#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 July 07, 2025; 13:49 GMT TreeBASE (cc) 1994-2008 Study reference: Xue L. 2023. Differences in the Characteristics and Pathogenicity of Pyrenophora Species Associated with the Seeds of Italian Ryegrass. Plant Disease, 107(3): 758-770. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S25554] [ The following blocks are input data for analysis step 26007 ] BEGIN TAXA; TITLE TaxaForAnalysisStep26007; DIMENSIONS NTAX=26; TAXLABELS Alternaria_alternata_DAOM216376 Pyrenophora_avenicola_HMCK10 Pyrenophora_chaetomioides_HMCB11 Pyrenophora_chaetomioides_HMCT9 Pyrenophora_dictyoides_DAOM229292 Pyrenophora_dictyoides_DAOM75616 Pyrenophora_dictyoides_HMCA Pyrenophora_dictyoides_HMCD Pyrenophora_dictyoides_HMCD2 Pyrenophora_dictyoides_HMCD20 Pyrenophora_dictyoides_HMCD9 Pyrenophora_dictyoides_HMCE Pyrenophora_dictyoides_HMCT1 Pyrenophora_lolii_HMCI Pyrenophora_lolii_HMCT17 Pyrenophora_nobleae_HMCD3 Pyrenophora_nobleae_HMCG Pyrenophora_nobleae_HMCH Pyrenophora_poae_DAOM145373 Pyrenophora_teres_DAOM225625 Pyrenophora_teres_HMCT2 Pyrenophora_teres_HMCT51 Pyrenophora_tetrarrhenae_DAOM171966 Pyrenophora_triseptata_HMCT11 Pyrenophora_triseptata_HMCT12 Pyrenophora_triticirepentis_Pt1CBFP ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M52783] TITLE Pyrenophora_RPB1; LINK TAXA = TaxaForAnalysisStep26007; DIMENSIONS NCHAR=740; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 690 700 710 720 730 740 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Alternaria_alternata_DAOM216376 GAGCTGCACACACCCGTCTTTCACGTCGGTTTCGTTGTGAAGATCAAGAAGCTCCTCGAGACCGTGTGCCACACCTGTGGTCTCATCAAGGCTGACTTCGTAAGTCTTCCCACGTGAAGACAGAGACTTC-AGACT-CCTG-GATTTTGTGCTAACTGCAATATCAGAACCATCCTGACTGGGCCGCTGCCGCCAAGACCAAGGATGCGAAGAAGCGTTTTGACAAGATCTGGCGCATGTCCAAGGGCAAGACCGTGTGCATGCAGGACGTAGACGACGGAAGTGACAAAAACAAGATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCAAGCAACCTGACTCCATCCGCAAGGAGGGCTTGAAGCTCACAGGCACCTGGAAACAGAGCAAGAAGGACGACGATGACGGCCAAGGTGACCGCAAAGAAGTCATTACACCAAAGCAGGCACAGACCATCTTCAAGCTCATGTCCGACAACACACTTGCACTGCTCGGCCTGAACGCCGACTACGCACGTCCTGAGTGGATGATCCTCGATGTTCTGCCAGTGCCTCCGCCTCCAGTTCGCCCCAGTATCTCCGTCGATGGTACCGGCCAGGGTATGCGTGGAGAGGACGATTTGACATACAAGCTGGGAGATATCATCCGTGCCAACGGTCGTGTTGCAGAATGTCAGCAGGAGGGTTCACCTGCTCACGTAACAGCCGAAT----------------------------- Pyrenophora_avenicola_HMCK10 GAACTGCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACCGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTACGTGAAGACAGACATTTTCAGACG-CGTGAAATCTCATACTAACTGCACCACCAGAACCACCCTGACTGGATCGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTTGATAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGGCCAGACGCGGGTAAAGACAAGATTCCCAAGATTCCTCACGGCGGCTGCGGCAGCGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTTAAGCTCATGACAGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCGCGCCCCGAGTGGATGATTCTCGATGTTCTGCCAGTACCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTGGACGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACATATAAGCTTGGAGACATCATCCGCGCAAACGGCCGTGTCGCCGAGTGCCAGCAAGAGGGATCGCCTCAGCACGTCACTGCAGAGTTCGAAGCTCTTGTTCAATACCATGTTGCA Pyrenophora_chaetomioides_HMCB11 GAGCTGCACACGCCCGTCTTCCATGTTGGATTCGTCGTCAAGATCAAAAAGCTCCTCGAGACCGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGAAATCTCATACTGACTGCACCACCAGAACCACCCTGACTGGATTGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTTGATAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCAGACGCGGGCAAAGACAAGATTCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCCCAGACCATCTTTAAGCTCATGACGGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCGCGCCCCGAGTGGATGATTCTCGATGTTCTGCCAGTGCCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTGGACGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACATATAAGCTTGGTGACATCATCCGCGCAAACGGCCGTGTCGCCGAGTGCCAGCAAGAGGGATCGCCTCAGCACGTCACTGCCGAGTTCGAAGCTCTTGTTCAATACCATGTTGCA Pyrenophora_chaetomioides_HMCT9 GAGCTGCACACGCCCGTCTTCCATGTTGGATTCGTCGTCAAGATCAAAAAGCTCCTCGAGACCGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGAAATCTCATACTGACTGCACCACCAGAACCACCCTGACTGGATTGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTTGATAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCAGACGCGGGCAAAGACAAGATTCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCCCAGACCATCTTTAAGCTCATGACGGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCGCGCCCCGAGTGGATGATTCTCGATGTTCTGCCAGTGCCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTGGACGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACATATAAGCTTGGTGACATCATCCGCGCAAACGGCCGTGTCGCCGAGTGCCAGCAAGAGGGATCGCCTCAGCACGTCACTGCCGAGTTCGAAGCTCTTGTTCAATACCATGTTGCA Pyrenophora_dictyoides_DAOM229292 -------------CCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGTAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAAGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGTAAAGATGGGCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAGCAAGAGGGTTCACCCCAGCACATCACTACTGAGTT---------------------------- Pyrenophora_dictyoides_DAOM75616 GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGTAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACATGCG---ACGCCGACGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGGCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTT---------------------------- Pyrenophora_dictyoides_HMCA GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGTAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGGCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCD GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGTAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGGCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCD2 GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGCAAAGATGGTCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCD20 GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGCAAAGATGGTCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCD9 GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGCAAAGATGGTCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCE GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGTAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGCAAAGATGGGCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_dictyoides_HMCT1 GAGCTCCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGATGGCCCTGACACTGGCAAGGATAAAATCCCCAAGATTCCTCACGGCGGCTGTGGCAGCGCACAGCCTGATACCATTCGCAAAGATGGTCTCAAGCTCACCGCCACTTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTAAACGCCGACTATGCGCGCCCTGAGTGGATGATCCTCGATGTCTTGCCAGTACCTCCGCCACCAGTTCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAACTGGGTGACATTATCCGTGCAAACCAGCGCGTCGCCGAATGCCAACAAGAGGGTTCACCCCAGCACATCACTACTGAGTTCGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_lolii_HMCI GAGCTGCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGAAATCTCATACTGACTGCACCACCAGAACCACCCGGACTGGATCGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTTGATAAGATCTGGCGCATGTCGCGGACAAAGAGTACGTGCG---ACGCCGACGGTCCAGACGCGGGCAAAGACAAGATTCCCAAGATTCCTCACGGCGGCTGCGGCAGTGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACCGCTACCTGGAAGCAGAAGAAGAAGGAGGATGATGACGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTTAAGCTCATGACTGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCGCGCCCCGAGTGGATGATTCTCGATGTTCTGCCAGTACCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTAGACGGTACCGGTCAGGGTATGCGTGGAGAGGATGACTTGACATATAAGCTTGGAGACATCATCCGCGCAAACGGCCGTGTCGCCGAGTGCCAGCAAGAGGGATCGCCTCAGCACGTCACTGCCGAGTTCGAAGCTCTTGTTCAATACCATGTTGCA Pyrenophora_lolii_HMCT17 GAGCTGCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGAAATCTCATACTGACTGCACCACCAGAACCACCCGGACTGGATCGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTTGATAAGATCTGGCGTATGTCGCGGACAAAGAGTACGTGCG---ACGCCGACGGTCCAGACGCGGGCAAAGACAAGATTCCCAAGATTCCTCACGGCGGCTGCGGCAGTGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACCGCTACCTGGAAGCAGAAGAAGAAGGAGGATGATGACGGTTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTTAAGCTCATGACGGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCGCGCCCCGAGTGGATGATTCTCGATGTTCTGCCAGTACCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTAGACGGTACCGGTCAGGGTATGCGTGGAGAGGACGACTTGACATATAAGCTTGGAGACATCATCCGCGCAAACGGCCGTGTCGCCGAGTGCCAGCAAGAGGGATCGCCTCAGCACGTCACTGCCGAGTTCGAAGCTCTTGTTCAATACCATGTTGCA Pyrenophora_nobleae_HMCD3 GAGCTGCACACGCCCGTCTTTCACGTTGGATTTGTTGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCTTGATCAAGGCTGATTTTGTAAGTCTTCCTGCGCGGAGACCGACACAAT--GACG-CTTGCTTTCTCGTACTAACTGCAACCTCAGAACCACCCTGACTGGCTTGCTGCTACAAAGACAAAGGACGCGAAGAAGCGATTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACCTGTG---ACCCAGACGCACCAGAAACGGATAAAACTAAGATCCCGAAGATTCCCCACGGCGGCTGTGGCAGCGCACAGCCCGACACCATCCGTAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAGGAGGTCATTACCCCCAAGCAAGCCCAGACCATCTTCAAGCTCATGTCGGAAAACACACTTGCCCTTCTTGGCCTAAACGCGGACTATGCTCGCCCCGAGTGGATGATTCTTGACGTCTTGCCAGTGCCCCCTCCTCCAGTGCGCCCAAGTATCTCGGTCGACGGTACCGGTCAGGGTATGCGTGGAGAGGACGATTTGACATACAAGCTGGGTGACATCATCCGCGCCAACGGACGTGTCGCCGAGTGTCAGCAAGAAGGATCGCCTCAGCACGTGACCGCAGAGTTCGAAGCTCTTGTCCAGTACCATGTGGCG Pyrenophora_nobleae_HMCG GAGCTGCACACGCCCGTCTTTCACGTTGGATTTGTTGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCTTGATCAAGGCTGATTTTGTAAGTCTTCCTGCGCGGAGACCGACACAAT--GACG-CTTGCTTTCTCGTACTAACTGCAACCTCAGAACCACCCTGACTGGCTTGCTGCTACAAAGACAAAGGACGCGAAGAAGCGATTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACCTGTG---ACCCAGACGCACCAGAAACGGATAAAACTAAGATCCCGAAGATTCCCCACGGCGGCTGTGGCAGCGCACAGCCCGACACCATCCGTAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAGGAGGTCATTACCCCCAAGCAAGCCCAGACCATCTTCAAGCTCATGTCGGAAAACACACTTGCCCTTCTTGGCCTAAACGCGGACTATGCTCGCCCCGAGTGGATGATTCTTGACGTCTTGCCAGTGCCCCCTCCTCCAGTGCGCCCAAGTATCTCGGTCGACGGTACCGGTCAGGGTATGCGTGGAGAGGACGATTTGACATACAAGCTGGGTGACATCATCCGCGCCAACGGACGTGTCGCCGAGTGTCAGCAAGAAGGATCGCCTCAGCACGTGACCGCAGAGTTCGAAGCTCTTGTCCAGTACCATGTGGCG Pyrenophora_nobleae_HMCH GAGCTGCACACGCCCGTCTTTCACGTTGGATTTGTTGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCTTGATCAAGGCTGATTTTGTAAGTCTTCCTGCGCGGAGACCGACACAAT--GACG-CTTGCTTTCTCGTACTAACTGCAACCTCAGAACCACCCTGACTGGCTTGCTGCTACAAAGACAAAGGACGCGAAGAAGCGATTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACCTGTG---ACCCAGACGCACCAGAAACGGATAAAACTAAGATCCCGAAGATTCCCCACGGCGGCTGTGGCAGCGCACAGCCCGACACCATCCGTAAAGACGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGATGACGGCTCGGGCGACCGCAAGGAGGTCATTACCCCCAAGCAAGCCCAGACCATCTTCAAGCTCATGTCGGAAAACACACTTGCCCTTCTTGGCCTAAACGCGGACTATGCTCGCCCCGAGTGGATGATTCTTGACGTCTTGCCAGTGCCCCCTCCTCCAGTGCGCCCAAGTATCTCGGTCGACGGTACCGGTCAGGGTATGCGTGGAGAGGACGATTTGACATACAAGCTGGGTGACATCATCCGCGCCAACGGACGTGTCGCCGAGTGTCAGCAAGAAGGATCGCCTCAGCACGTGACCGCAGAGTTCGAAGCTCTTGTCCAGTACCATGTGGCG Pyrenophora_poae_DAOM145373 GAGCTGCACACGCCCGTCTTCCACGTCGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACCGACATTTTCAGACGCCCTGAATTCTCATACTGACTGCACCATCAGAACCACCCCGACTGGATCGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTCGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGTCCAGACACGGGCAAAGACAAGATACCCAAGATTCCTCACGGCGGCTGTGGTAGCGCACAGCCCGACACCATCCGCAAAGATGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAGGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTTCTTGGCCTGAACGCCGACTATGCTCGCCCCGAGTGGATGATTCTCGATGTCTTGCCCGTGCCCCCGCCTCCGGTGCGTCCCAGTATCTCCGTAGACGGTACTGGTCAAGGTATGCGTGGAGAGGATGATTTGACATACAAGCTCGGAGACATCATCCGCGCGAACCAGCGTGTCGCCGAGTGCCAGCAAGAGGGTTCGCCCCAGCACGTCACTGCTGAGTTCGAAGCTCTCGTCCAGTATCATGTTGCA Pyrenophora_teres_DAOM225625 ----------------------------------------------------------------------------------------------------------------CGTGAAGACAGACATTTTCAGACG-CATGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCCA{CT}CAAGACAAAGGACGCAAAGAAGCGTTTTGACAAAATCTGGCGCATGTCGCGGACAAAGAGCACGTG{CT}G---ACGCCGACGGCCCTGACGCTGGCAAAGATAAGATCCCCAAGATACCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGTCTCAAACTCACCGCCACCTGGAAGCAGAAGAAGAAGGAAGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTGAACGCCGACTATGCGCGCCCTGAGTGGATGATTCTCGATGTCTTGCCCGTACCTCCGCCACCGGTGCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGATGACTTGACGTATAAGCTGGGTGACATCATCCGCGCAAACGGTCGCGTCGCCGAATGCCAGCAAGAGGGTTCACCTCAGCACGTCACTGCTGAGTTTGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_teres_HMCT2 GAGCTGCATACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCCACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAAATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACGCTGGCAAAGATAAGATCCCCAAGATACCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGTCTCAAACTCACCGCCACCTGGAAGCAGAAGAAGAAGGAAGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTGAACGCCGACTATGCGCGCCCTGAGTGGATGATTCTCGACGTCTTGCCTGTACCTCCGCCACCGGTGCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGATGACTTGACGTATAAGCTGGGTGACATCATCCGCGCAAACGGCCGCGTCGCCGAATGCCAGCAAGAGGGTTCACCTCAGCACGTCACTGCTGAGTTTGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_teres_HMCT51 GAGCTGCATACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACAGACATTTTCAGACG-CGTGATTTCTCATACTGACTGCAACATCAGAACCACCCCGATTGGATCGCCGCCACCAAGACAAAGGACGCAAAGAAGCGTTTTGACAAAATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCTGACGCTGGCAAAGATAAGATCCCCAAGATACCTCACGGCGGCTGTGGCAGCGCACAGCCTGACACCATTCGCAAAGATGGTCTCAAACTCACCGCCACCTGGAAGCAGAAGAAGAAGGAAGACGACGATGGCTCGGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTGCTTGGCCTGAACGCCGACTATGCGCGCCCTGAGTGGATGATTCTCGACGTCTTGCCTGTACCTCCGCCACCGGTGCGTCCTAGTATCTCCGTTGATGGTACTGGTCAGGGTATGCGTGGAGAGGATGACTTGACGTATAAGCTGGGTGACATCATCCGCGCAAACGGCCGCGTCGCCGAATGCCAGCAAGAGGGTTCACCTCAGCACGTCACTGCTGAGTTTGAAGCTCTTGTCCAATACCATGTTGCG Pyrenophora_tetrarrhenae_DAOM171966 GAGCTGCACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACGTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACCGACATTTTCAGACG-CCTGAACCCCCATACTGACTGCACCATCAGAACCACCCCGACTGGATCGCCGCTACCAAGACCAAGGACGCAAAGAAGCGTTTCGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCCGACGGCCCAGATACGGGCAAAGACAAGATCCCCAAGATTCCCCACGGCGGCTGCGGCAGCGCACAGCCTGACACCATCCGCAAAGATGGCCTTAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAAGACGACGACGGCTCGGGCGACCGCAAAGAAGTCATTACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTTCTTGGCCTGAACGCAGACTATGCTCGCCCCGAGTGGATGATTCTCGATGTGCTGCCAGTACCTCCGCCTCCGGTGCGTCCCAGTATCTCTGTAGACGGTACTGGTCAGGGTATGCGTGGAGAGGACGACTTGACATACAAGCTCGGAGACATCATCCGTGCAAACGGTCGTGTCGCCGAGTGCCAGCAAGAGGGTTCGCCCCAGCACGTCACTGCTGAGTTCGAAGCTCTCGTCCAGTACCATGTTGCA Pyrenophora_triseptata_HMCT11 GAGCTGCACACGCCCGTCTTCCACGTCGGGTTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACCGACATTTTCAGACG-CTTGAATTCTCGTACTGACTGCACCATCAGAACCACCCCGACTGGATCGCCGCCACCAAGACCAAGGATGCCAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ATGCCGACGGCCCAGACACGGGCAAGGACAAGATTCCCAAGATCCCTCATGGTGGTTGTGGCAGTGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACTGCGACTTGGAAGCAGAAGAAGAAGGAGGACGACGACGGCTCGGGTGATCGCAAAGAAGTCATTACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTCCTTGGCCTGAACGCCGACTATGCTCGCCCCGAGTGGATGATTCTTGATGTCTTGCCAGTACCCCCGCCTCCGGTGCGTCCCAGTATCTCCGTAGACGGTACTGGCCAGGGTATGCGTGGAGAGGATGATTTGACATACAAGCTGGGAGACATTATCCGCGCAAACGGTCGTGTCGCCGAATGCCAGCAAGAGGGTTCGCCTCAGCACGTCACTGCTGAGTTCGAAGCTTTGGTCCAGTACCATGTTGCA Pyrenophora_triseptata_HMCT12 GAGCTGCACACGCCCGTCTTCCACGTCGGGTTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTTGTAAGTCTTCCTGCGTGAAGACCGACATTTTCAGACG-CTTGAATTCTCGTACTGACTGCACCATCAGAACCACCCCGACTGGATCGCCGCCACCAAGACCAAGGATGCCAAGAAGCGTTTTGACAAGATCTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ATGCCGACGGCCCAGACACGGGCAAGGACAAGATTCCCAAGATCCCTCATGGTGGTTGTGGCAGTGCACAGCCCGACACCATCCGCAAAGACGGTCTCAAGCTCACTGCGACTTGGAAGCAGAAGAAGAAGGAGGACGACGACGGCTCGGGTGATCGCAAAGAAGTCATTACCCCCAAGCAAGCTCAGACCATCTTCAAGCTCATGACGGAAAACACGCTAGCGCTCCTTGGCCTGAACGCCGACTATGCTCGCCCCGAGTGGATGATTCTTGATGTCTTGCCAGTACCCCCGCCTCCGGTGCGTCCCAGTATCTCCGTAGACGGTACTGGCCAGGGTATGCGTGGAGAGGATGATTTGACATACAAGCTGGGAGACATTATCCGCGCAAACGGTCGTGTCGCCGAATGCCAGCAAGAGGGTTCGCCTCAGCACGTCACTGCTGAGTTCGAAGCTTTGGTCCAGTACCATGTTGCA Pyrenophora_triticirepentis_Pt1CBFP GAGCTACACACGCCCGTCTTCCACGTTGGATTCGTCGTCAAGATCAAGAAGCTCCTCGAGACTGTGTGCCACACCTGTGGCCTGATCAAGGCTGACTTT--------------------------------------------------------------------AACCACCCCGATTGGATTGCCGCTACCAAGACAAAGGACGCAAAGAAGCGTTTCGACAAAATTTGGCGCATGTCGCGGACAAAGAGCACGTGCG---ACGCTGACGGCCCCGACAGTGGCAAGGACAAGATCCCCAAGATACCTCACGGTGGTTGCGGCAGTGCACAGCCTGACACCATTCGCAAAGATGGTCTCAAGCTCACCGCCACCTGGAAGCAGAAGAAGAAGGAAGATGATGATGGCTCAGGCGACCGCAAAGAAGTCATCACCCCCAAGCAAGCTCAGACCATCTTCAAGCTTATGACGGAAAACACGCTAGCACTGCTTGGCCTGAACGCTGACTATGCGCGCCCCGAGTGGATGATCCTCGATGTCTTGCCCGTACCTCCGCCGCCAGTGCGTCCTAGTATCTCCGTCGACGGTACTGGTCAGGGTATGCGTGGAGAGGACGATTTGACGTATAAGCTGGGTGACATCATCCGCGCAAACGGTCGCGTCGCCGAATGCCAGCAAGAGGGTTCACCTCAGCACGTCACTGCCGAGTTCGAAGCTCTTGTCCAGTACCATGTTGCG ; END; [ The following blocks are output data for analysis step 26007 ] BEGIN TREES; TITLE Pyrenophora_RAxML_from_the_analysis_of_the_RPB1_alignment; LINK TAXA = TaxaForAnalysisStep26007; TREE RPB1_tree = [&R] ((((((Pyrenophora_dictyoides_HMCD9:1.0E-6,Pyrenophora_dictyoides_HMCD2:1.0E-6):1.0E-6,(Pyrenophora_dictyoides_HMCT1:1.0E-6,Pyrenophora_dictyoides_HMCD20:1.0E-6):1.0E-6):9.0553E-4,((Pyrenophora_dictyoides_DAOM75616:0.00137095,(Pyrenophora_dictyoides_HMCA:1.0E-6,Pyrenophora_dictyoides_HMCD:1.0E-6):1.0E-6):0.00131271,(Pyrenophora_dictyoides_HMCE:1.0E-6,Pyrenophora_dictyoides_DAOM229292:0.00419201):1.0E-6):0.00305246):0.02863278,(((Pyrenophora_teres_HMCT51:1.0E-6,Pyrenophora_teres_HMCT2:1.0E-6):0.00429304,Pyrenophora_teres_DAOM225625:0.00161215):0.01024483,Pyrenophora_triticirepentis_Pt1CBFP:0.04428414):0.00605019):0.0183225,(((Pyrenophora_lolii_HMCT17:0.00282919,Pyrenophora_lolii_HMCI:0.00265796):0.01221305,(Pyrenophora_avenicola_HMCK10:0.01069193,(Pyrenophora_chaetomioides_HMCT9:1.0E-6,Pyrenophora_chaetomioides_HMCB11:1.0E-6):0.00964637):0.00399913):0.02657689,(((Pyrenophora_triseptata_HMCT11:1.0E-6,Pyrenophora_triseptata_HMCT12:1.0E-6):0.04460833,((Pyrenophora_nobleae_HMCD3:1.0E-6,Pyrenophora_nobleae_HMCG:1.0E-6):1.0E-6,Pyrenophora_nobleae_HMCH:1.0E-6):0.15842094):1.0E-6,(Pyrenophora_poae_DAOM145373:0.02327378,Pyrenophora_tetrarrhenae_DAOM171966:0.02924913):0.00466543):0.00968056):0.02090126):0.19385244,Alternaria_alternata_DAOM216376:0.19385244); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr121251] END;