#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 28, 2024; 19:22 GMT TreeBASE (cc) 1994-2008 Study reference: Cooke D., Drenth A., Duncan J., Wagels G., & Brasier C. 2000. A molecular phylogeny of Phytophthora and related Oomycetes. Fungal Genetics and Biology, 30(1): 17-32. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S679] [ The following blocks are input data for analysis step 1018 ] BEGIN TAXA; TITLE TaxaForAnalysisStep1018; DIMENSIONS NTAX=26; TAXLABELS Achlya_bisexualis Achlya_intricata Albugo_candida Dictyuchus_sterilis Halophytophthora_batemanensis Peronospora_rubi Phytophthora_cactorum Phytophthora_cambivora Phytophthora_capsici Phytophthora_cryptogea Phytophthora_infestans Phytophthora_insolita Phytophthora_macrochlamydospora Phytophthora_megasperma Phytophthora_palmivora Phytophthora_richardiae Phytophthora_sojae Pythium_aphanidermatum Pythium_dissotocum Pythium_graminicola Pythium_irregulare Pythium_ultimum Pythium_undulatum Pythium_vexans Saprolegnia_ferax Thraustotheca_clavata ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2255] TITLE ITS; LINK TAXA = TaxaForAnalysisStep1018; DIMENSIONS NCHAR=722; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Achlya_bisexualis -ATACAACTTTCAACAGTGGATGTCTAGGCTCGCACATCGATGGAGGACGCTGCGGACTGCGATACGTAATGCGATTTGAAGAATCAGTGAGTCACCGAAATTTGGAACGCATATTGAACTTGCGGGTTAGCCCTGGGAGTATGTTTGTTCCAGTGTCCGTACCAAAC-CAATTGTTTCATGTATT-----------TGAA--G---------CAGAATGTGAAGT-GTCTTGTCC------------------AATTGAACA--------------AGTCCTTTTAAA-TGAAACGTACC--TAT-ATACAACGTAAGAAGCATACCAA---TATA-----AA-GGTGTGTATCATTTGAA-TTTCAA-TATTGTTT-TGTATGAATATAC---AT---GACGTTGA----AAGTAAAATGAATT-GCGGTA-GTTTTGCTTGTACTT--GTACGAGTGAACAATATATTG-----CTTTTTGT-TTTACTG--TAGATGTGTGTATTGAA-GTATAAGATAAGAAGTTT---ATAATGGTATGTACTG--GGTTTGTT-TCTGTAGTGTATAGAAGCAAAT-GGGAAATGTGT-CCAATTTGGACCTGATATCAG--------------------------------------------------------------------------------------------------------- Achlya_intricata ------------------------------------------------------------------------------------------------------TTGAAACGCATATTGCACTTTCGGGTTAGTCCTGGGAGTATGTTTGT------------ATCAAAC-CAATTGTTTCATGTATT-----------TGAA--G---------CAGAATGTGAAGT-GTCTTGTTC------------------TTTTGAACA--------------AGTCCTTTTAAA-TGAAACGTACC--TAT-ATACAACGTAAGAAGCATACCAA---TATA-----AAAGGTGTGTATCATTTGAA-TTTCAA-TATTGTTT-TGTATGAATATAC---AT---GACGTTGA----AAGTAAAATGAATT-GCGGTA-GTTTTGCTTGTACTT--GTACGAGTGAACAATATATTG-----CTTTTTGT-TTTATTG--TAGATGTGTGTATTGCA-GTATGAAATAAGGAGTTT---ATAATGGTATATACTG--GGTT-GTT-TCTTTAGTATATAGAAGCAAAT-GGGAAATATAT-CCAAT------------------------------------------------------------------------------------------------------------------------- Albugo_candida --CAAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTTCGGGTTATGCCTGGAAGTATGCCTGTATCAGTGTCCATATCACAAACTTGCCCTTTTT------T---------TGGA------AAGGTGCAGATGCTGAGGT-GTCTTTTTG---GATCAAA-----AGATTTGAAAC----------------GTCCCTTGAAAAGCAGACGATAC--AAGGCTTTCCGTACACATGCTTTGCGTTTGTACATGCTAATCAGTGCGATCTTTCTTTTTGTGACTGGGACGTTGTACTAGTTGCTTTCCACGTTGGGTCACTC-AAATATGCAGTCTTCATTTGCGGTATGTTTTGCTTCGGCTT-GACACATTAGCTCATGAGATTGTATAGTTGGTTGTTCTTGTGGGTAGTACTTAGGATAATGGAAAGGTCATCAAGGAGACGG---AATTGCGTACTGACAAGCTGTACCGAAGTTAAATGCATGGGAAAGACTTT-ATCGTTAATTGGGAAAAGGATGCGTGTTGTTTGCTCTTCGCTCTTGAAGGATGCACTTGCTTGCAGGTACATTCTTTGAGAACGAGTTGTACATGACGCATGTCTCTCAT-------------------------- Dictyuchus_sterilis ------------------------------------------------------------------------------------------------------------------------TTTCGGGTTAGTCCTGGGAGTATGTTTGT------------ATCACACACACTTGTTTCATGTATA-----------TGAA--G---------CAGAATATGAAGT-GTCTTGTA--------------------TAATAACA--------------AGTCCTTTTAAAATGAGA--TACC--TAC-CTACAAACTCGTAAGGA----------A----------GGTATGTATTGTTTGCA-TTTCATATATTGTTT-TGTATGTTACTTC---TT---AACAATGAG--GAATGGAAACAAATT-GCGGTA-GTTTTATCTGTACTTTTGTATGGATGAACAATATATTG-----CTTTTTGT-ATTCATGCCTACAGTTTGGTTGTGGATATACTTGACAAGAAGTGT---AAAATGGTATATACT--------------TGTAGTGTA--GAAGCATATTGGGAAAACCATTCCAAT------------------------------------------------------------------------------------------------------------------------- Halophytophthora_batemanensis TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGGACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGGAGTATGTCTGTATCAGTGTCCGTAAAGCACTGTTGCCTCTCTTCCTTCCGTGTAGTCGGTGGCGGG---GACGG-CAGA-CGTGAAGC-GTCTTGC----TGCAGC-------TGTTTTGTGTGTTGCG-------GCAAGTCCTTTGAAA-----ACTGTGT--TCTC-TCTCTGTTTGTCGAAAGCGAGC---TGGAA-GTGTGCGTTGTGTGCGTGCGTGCG-TGCGCGGCGCTGCTGGGCGAGTG--TTCC-TGCGAGGGCGTTTTGGAGAGGGCTTGTTGATTCGCGGTATGTTAGGTTTCGGCCG-GACAAGGC-GC-----TTATCGGCGGGCTGTTCTCTGTTCTTGCGGTTGA-GTGTTCGTTT---TGGCGGCGTGTGCGTGTGT--GTGCTGTGTGCGGAGCGTTGCGCTTTTG-GCGAT-TTGAATCGCGAGTA---GTGCGTTTGCGGAGGCT-GCGTTGTGTGCGTATGCATGCGTGCGG--TGTT-TGCGAGCG---AGGAGGGTGAGTGAATTTGGGAAGTTGTGTGCTGTTGCGCGATGTTGTTGTCGCGCTTGTGGCACAACTCAA Peronospora_rubi TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGAAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGTTTTCTTCTTTCCGTGTAGTCGGTGGA-GG--ATATGC-CAGA-TGTGAAGT-GTCTTGCG----GCTGA---------TTTTCGGATC-G-----GCT-GCGAGTCCTTTGAAAT--GTACAGAAC--TGTACT-TCTCTTTGCTCGAAAAGCA----TGGC--GTTGCTGAT-TGTGGAGGCTGTC--CGCGTGGCCAGTC--GGCGATCGGTTTGTCTGCTGTGGC--TTAATGGAGGAGTGTTTGATTCGCGGTATGATTGGCTTCGGCTG-AACAG-GC-GC-----TTATTGGA-CGTTCTTT-CTGCTATGGCGGTA---TGGACTGATG---AACCGTAGC-TATGCGTTG--ACTTGGCTTTTGAATTGGCTTTGCTGTT-GCGAAGTAGAGTGGC------------AGTTTCAGCTGT--------CGAGGG--TCGACCCATATTG--GGAAAT-TGTGC-------TGTGCGG----CTTCGGT------CGTGTGGCATCTCAA------------------------------ Phytophthora_cactorum TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTTTCTTCCTTCCGTGTAGTCGGTGGA-GG--AGATGC-CAGA-TGTGAAGT-GTCTTGCG----GCTGG---------TTTTCGGACC-G-----ACT-GCGAGTCCTTTTAAAT--GTACTGAAC--TGTACT-TCTCTTTGCTCGAAAAGCG----TGGC--GTTGCTGGT-TGTGGAGGCTGCT--ATTGTAGCAAGTT--GGCGACCGGTTTGTCTGCTGCGGCG-TTAATGGAAGAGTGTTCGATTCGCGGTATGGTTAGCTTCGGCTG-AACAATGC-GC-----TTATTGGA-TGTTTTTT-CTGCTGTGGCGTGA---TGGACCGGTG---AACCATAGC-TCAGTTG-----CTTGGCTTTTGAATCGGCTTTGCTGTT-GCGAAGTAGAGTGGC------------GGCTTCGGCTGT--------CGAGGG--TCGATCCAT-TTG--GGAAAT--GTG--------TGTGTA-----CTTCGG-------TATG---CATCTCAA------------------------------ Phytophthora_cambivora TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGG--GGACGC-CAGA-CGTGAGGT-GTCTTGCGG----GTGG---------TCTTCGGGCT-G-----CCT-GCGAGTCCCTTGAAAT--GTACTGAAC--TGTACT-TCTCTTTGCTCGAAAAGCG----TGAC--GTTGTTGGT-TGTGGAGGCTGCC--TGTGTGGCCAGTC--GGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACAATGC-GC-----TTATTGGA-CGTTCTTC-CTGCTGTGGCGGTA---CGGATCGGTG---AACCGTAGC-TGTGCGAA---GCTTGGCCTTTGAACCGGCGGTGTTGGTCGCGAAGTAGGGTGGC------------GGCTTCGGCTGT--------CGAGGGG-TCAATCCAT-TTG--GGAACT-TGTGT------CTCTGCGGCGCGCTTCGGTGTGCTGCGGGTGGCATCTCA------------------------------- Phytophthora_capsici TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTTTCTTCCTTCCGTGTAGTCGGTGGA-GG--ATGTGC-CAGA-TGTGAAGT-GTCTTGCGT---GTTGT---------CCTTCGGGTC-G-----ACT-GCGAGTCCTTTTAAAT--GTACTGAAC--TGTACT-TCTCTTTGCTCGAAAAGCG----TGGT--GTTGCTGGT-TGTGGAGGCTGCC--TGCGTGGCCAGTC--GGCGACCGGTTTGTCTGCTGCGGCGTTTAAAGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACAGGC--GC-----TTATTGAA-TGCTTTTC-CTGCTGTGGCGTGA---TGGGCTGGTG---AACCGTAGC-TGTGTTTG---GCTTGGCTTTTGAATCGGCTTTGCTGTT-GCGAAGTAGGGTGGC------------GGCTTCGGCTGT--------CGAGGG--TCGATCCATTTTG--GGAA-C-TTTG--------TGTGCAC-----TTCG---------GTGCG-CATCTCAA------------------------------ Phytophthora_cryptogea TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACACTAAACTTGGCTCCCTTCCTTCCGTGTAGTCGGTGGATGG--GGACGCGCAGA-TGTGAAGT-GTCTTGCG----GCTGG---------TCTTCGGTCC-G-----GCT-GCGAGTCCTTTGAAAT--GTACTACAC--TGTACT-TCTCTTTGCTCGAAAAGCG----TGAC--GTTGCTGGT-TGTGGAGGCTGCC--TGTGTGGCATGTC--GGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACAG-AC-GC-----TTATTGGG-TGCTTTTC-CTGCTGTGGCTGGA---TGGACTGGTG---AACCGTAGC-TGTGCTAG---GCTTGGCGTTTGAACCGGCGGTG-TGGT-GCGAAGTAGGGTGTC---TG---TTCTGGCGTAAGCTGGG-GTGGA-CGAGGG--TCGATCCAT-TTG--GGAAAC-GTTG--------TGTGCG-----CTTCGG-------CGCG---CATCTCAA------------------------------ Phytophthora_infestans TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGAAGTATGCCTGTATCAGTGTCCGTACAACAAACTTGGCTTTCTCCCTTCCGTGTAGTCGGTGGA-GG--AGATGC-CAGA-TGTGAAGT-GTCTTGCG----GTTGG---------TTTCCGGACC-G-----ACT-GCGAGTCCTTTGAAAT--GTACTAAAC--TGTACT-TCTCTTTGCTCCAAAAGTGG---TGGC--ATTGCTGGT-TGTGGACGCTGCT--ATTGTAGCGAGTT--GGCGACCGGTTTGTCTGCTGCGGCG-TTAATGGAGAAATGCTCGATTCGTGGTATGGTTGCCTTCGGCTG-AACAATGC-GC-----TTATTGGG-TGATTTTC-CTGCTGTGGCGTGA---TGGACTGGTG---AACCATGGC-TCTTTAG-----CTTGGCATTTGAATCGGCTTTGCTGTT-GCGAAGTAGAGTGGC------------GGCTTCGGCTGC--------CGAGGG--TCGATCCAT-TTG--GGAAAT--GT---------TGTGTA-----CTTCGG-------TATG---CATCTCAA------------------------------ Phytophthora_insolita TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGGAGTATGCCTGTATCAGTGTCCGTACATGAAACTTGGCTTCCTTCCTTCCGTGTAGTCGGTGGC-GG--GAACGCTCAGA-CGTGAAGT-GTCTTGCCT---TGGCA---------ATTTGTAGGTTGTT---GTG-GCGAGTCCTTTGAAAT--GTA-AGACG--TGTG-T-TCTCTTTGCTGGAAAAGCGT----GTG--GCGCGTGGT-TGTGGAGGCTGCC--TGTGTGGCCAGTC--GGCGACTGATTTCG-TGCTGATGCGTGC---GGAGAGCGGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-ATTTT-CT-GC-----TTATTGGGTTGCTGTTTGCTGCGTCGGCGTTT-GCGGGGTCGGTG---AACCGTAGC-TGCGTTGG---GCTTGGCTTCTGAACTGTGTGC-TGTGCTGCGAAGTATGGTGGCT-G-C---GTGTGCCTTGTGGTACG-CGCGGCCGAGAGACTGTCACCAT-TTG--GGAA------------GTTTGTGTCG------TCGGCCTCG-GCCGGTGGCATCTCAA------------------------------ Phytophthora_macrochlamydospora TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGGAGGACCCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGGAGTATGCCTGTATCAGTGTCCGTACATGAAACTTGGCTCCCTTCCTTCCGTGTAGTCGGTGGATGG--GGACGCGCAGA-CGTGAAGT-GTCTTGCGG---CGGCG---------GCTTCG-GCCGGCT---GCT-GCGAGTCCTTTGAAAT--GTA-AGACC--TGTTCT-TCTCTTTGCCCGAAAAGCGT---TGCGT-GAGTGTGGT-TGTGGAGGCTGCCG-TTTGCGGCATGTC--GGCGACTGATTTCG-TGCTGAGGCGTGT---GGGGAGAGGCTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACTT-CT-GC-----TTATTGGTCTTTTTTTCGCGGCTTTGGCGTTTTGCGGGGTCGGTG---TACCGTAGC-TGCGGGTG---GCTTGGCCTTTGAACCGTGTTCGTGCGGAGCGAAGTAAGGTGG---G-C---GTGACTGTAGTGTTATG-GCCGA--GGGGGAC-GCAACCAT-TTG--GGAAAGTAATGC----TTTTCTGCCGGC--TTTGGGGCTGG-CGGGGCTGCATCTCGA------------------------------ Phytophthora_megasperma TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAACCTTGGTTTTCTTCCTTCCGTGTAGTCGGTGGA-GG--ATATGC-CAGA-TGTGAAGT-GTCTTGCTA---GCGGT---------CTTTCGAGTCTG-----CCG-GTGAGTCCTTTTAAAT--GTACTGAAC--TGTACTCTCTCTTTGCGCGAAAAGCG----TGGC--GTTGCTGGT-TGTGGAGGCTGCC--CGTGTGGCCAGTC--GGCGACCGGTTTGTTAGCTGTGGCGTTT---GGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTA-AACAATCT-GC-----TTATTGGG-TGCTTTTC-CTGTCATGGCGGTA---TGAACTGGTG---AACCGTAGC-TGTGTGGT---GCTTGGCTTTTGAACCGGCTTTGCT-TT-GCGAAGTAGTGTGAC------------GGCTTCGGCTGT--------CGAGGGG-TCGATCCATTTTG--GGAAAC-TTTG--------TGTGTGCG--GCTTCGTGC-----TGCGCG-CATCTCAA------------------------------ Phytophthora_palmivora TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGGAGGACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTGGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGTTTTCTTCCTTCCGTGTAGTCGGTGGT-GG--ATGTGC-CAGA-TGTGAAGT-GTCTTGCG----GCTGG---------TCTTCGGATC-G-----GCT-GTGAGTCCTTTGAAAT--GTACTGAAC--TGTACT-TCTCTTTGCTCCAAAAGCG----TGGC--GTTGCTGAT-TGTGGAGGCTGCT--TGCGTAGCCAGTCT-GGCGACCAGTTTGTCTGCTGTGGCG-TTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACAG-AC-GC-----TTATTGAA-TATTTCTT-CAGCTGTGGTGGTA---TG-ATTGGTG---AACCGTAGC-TATGTGA----GCTTGGCTTTTGAATTGGCTTTGCTGTT-GCGAAGTAGAGTGGC------------GGCTTCGGCTGT--------CGAGGG--TCGATCCAT-TTG--GGAACT-TGTG--------TATGC-------TTCGG-------CATG---CATCTCAA------------------------------ Phytophthora_richardiae TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGGAGTATGCCTGTATCAGTGTCCGTACATGAAACTTGGCTCCCTTCCTTCCGTGTAGTCGGTGGATGG--GGACGCGCAGA-CGTGAAGT-GTCTTGCGG---CGGCG---------GCTTCT-GCCGGCT---GCT-GCGAGTCCTTTGAAAT--GTA-AGACC--TGTTCT-TCTCTTTGCCCGAAAAGCGT---TGCGT-GAGTGTGGT-TGTGGAGGCTGCCG-TTTGCGGCATGTC--GGCGACTGATTTCG-TGCTGAGGCGTGT---GGGGAGAGGCTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACTT-CT-GC-----TTATTGGTCTTTTTTTCGCGGCTTTGGCGTTTTGCGGGGTCGGTG---TACCGTAGC-TGCGGGTG---GCTTGGCCTTTGAACCGTGTTCGTGCGGAGCGAAGTAAGGTGG---G-C---GTGACTGTAGTGTTATG-GCCGA--GGGGGAC-GCAACCAT-TTG--GGAAAGTAATGC----TTTTCTGCCGGC--TTTGGGGCTGG-CGGGGCTGCATCTCGA------------------------------ Phytophthora_sojae TAGCAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTAGTCCTGGGAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGGCTCTCTTCCTTCCGTGTAGTCGGTGGATGG--AGACGC-CAGA-CGTGAGGT-GTCTTGCGG---CGTGG---------CCTTCGGGCT-G-----CCT-GCGAGTCCCTTGAAAT--GTACTGAAC--TGTACT-TCTCTTTGCTCGAAAAGCG----TGAC--GTTGTTGGT-TGTGGAGGCTGCC--TGTATGGCCAGTC--GGCGACCGGTTTGTCTGCTGCGGCGTTTAATGGAGGAGTGTTCGATTCGCGGTATGGTTGGCTTCGGCTG-AACAATGC-GC-----TTATTGGA-TGCTTTTC-CTGCTGTGGCGGTA---TGGGCTGGTG---AACCGTAGC-TGTGTGAG---GCTTGGCTTTTGAACCGGCGGTGTTGTT-GCGAAGTAGGGTGGC------------GGCTTCGGCTGT--------CGAGGG--TCGATCCAT-TTG--GGAACTCTGTGTT---GTCTCTGCGGCTTGCTGCGGAG--------GTGGCATCTCAA------------------------------ Pythium_aphanidermatum TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCACATTGCACTTTCGGGTTATGCCTGGAAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGCCTTTCTTT-TTCTGTGTAGTCAGGGAGAGA---GA-TGGCAGAATGTGAGGT-GTCTCGC---TGGCTCC-------CTTTTCGGAGG-AGAAGACG----CGAGTCCCTTTAAATGTACGTTCGCT-CTTTCTTGTGTCTAAG-ATGAAGTGTGATTCTCGAATCGCGGTGATCTGTTTGGATCGCTT-TGCGCATTTGG-----GCGAC----TTCG--GTTAGGACATTA-AAGGAAGCAACCTCTATTGGCGGTATGTTAGGCTTCGGCCC-GACGTTGCAGC-----TGACAGA-GTGTGGTTTTCTGTTCTTTCCTTGAGGTGTACCTGAA-TTGTGTGAGGCAATGGTCTGGGCAAATGGTTGCTGTGT--AGTAGGGTTTTGCTG-CTCTTGGACGCCCTGT--T-------TTCGGATAGG-GTAAAGG---AGGCAACACCAAT-TTG--GGAC-TGTTT--------GCA-ATT--TATTG-TGAACAACTTTCTAA---------------------------------------- Pythium_dissotocum TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCACATTGCACTTTCGGGTTATGCCTGGAAGTATGCCTGTATCAGTGTCCGTACATCAAACTTGCCTTTCTTT-TTTTGTGTAGTCAAGAAGAGA---GA-TGGCAGACTGTGAGGT-GTCTCGC---TGACTCC-------CTCTTCGGAGG-AGAAGACG----CGAGTCCCTTTAAATGTACGTTCGCT-CTTTCTTGTGTTTAAAGATGAAGTGTGACTTTCGAA-CGCAGTGATCTGTTTGGATCGCTT-TGCTCGAGTGG-----GCGAC----TTCG--GTTAGGACATTA-AAGGAAGCAACCTCTATTGGCGGTATGTTAGGCTTCGGCCC-GACTTTGCAGC-----TGACTG--GAGTTGTTTTCTGTTCTTTCCTTGAGGTGTACCTGTC-TTGTGTGAGGCAATGGTCTGGGCAAATGGTTATTGTGT--AGTAGGAAGTTGCTG-CTCTTAAGCGCTCTAG--C-------TTCGGTTAGA-GTAAAGG---AGGCAACACCAAT-TTG--GGAT-AGTC---------GTTGATT--TATCAATGGCGCTCTTTCTAA---------------------------------------- Pythium_graminicola TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTGGAACGCACATTGAACTTCCGGGATATCCCTGGAAGTATGCTTGTTTCAGTGTCCGTACATCAAACTTGCCTTTCTTT-TTTGGTGTAGCCAAGGAGAGA---AA-TGGAAGAATGTGAGGC-GTCTCGC---TGGCTCC-------CCCTCCGGAGG-AGAAAACG----CGAGTCCCTTTAAATGTACGTCCGC--CTTTCTTGTGTCGAAGTA-GAAGTGTGACTATCGAA-CGCAGTGGTCTGTTTGGATCGCTT-GGCGCGAGTTG-----GCGAC----TTCG--GTTAGGACATTA-AAGGAAGCAACCTCTATTGGCGGTATGTTAGGCTTCGGCCC-GACTTTGCAGC-----TGACAGT-GTGTAGTTTTCTGTTCTTTCCTTGAGGTGTACCTGT--TTGTGTGAGGCAATGGTCTAGCCAAATGGTTATTGTGT--AGTAGGTGGTTGCTG-CTCTTTGGCGCCCTC------------TCG---AGG-GTAAAGG---AGGCAACACCAAT-TTG--GGATTAGTCT--------GTGGATT--TATTCATGG-GCGCTTTTCAAT--------------------------------------- Pythium_irregulare TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCGTTTCTTCCTTCCGTGTATTCGGTGGAGGA---GAGTTGCAGA-TGTGAAGT-GTCTCGCTG-TGGTTGGTGTTTGTTGTTTGCAATGAATGCACAGCTTGCGAGTCCTTTTAAATGGACACGACTT--TCTCTTTTTTGTATGTGCGCGGTGCTGTGCGTGAA-CGCGGTGGTTT--TCGGATCGCTC--GCGGCTGTCG-----GCGAC----TTCG--GTGAATGCAT-A-ATGGAGTGGACCTCGATTCGCGGTATGTTGGGCTTCGGCTG-GACAATGTTGC-----TTATTGT-GTGTCTGTT-CCGTGTTCGCCT-GAGGTGTACTGATGGCTGTGGGATTGAACTGGTTACTGTTGTTAGTAGTGTGTGTAGCACGTTGTCGTGGATGCATCTGTGTTTTTGCATACTTGTGTGTGTGCAATTGTACAGAA-GAGG-AGTCTCAAT-TTG--GGAAAAGTTTT-------GTATACTCCGGGTTGATCCTGCGTGTATATCTCAA----------------------------------- Pythium_ultimum TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTTCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCCTTTCTTT-TTCTGTGTAGTCAGGGATGGA---AT-GTGCAGA-TGTGAAGT-GTCTCGCA--TGGTTGCG--TTCGTTTTTTCGATCGAGAATCTGT---CGAGTCCTTTTAAATGGACACGGTCTTTTCTATGGTTTCTATG----AAGTGTAATGGTTGGAAGGCAGTGATTT--TCGGATTGCTG--GCGGCTTTTG-----GCGAC----TTCG--GTATGAACGT---ATGGAGACTAGCTCAATTCGTGGTATGTTAGGCTTCGGCTC-GACAATGTTGCG----TAATTGT-GTGTGGTCT-TTGTTTGTGCCTTGAGGTGTACTAGAGGTTGTCGGTTTGAACCGT------AAGTGATTGTTTAGT--AGAGCATTTTCACGA-TGTATGGAGACGCTGC--A------TTTAG---TTGCGTAGAG---------AGATTGAT-TTG--GGAA-ATTTT--------GTATCATTGTCAAT-TGCAAGATTGTGTATGGTATCTCAA------------------------------ Pythium_undulatum TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTTCGGGTTCTACCTGGAAGTATGTCTGTATCAGTGTCCGTACACTAAACTTGCCTTTCTTT-TTCTGTGTAGTCAGAGGAGGA---GA-TGGCCGA-TGTGAAGT-GTCTCGA---TCTGTGC-------TCATTTTGTGCCACACTGAT----CGAGTCCTTTTAAATGTACTCTGTTTTGTCTCTTGTTTCTATG-ATGTACTG-----CTGGAA-CGGAGTGATCT--TTGGATTGCTT--GCATGTTTGGTG---GCAAC----TTCG--GTTTAGACGCTA-G-GAGATAATGCTCGATTCGCGGTATGTTAGGCTTCGGCTG-GACAATGTTGC-----TTATTGT-GCGTTGGCT-CTGTTTTTACCTTGAGGTACCATTAT--TTGTGTGAG--ATGTGTCT----A-AGGATTGCTTGCA--AGTAAGGTGTTGCAG-CGTAGTGACGCTTTGG--TGCTGTTTTTCGGAGCGGTGTTGAGGTTGAGTGAAGCACAAT-TTG--GGAAAATTTT--------GTACACTGCTATTTTTGG-TAATTGTGTATCTCAA----------------------------------- Pythium_vexans TAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGGATTGCAGGATTCAGTGAGTCATCGAACTTTTGAACGCATATTGCACTTTCGGGTTACGCCTGGAAGTATGTCTGTATCAGTGTCCGTACACTAAACTTGCGTCTCTTCCGTC-GTGTAGTCGTCGGTTGTTTAGATTG-CAGA-TGTGAGGTTGTCTCGCAACGTGCCCCCCCTTGTTTTTTTGGGGGGTGGATAGGTT-GCGAGTCCCTTTAAAGTCGGACGGTGT--TTTT-TTCCGTTTTGT-----GCTCGA---TGGG----GTGCGGC---TGCGGCCGTGTC-TGCTGGCGGGTCC--GGTGACCT--TTG---GCGATGGCATGA--GAGTGGATTGCTCGATTTGCGGTATGTTAGGCTTCGGCTTTGACAATGCAGC-----TTATTG--GGTGTGTTCGCT--TG--GCTGTTGCTGTATGGGGTG---AGCTGGATGGTCGGTGGGT--GCGTTGT-TGCGTGTCGTTTTCATTGTGTGCGTT-TCGGTTGTCG--TC---GC-CATTTGGGAATTTA-ATGTTTTGGGGG-ACCCCTCAATACAT--CTCA-T---------------------------------------------------------------------------------- Saprolegnia_ferax ------------------------------------------------------------------------------------------------------------------------TTCCGGGTTAGTCCTGGGAGTATGTTTGT------------ATAACACAACCTTGTTTCATTTCTTGATTGAG---ATGGA--G---------CAGAATGTGAAG--GTCTTGTA----------------------ATTACA--------------AGTCCTTTTAAA-CGACG-GTACC--TATGCGTCCTCGTGAGATGTATT---A---TTTA-----AA-GGTATGCCTGCGCTTC--TTTCGA---GAGTCT-TGTGTGGCGGCAC---AC---AGCATTTCA--AAGAGAGAGCAAATTCGCGGTA-GTTTTGCTTGTATTTCGGTACGAGTGGACAC-ATATTG-----CTTTTTGTGATTTCTG---CGA-GTCTGTTGTTTAAGCACAGGACACGTAAGG----AGAGTGAG-TATGCTG--G----------TGCATTTCTTGGCGCAAAATTGGGAATTCAAT---AAT------------------------------------------------------------------------------------------------------------------------- Thraustotheca_clavata -------------------------------------------------------------------------------------------------------------------------TTTGGGTTAGTCCTGGGAGTATGTTTGT------------ATCAAAC-CAATTGTTTCATGTATT-----------TGAA--G---------CAGAACGTGAAGT-GTCTTGCTC------------------TTTAGAACA--------------AGTC-TTTTAAA-TGAAACGTACC--TAT-ATACAACGTAAGAAGCATACCAA---TATA-----AA-GGTGTGTATCATTTGAA-TTTCAAATAATGTTT-TGTATGAATATAC---AT---GACGTTGA----AAGTAAAATGAAT--GCGGTA-GTTTTGCT-GTACTT--GTACAAGTGAACAATATATTG-----CTTTTTGT-TTTGCTG--TAGATGTGTGTATTGCA-ATATAAGATAAGGAGTTT---ATAATGGTATATACTG--GGTT-GTT-TCTGTAGTATATAGAAGCAAAT-GGGAAATATAT-CCAAT------------------------------------------------------------------------------------------------------------------------- ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = ITS) = N: 1-722; CODONPOSSET CodonPositions (CHARACTERS = ITS) = N: 1-722; END; [ The following blocks are output data for analysis step 1018 ] BEGIN TREES; TITLE Tb5794; LINK TAXA = TaxaForAnalysisStep1018; TREE Fig._1 = [&R] (Albugo_candida,(Saprolegnia_ferax,(Dictyuchus_sterilis,(Achlya_intricata,(Thraustotheca_clavata,Achlya_bisexualis)))),(((Pythium_irregulare,Pythium_ultimum),(Pythium_undulatum,(Pythium_aphanidermatum,(Pythium_dissotocum,Pythium_graminicola)))),((Pythium_vexans,Halophytophthora_batemanensis),((Phytophthora_insolita,(Phytophthora_macrochlamydospora,Phytophthora_richardiae)),((Phytophthora_cryptogea,(Phytophthora_cambivora,Phytophthora_sojae)),(((Phytophthora_palmivora,Peronospora_rubi),(Phytophthora_cactorum,Phytophthora_infestans)),(Phytophthora_megasperma,Phytophthora_capsici))))Phytophthora))); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr3687] END;