAnalysisStep1592; TREE its_PAUP_1 = [&R] (Claviceps_purpurea_clp1,(((Claviceps_purpurea_clp2,Claviceps_purpurea_GAM12885),(((Claviceps_africana_cla2,Claviceps_africana_cla10),Claviceps_africana_cla7),Claviceps_africana_cls1)),Claviceps_fusiformis_clf1,Claviceps_paspali_cpas1,Claviceps_sorghicola_cjap2,Claviceps_sorghicola_cjap7,Claviceps_africana_cla1,Claviceps_africana_cla3,Claviceps_africana_cla4,Claviceps_africana_cla5,Claviceps_africana_cla8,Claviceps_africana_cla9,Claviceps_africana_cla12,Claviceps_africana_cla14,Claviceps_africana_cla17,Claviceps_africana_cla25,(Claviceps_africana_cla26,Claviceps_africana_cla35),Claviceps_africana_cla33,Claviceps_africana_cla34,(Claviceps_africana_cla56,Claviceps_africana_cla58),Claviceps_africana_cls2,Claviceps_africana_cls3,Claviceps_africana_cls4)); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr3641] END; BEGIN TREES; TITLE Tb6368; LINK TAXA = TaxaForAnalysisStep1592; TREE Fig._2 = [&R] (Claviceps_purpurea_clp1,((Claviceps_purpurea_clp2,(Claviceps_purpurea_GAM12885,(((Claviceps_africana_cla2,Claviceps_africana_cla10),Claviceps_africana_cla7),Claviceps_africana_cls1))),Claviceps_fusiformis_clf1,Claviceps_paspali_cpas1,Claviceps_sorghicola_cjap2,Claviceps_sorghicola_cjap7,Claviceps_africana_cla1,Claviceps_africana_cla3,Claviceps_africana_cla4,Claviceps_africana_cla5,Claviceps_africana_cla8,Claviceps_africana_cla9,Claviceps_africana_cla12,Claviceps_africana_cla14,Claviceps_africana_cla17,Claviceps_africana_cla25,(Claviceps_africana_cla26,Claviceps_africana_cla35),Claviceps_africana_cla33,Claviceps_africana_cla34,(Claviceps_africana_cla56,Claviceps_africana_cla58),Claviceps_africana_cls2,Claviceps_africana_cls3,Claviceps_africana_cls4)); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr3643] END; BEGIN TREES; TITLE Tb6368; LINK TAXA = TaxaForAnalysisStep1592; TREE its_PAUP_2 = [&R] (Claviceps_purpurea_clp1,(((Claviceps_purpurea_clp2,(((Claviceps_africana_cla2,Claviceps_africana_cla10),Claviceps_africana_cla7),Claviceps_africana_cls1)),Claviceps_purpurea_GAM12885),Claviceps_fusiformis_clf1,Claviceps_paspali_cpas1,Claviceps_sorghicola_cjap2,Claviceps_sorghicola_cjap7,Claviceps_africana_cla1,Claviceps_africana_cla3,Claviceps_africana_cla4,Claviceps_africana_cla5,Claviceps_africana_cla8,Claviceps_africana_cla9,Claviceps_africana_cla12,Claviceps_africana_cla14,Claviceps_africana_cla17,Claviceps_africana_cla25,(Claviceps_africana_cla26,Claviceps_africana_cla35),Claviceps_africana_cla33,Claviceps_africana_cla34,(Claviceps_africana_cla56,Claviceps_africana_cla58),Claviceps_africana_cls2,Claviceps_africana_cls3,Claviceps_africana_cls4)); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr3642] END;