#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 25, 2024; 8:59 GMT TreeBASE (cc) 1994-2008 Study reference: Chou H., & Wu W. 2002. Phylogenetic Analysis of Internal Transcribed Spacer Regions of the Genus Alternaria, and the significance of filament-beaked conidia. Molecular Ecology, 106(2): 164-169. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S763] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=47; TAXLABELS Alternaria_alternata Alternaria_brassicae Alternaria_brassicicola Alternaria_carotiincultae Alternaria_carthami Alternaria_cheiranithi Alternaria_crassa Alternaria_dauci Alternaria_dianthi Alternaria_dianthicola Alternaria_infectoria Alternaria_japonica Alternaria_lini Alternaria_linicola Alternaria_longipes Alternaria_macrospora Alternaria_panax Alternaria_petroselini Alternaria_photistica Alternaria_porri Alternaria_protenta Alternaria_radicina Alternaria_raphani Alternaria_selini Alternaria_sesami Alternaria_smyrnii Alternaria_solani Alternaria_tagetica Alternaria_tenuissima Alternaria_zinniae Exserohilum_mcginnisii Exserohilum_pedicellatum Lewia_infectoria Nimbya_gomphrenae Pleospora_herbarum Pleospora_tarda Stemphylium_alfalfae Stemphylium_botrysum Stemphylium_callistephi Stemphylium_herbarum Stemphylium_sarcinaeforme Stemphylium_solani Stemphylium_vesicarium Ulocladium_alternariae Ulocladium_atrum Ulocladium_botrytis Ulocladium_chartarum ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M799] TITLE ITS1_and_ITS2; LINK TAXA = Taxa1; DIMENSIONS NCHAR=413; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Alternaria_alternata ------------CACAAATATGAAGGCGGG-CTGGAACCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCT-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACTAGGACAAACAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAAATTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCTAGCTTTG---CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTATCAG--CAAAGGTCTAGCATCCATTAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_brassicae ---------------CACAATATGAAGGCAGGCTGAAATCTCT-CGAG--AC---GACGGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCTATAAACCTTTTG---T--AATTGAAATCAGCGTCAG-TAACAAAATAAT--AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCTAGTTTG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CAAAGGTCAGTAT-CCACAAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_brassicicola CACAATATGAAAGCGGGCTGGACTCACCTCAGCAGCATCTGCTG-TTG--GG---GCCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAACATAAT--AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCATAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_carotiincultae -------------CACAATATGAAGGCGGG-CTGGAATCTTTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAAACAAACGTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCTCTTTTTTCAACTTT----------------------------------------- Alternaria_carthami ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAATGTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTGTCCCCCCCCCCTTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_cheiranithi -------------CACAATATGAAAGCGGGCTTGGAATCCTTCGGGG---TT---CTCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACCTCTTGTTTCCTTGGTGGGCTCGCCCACCATAGGACCAACCAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAG---TAACAAATTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_crassa ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAATGTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG--TCTCCCCCATG----CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCACCAAGCCTTTTTTTTTTTCAACTTT------------------------------------- Alternaria_dauci ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGGTG-------GCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAATCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAACATAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG----TCTCCCCTTG----CGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTTCAACTTT---------------------------------------- Alternaria_dianthi --------------CACAAATATGAAGGCGGGCTGGAATCTCT-CGGG--GT---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTGGGTGGGTTCGCCCACCACCAGGACCAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAAAATAATAATTACG-----TACCCTCAAGCTCTGCTTGGTGTTGGGCGTCTTGT-C----TCCAGTTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAATCCACAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_dianthicola -------------CACAATATGAAAGCGGGGCTGGCATCCTTTCGGGG--GT---TACAGCCTGGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCATAGGACAAACCACT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG--TAACAAAATTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTCCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTCCCAG--CCAAGGTCAGCGT-CCACGAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_infectoria -------------CCCGCTGGGCACTGCTTCACGGCGTGCGCGGCGG----G---GCCGGCCCTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTGGGTGGGCTCGCCCGCCCTCAGGACCAACCAC-AAACCTTTTG---C--AATAGCAATCAGCGTCAGTAACAACGTAATTAATTATG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTGT----CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTTCGCCAG--CCAAGGTCAGCGT-CCAGCAAGCCTTTTTTTTCAACCTCAACCT----------------------------------- Alternaria_japonica ------------CCTAGCAGTGCATTGCTTTACGGCGTGCGCTGTTAG--CG---GCCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACAAGGACAAACCATTAAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAACATAAT--AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CAAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_lini ------------CACAAATATGAAGGCGGG-CTGGAACCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCT-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACTAGGACAAACAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAAATTAATAATTATG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCTAGCTTTG---CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTATCAG--CAAAGGTCTAGCATCCATTAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_linicola ------------CACAAATATGAAGGCGGG-CTGGCACCTCCCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--C--AATGGCAATCAGCGTCAG-TAACAATGTAATAATTTATG----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG----TCTCCCCTTG---CGGG-AGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCACCAAGCCTTTTTTTTCAACTTT---------------------------------------- Alternaria_longipes ------------CACAAATATGAAGGCGGG-CTGGAATCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCT-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACTAGGACAAACAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAAATTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCTAGCTTTG---CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTATCAG--CAAAGGTCTAGCATCCATTAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_macrospora ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAAATGTAATAATTAT-----ACCCTCAAGCTTTTGCTTGGTGTTGGGCGTCTTCTTG--TCTCCCCCCTTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_panax --------------CACAATATGAAGGCGGGCTGGCCTCTCTCGGGA----G---GCTGGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAGTAACAACATAAT-AATTACG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCTAGTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCGT-CCACCAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_petroselini -------------CACAATATGAAGGCGGG-CTGAAATCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAC-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAAACAAATGTAATAATTA-----TACCCTCAAGCTCTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTCTTTTTCAACTTT----------------------------------------- Alternaria_photistica -------------CACAATATGAAGGCGGG-CTGGCCTCTCTCGGGAG-------GCTGGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAACATAATAATTATG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCGT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_porri ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGGTG-------GCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAATCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAACATAATAATTACG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG----TCTCCCCTTG----CGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_protenta ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAAATGTAATAATTAT------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG--TCCCCCCCCTTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_radicina -------------CACAATATGAAGGCGGG-CTGGAATCTTTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAAACAAACGTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTCTTTTTTTAACTTT---------------------------------------- Alternaria_raphani ------------CCTAGCAGTGCATTGCTTTACGGCGTGCGCTGTTAG--CG---GCCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACAAGGACAAACCATTAAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAACATAAT--AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CAAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Alternaria_selini -------------CACAATATGAAGGCGGG-CTGAAATCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAC-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAAACAAATGTAATAATTA-----TACCCTCAAGCTCTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTCTTTTTCAACTTT----------------------------------------- Alternaria_sesami ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAATGTAATAATTACG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG--TCCCCCCGCTTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_smyrnii -------------CACAATATGAAGGCGGG-CTGGAATCTCTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAAACAAATGTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTCTTTTTCAACTTT----------------------------------------- Alternaria_solani ------------CACAAATATGAAGGCGGG-CTGGCACCTCCCGGGG---TG---GCCAGCTTGCTGAATTATTCCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCG---ACACAAGGACCAACCCATAAACCTTTTTG---C--AATGGCAATCAGCGTCAG--TAACAATGTAATAATTTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG----TCCTCTTGCG------GGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCACCAAGCCTTTTTTTTCAACTTT---------------------------------------- Alternaria_tagetica ------------CACAAATATGAAGGCGGA-CTGGCACCTCTCGGGGG-----TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AGTGGCAATCAGCGTCAG-TAACAATGTAATAATTAT-------ACCTTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG--TCTCCCCCCCTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTTTAGCATCCAACAAGCCTTTTTTTTTTTTCAACTTT------------------------------------ Alternaria_tenuissima --------------CACAAATATGAAGGCGGGCTGGAACCTCT-CGGG--GT---TACAGCCTTGCTGAATTATTCACCCT-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACTAGGACAAACATA--AACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAAATTAAT--AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT-C----TCTAGCTTTG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTATCAG--CAAAGGTCTAGCATCCATTAAGCCTTTTTTTCAACTTT----------------------------------------- Alternaria_zinniae ------------CACAAATATGAAGGCGGG-CTGGCACCTCTCGGGG------TGGCCAGCCTTGCTGAATTATTCCACCCGTGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGCTCGCCCACCACAAGGACCAACCCATAAACCTTTTTG--T--AATGGCAATCAGCGTCAG-TAACAATGTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTGTCCCCCCCCCCTTG---CGGGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAGCCCCAAGGTCTAGCATCCAACAAGCCTTTTTTTCAACTTT----------------------------------------- Exserohilum_mcginnisii -------CACAACAAAAATATGAGGGTGTGGTTTGCTGGCAACAGCG--------TCCGCCCCAAGT--ATTTTTCACCCA-TGTCTTTTGCGCACTTTTTGTTTCCTGGGCGAGTTCGCTCGCCACCAGGACCCAACCATAAACCTTTTTTTATGCAGTTGCAATCAGCGTCAGTATAATAATTCAATTTATTAT-----ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTTG---TCTCTCCCCTTGTTGGGGGAGACTCGCCTTAAAACGATTGGCAGCCGACCTACTGGTTTTCGGAGCGCAGCACAAATT-TGCGCCTTCCAATCCACGGGG-CGG-CATCCAGCAAGCCTTTG-TTTTCTACAACAAATCCACATT---------------------------- Exserohilum_pedicellatum ------------CAAAGATATGAAG--GCGGGGTGCTGGCAACAGCG--------CTCTGCTGAATT--ATTTTTCACCCA-TGTCTTTTGCGCACTTTTTGTTTCCTGGGCGAGTTCGCTCGCCACCAGGACCCCCATATAAACCTTTTTGTTT----ATGCAATCAGCGTCAGTACAATAATG-AATTTATTAT-----ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTATTG---TCTCTCCGTCT--C-GGGGAGACTCGCCTCAAAACAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAATT-TGCGCTTGCAATCAGCCAAGGGCGG-CATCCATCAAGCCTTTTTTCATCCACATTTTGACCTCGGATCAGGTAGGGATACCCGCTGAACTTACA Lewia_infectoria -------------CCCGCTGGGCACTGCTTCACGGCGTGCGCG--GCG--GG---GCCGGCCCTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTGGGTGGGCTCGCCCGCCCTCAGGACCAACCAC-AAACCTTTTG---C--AATAGCAATCAGCGTCAG-TAACAACGTAATT-AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTGT----CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTCATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTTTGCCAG--CCAAGGTCAGCGT-CCAGCAAGCCTTTTTTTCAACCTT----------------------------------------- Nimbya_gomphrenae ------------CACAGATATGAAGGCGGGGCTGGCACCTCTCGGGG-------CTGCCGTCCTGCTGAATTATCCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTGGGTGGGTTCGCCCACCACCAGGACCAACCATGAACCTTTTTG---T--AATGGCAATCAGCGTCAG-TAACAATATAATCATTTAT------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-T----CTCTGGCTTTT--GCTGGAGACTCGCCTTAAAGGAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCACTCTCTTCCAG--CCAAGGTCTGGCATCCATGAAGCCTCTTTTTCAACCTT----------------------------------------- Pleospora_herbarum -------------CACAATATGAAAGCGGGTTGGGACCTCACCTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-------TCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTTCAACTTT------------------------------------- Pleospora_tarda -------------CACAATATGAAAGCGGGTTGGGACCTCACTTTGGTGAGG-GCTCCAGCTCGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTA----TTGTACCCTCAAGCTTTGCTTGGTGTTGGGCGTCCTTG-------TCTCTCACG--------AAACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTAACTTT--------------------------------------- Stemphylium_alfalfae -------------CACAATATGAAAGCGGGTTGGGACCTCACCTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTA----TTGTACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-------TCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTTCAACTT-------------------------------------- Stemphylium_botrysum -------------CACAATATGAAAGCGGGTTGGGACCTCACCTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCG-CCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTATG-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-------TCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTTCAACTTT------------------------------------- Stemphylium_callistephi -------------GACAATATGAAAGCGGGCTGGGGACTCACTTCGGTGCGGGCCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCATTCAGCGTCAGTAAACAATGTAATTATTATCATTTGTACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTTT-----GTCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACATTTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTAACTT---------------------------------------- Stemphylium_herbarum -------------CACAATATGAAAGCGGGTTGGGACCTCACCTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTG----TTGTACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-------TCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTTCAACTT-------------------------------------- Stemphylium_sarcinaeforme -------------CACAATATGAAAGCGGGCTGGGACCTCATCTCGGTGAGG-ACTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCCAACCATAAACCTATTTTTGT--AATTGCAATCAGCGTCAGTACACAATGTAATTATTATCATTTGTACCCTCAAGCTTTGCTTGGTGTTGGGCGCCTTG--------TCTCTCGCG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAACACAATTCTTGCACTTTGAATCCGCCTGGGTGGAGCGTCCATCAAGACCACATTTTTTTTTTTTTTTAACTT------------------------------- Stemphylium_solani -------------CACAATATGAAAGCGGGCTGGGACCTTACTTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATGTAATTATTATT---G-TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTG--------TCTCTCACG--------AGACTCGCCTTAAAATCATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCCTATTTTTTTTAACTTT------------------------------------- Stemphylium_vesicarium -------------CACAATATGAAAGCGGGTTGGGACCTCACCTCGGTGAGG-GCTCCAGCTTGTCTGAATTATTCACCCA-TGTCTTTTGCGCACTTCTTGTTTCCTGGGCGGGTTCGCCCGCCACCAGGACCAAACCATAAACCTTTTTGT----AATTGCAATCAGCGTCAGTAAACAATG---TAATTATT---A-TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTTG-------TCTCTCACG--------AGACTCGCCTTAAAATGATTGGCAGCCGACCTACTGG-TTTCGGAGCGCAGCACAATTCTTGCACTTTGAATCAGCCTTGGTTGAGCATCCATCAAGACCACATTTTTTTCAACTTT------------------------------------- Ulocladium_alternariae ------------CCCAGCAGTGCGTTGCTTTGCGGCGTGCGCTG-TTG--GG---GCCAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCACAAGGACAAACCAT-AAACCTTTTG---T--AATTGCAATCAGCGTCAG-TAACAATAATAAT-AATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGGGACTCGCCTTAAAGTTATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Ulocladium_atrum -------------CACAATATGAAAGCGGG-CTGGCATCCTTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCATAGGACAAACCAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAG--TAAAAAAATTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Ulocladium_botrytis -------------CACAATATGAAAGCGGG-CTGGCATCCTTCGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCATAGGACAAACCAT--AAACCTTTTG---T--AATTGCAATCAGCGTCAGTAAAAAAAAATTAATAATTA-----TACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CCAAGGTCAGCAT-CCACAAAGCCTTTTTTCAACTTT------------------------------------------ Ulocladium_chartarum -------------CACAATATGAAAGCGGG-CTGGAATCCTTTGGGG----T---TACAGCCTTGCTGAATTATTCACCCG-TGTCTTTTGCGTACTTCTTGTTTCCTTGGTGGGTTCGCCCACCATAGGACAAACCATT-AAACCTTTTG---T--AATTGCAATCAGCGTCAGTAAAAAAATTAATAATTAT-------ACCCTCAAGCTTTGCTTGGTGTTGGGCGTCTTGT------CTCCAGTTCG----CTGGAGACTCGCCTTAAAGTAATTGGCAGCCGGCCTACTGG-TTTCGGAGCGCAGCACAAGTCGCGCTCTCTTCCAG--CGAAGGTCAG-CATCCACAAAGCCTTTTTTCAACTTT------------------------------------------ ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = ITS1_and_ITS2) = N: 1-413; CODONPOSSET CodonPositions (CHARACTERS = ITS1_and_ITS2) = N: 1-413; END; BEGIN TREES; TITLE Tb5981; LINK TAXA = Taxa1; TRANSLATE 1 Exserohilum_pedicellatum, 2 Exserohilum_mcginnisii, 3 Alternaria_porri, 4 Alternaria_dauci, 5 Nimbya_gomphrenae, 6 Stemphylium_vesicarium, 7 Stemphylium_solani, 8 Stemphylium_botrysum, 9 Pleospora_herbarum, 10 Stemphylium_sarcinaeforme, 11 Stemphylium_callistephi, 12 Pleospora_tarda, 13 Stemphylium_herbarum, 14 Stemphylium_alfalfae, 15 Alternaria_panax, 16 Alternaria_infectoria, 17 Alternaria_solani, 18 Alternaria_smyrnii, 19 Alternaria_selini, 20 Alternaria_petroselini, 21 Alternaria_photistica, 22 Alternaria_radicina, 23 Alternaria_carotiincultae, 24 Alternaria_cheiranithi, 25 Alternaria_dianthicola, 26 Ulocladium_botrytis, 27 Ulocladium_atrum, 28 Alternaria_tenuissima, 29 Alternaria_dianthi, 30 Alternaria_brassicae, 31 Alternaria_raphani, 32 Ulocladium_alternariae, 33 Alternaria_japonica, 34 Alternaria_brassicicola, 35 Lewia_infectoria, 36 Ulocladium_chartarum, 37 Alternaria_longipes, 38 Alternaria_lini, 39 Alternaria_alternata, 40 Alternaria_tagetica, 41 Alternaria_crassa, 42 Alternaria_protenta, 43 Alternaria_linicola, 44 Alternaria_macrospora, 45 Alternaria_carthami, 46 Alternaria_zinniae, 47 Alternaria_sesami; TREE Fig._1 = [&R] (((((47,(46,45)),(44,42),43,(41,40),(4,3)),17)filamentbeaked_Alternaria,((39,38),37),(((36,(((27,26),24),25)),((23,22),((20,19),18))),((35,16),(34,((33,31),32))),(30,(29,28)),(21,15))smallspored_Alternaria,(((((14,13,9,8),6),(12,11)),10,7)Stemphylium,(2,1)))Pleosporales,5); END;