#NEXUS [written Thu Dec 11 13:22:52 JST 2014 by Mesquite version 2.75 (build 566) at KAGEYAMA-SHARE/127.0.0.1] BEGIN TAXA; TITLE ITS.Taxa; DIMENSIONS NTAX=15; TAXLABELS 'Pythium sp. WJB-1' Pythium_sp._6_eu Pythium_polare_ Pythium_cederbergense_ Pythium_viole_ 'Pythium sp. STE-U 7549' Pythium_okanoganense_CBS40183 Pythium_iwayamai_CBS69783 Pythium_nagaii_ Pythium_spinosum_ Pythium_alternatum_ Pythium_canariense_ Pythium_iwayamai_CBS15664 Pythium_paddicum_ Pythium_okanoganense_CBS31581 ; END; BEGIN CHARACTERS; TITLE ITS.Character_Matrix; DIMENSIONS NCHAR=1044; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX 'Pythium sp. WJB-1' CACCCTAAA---ACTTTCC-CGTGAACTGTCTTACTTAGTTTTGTGCTGCTGC-GGGA----------TACTC-----------TAT-------TGAGTATTC----TGCAACGGCTGAACGAAGGTTG---------GT--TGAGTGTTGTC-----TCTGCGTACTTGAT---------------------------------------TGTGT-----------------GCGGGA---CGTACGC--CGC-----CGACTGACTTATTCTTTCAACCCC---ATACTTTAAGAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCTGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTC-------ATTGTG------AGAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGAC-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTGACTTCCGTGTTCGCCTTGAGGTGTACTGGCGGTTGTGGGCTTG-ATCAGTTGATTGTT-------GTGTAGTAGGCTA--ATGCATTG--TTTGCGAATTC-GTCTGTG-ATTGAC-ACATTTGTTTGTGTTGG----TTGTGGGAGA-ATGATTG-ATTTGGGAAATTTTGTGTTT------GTTTGCCTTCG-GGTGGATA---------------AGCATCTCAA Pythium_sp._6_eu CACCCTAAA---ACTTTCC-CGTGAACTGTCTTACTTAGTTTTGTGCTGCTGC-GGGA----------TACTC-----------TAT-------TGAGTATTC----TGCAACGGCTGAACGAAGGTTG---------GT--TGAGTGTTGTC-----TCTGCGTACTTGAT---------------------------------------TGTGT-----------------GCGGGA---CGTACGC--CGC-----CGACTGACTTATTCTTTCAACCCC---ATACTTTAAGAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCTGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTC-------ATTGTG------AGAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGAC-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTGACTTCCGTGTTCGCCTTGAGGTGTACTGGCGGTTGTGGGCTTG-ATCAGTTGATTGTT-------GTGTAGTAGGCTA--ATGCATTG--TTTGCGAATTC-GTCTGTG-ATTGAC-ACATTTGTTTGTGTTGG----TTGTGGGAGA-ATGATTG-ATTTGGGAAATTTTGTGTTT------GTTTGCCTTCG-GGTGGATA---------------AGCATCTCAA Pythium_polare_ CACCTAAAAA--ACTTTCCACGTGAACTGTCTGACTTAGTTTTGCGCTGCTGC-GGGGT--GTGT---TTTGCGTGCT----TGCAC---GGGAAGCACTGTC----TGCGGCGGCTGAACGAAGGTTG---------GT--GTCGTGTTGTC-----TGTGCGCGCTTGAT---------------------------------------TGCGT-----------------GCGGGA---CGTCCGT--CGC-----CGGCTGACTTA-TTTTTCAACCCC--ATTACCTAAC-AACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTAAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GCTTCTT-------GTGATG------AGAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGGG-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGAGTGTGGATTCCGTGTTCGCCTTGAGGTGTACTGGCGGTCGTGGGCTTG-ACCTGTTTGTCGTT-------GTGTAGTAGGCTG--TCGCATTG--TTTGCGGATTC-GTCTGTG-GCTGAC-ACTTTCT--GGTGTTGG----TTGCGGGAGA-ATGATTG-ATTTGGGAAATGTTGTGTTT---GCTGTGCCTTTTTG-GGTCGGCC---------------TACATCTCAA Pythium_cederbergense_ CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTCTTGT-CGGGAGTGTGT---TCTGCGTGCGCTT-TGCAC---GGAGAGCGTCTTCT---TGCAACGGCTGAACGAAGGTTG---------GT--GAAGTGTTGTCTCTT-TTTGCGTGCTTGAT---------------------------------------TGTAT-----------------GCGGGAGACCGTACGC--CGC-----CGACTGACTTACCTTTTCAACCCCCTATTACAAAACAAACTGAAA--TATACTGTGAGAACGAAAGTTCTCGCTTTGAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTCTT-------GGTATTCTTTCCAAGAGCACGGCGGTCGAGTCCTTTGAAAACGACACGA---TCTTTCTTATGAG-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTTGCTTCCGTGTTCGCCTCGAGGTGTACTGGCGGTTGTGGGCTTG-ATCTGTTGGTTGTT-------GTGTAGTAGACTA--GTACATTG--TTTGTAGATTC-GTCTGCA-ATTGC-----------------------TTGCAGGAGA-ATGATTG-ATTTGGGACATTTTGTGTTT---GTTATCCACTTTGC-AGTGGAGYGACA-----------TACATCTCAA Pythium_viole_ CACCTAAAAAATACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGTCGGGA---GTGT---TCTGCGTGCGCTTGCACGG-----AGAGCGTTTCT----TGCAACGGCTGAACGAAGGTTG---------GTTGAGTGTGTTGTCT----TTTGCGTGCTTGAT---------------------------------------TGTAT-----------------GCGGGGGA-CGTACGC--CGC-----CGGCTGACTTACTTTTTCAACCCC--ATTACGAAACAAACTGAAG--TATACTGTGAGAACGAAAGTTCTCGCTTTGAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTCTT-------GGTATTGTTTCCAAGAGCACGGCGGTCGAGTCCTTTGAAAACGACACGA---TCTTTCTTATGGGTTTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTGGCTTCCGTGTTCGCCTCGAGGTGTACTGGCGGTCGTGGGCTTG-ACCTGTTTGTGGCT-------GTGTAGTAGGCTA--GTGCATTG-TTTCGCGGATCC-GTCTGCG-ACTGAC-GCTTTCG--GGTGTTGGTG--TTGTAGGAGA-AAGATTG-ATTTGGGAAGTATTGTGTTT----GCGTTTGCCTTCG-GGCGAGTA---------------AGCATCTCAA 'Pythium sp. STE-U 7549' CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGTGCTGTTGTAAGAGA--GTGT---TCTGTGCGCTTTTGTGTGT---GCAAAACATTTCTC---TGCAACGGCTGAACGAAGGTTG---------GT--GGCGTGTTGTCTT--------------------------------------------------------TGAGA--------------------------CGTACGC--CGC-----CGGCTGACTTACTTTTTCAACCCC--ATTACGAAACAAACTGAAG--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTCTT-------GGTATTCTTTCCAAGAGCACGGCGGTCGAGTCCTTTGAAAACGACACGA---TCTTTCTTATGGG-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTGGATTCCGTGTTCGCCTCGAGGTGTACTGGCGGTCGTGGGCTTG-ACCTGTTTGTCGCT-------GTGTAGTAGGCTT--GTGCATTG-TTTTGCGGACTC-GTCTGCG-GCTGAC-GCTTTCG--GGTGTTGGTG--TTGCAGGAGA-AAGCTTG-ATTTGGGAAGTTTTGTGTTT---GTTGTCCGCCTGTGCGGTCGACA---------------TGCATCTCAA Pythium_okanoganense_CBS40183 CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGTGCTGCTGC-GGTGGCGGTGT---TCTGCGCACATGTGCGTG----GGACGCTGTTTTC----TGCAGTGGCTAAACGAAGGTTG---------GTT-GGAGTGTTGT------TGTGTGTGCTTTAT---------------------------------------TGCGC-----------------GCCAT----CGTACGCTCTGC-----CGGCTGACTTATTTTTTCAACCCC---TTACTTTAAAAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCCTTTCTTTT-TCTGTGTAGTCAGGATTGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTG-------GTGAAA-----CAAAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGTG-TCTGCGGCGTGTGGCGCTCGAACGCAGTGATTTTCGGATCGCTTGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTCGGTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGATGCTGTGTGTGGATTCCGTGTTTATCTTGAGGTGTACTGGCGGTTGCGGGCTTG-AACCGGGTGTTGTT-------GTGTAGTAGAGAG--TTGCATTT-TGTTGTGGATTC-GTCTGTG-ACTGGC-GCCTTTATTGGTGTCGG----TTGTGGGAGA-AGGATTG-ATTTGGGAAATTTTGTGTAC----------ACTTTTG-TG---------------------TACATCTCAA Pythium_iwayamai_CBS69783 CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGC-GGTGGCGGTGT---TCTGCGCACTTGTGCGTGG-------GACGCTGTTCATCTGCGGCGGCTAAACGAAGGTTG---------GTT-GGAGTGTTGT------TGTGTGTGCTTTCT---------------------------------------TGCGC-----------------GCCGT----CGTACGCTCTGC-----CGGCTGACTTATTTTTTCAACCCC---TTACTTTAAAAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCCTTTCTTTT-TCTGTGTAGTCAGGATTGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTG-------GTGAAA-----CAAAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGTG-TCTGCGGCGTGTGGCGCTCGAACGCGGTGATTTTCGGATCGCTTGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTCGGTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGATGCTGTGTGTGGATTCCGTGTTTACCTTGAGGTGTACTGGCGGTTGCGGGCTTG-ACCCGGGTGTTGCT-------GTGTAGTAGAGTG--TTGCATTT-TGTTGTGGACTC-GTCCGTG-GCTGGC-GCCTTGATTGGTGTCGG----TTGTGGGAGA-AGGGTTG-ATTTGGGAAATTTTGTGTGC----------ACTTTTG-TG---------------------TACATCTCAA Pythium_nagaii_ CACCTAAA----ACTTTCCACGTGAACTGTCATGTAACGTTTCGTACTTGC-T-GTGTGTTGTGTCGATGTGCATTCATTTGCGTGT---CGGCTGCGCACT-----GGCA--GGTTGAACGAAGGTCGCATTGTGTACTTGCCTGTGTCGCTCTTTTTTTGTTTCCTTTGTGTTGTATTTCGGTACAAGAGAGAGGAGAGAGAGAGAGAGTGCGC-----------------GCGGTGTG-TGTGTGCGGTGT-----CGGCTGACCTATTTTTTCAAACCC-AATTACCTCAAATACTGATC--AATACTGTGAGAACGAAAGTTCTTGCTTTAAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTTCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-TCTGTGTAGTCAGTGAGAGAGAGTTGCAGATGTGAAGTGTCTCGGCCGTTGGCGTGTGTGTGTCGTGTGCTTTTGTTAGCACGTGGTG-CGTCGC---GCACTGTGGCCGAGTCCTTTTAAACGGACCCGA---TCTTTCTTATGTT-TCTGCGACGTGTGGCGCTCGAACGCGGCGATTTTCGGATCGCTCGCAGTTGTCGGCGACTTCGGCGAAGACAT--TACGGAGGAAACCTCAATTCGCGGTATGTTAGGCTTCGGTCGGACAATGTTGCTTAT-TGTGTGTGGAATCTGTTTTCGCCTTGAGGTGTACTGGCGGTTGTGGGCTTGTGTCTGTTGGTCGTTATTTTCCGTGTAGTAGAGAG--CTGC-TTGTGTGCGTGGATTCTGCCTGTC-TCAGTC-AGTTCGCTGGCTGTGTG----TGGTAAAAGA-TAGATTGCATTTGGGAAATGTTGTACTCTTGGTTGTTTGTGTCTC-TGTAATGGAGCGCGGCGGCTTTTTGTATCTCAA Pythium_spinosum_ CACCTAAAAA--ACTTTCCACGTGAACTGTCATTATTTGTTGTGTGTCTGTGC-GTTGTTGGCGTGCATTTGCTTACACTTTGGTGTTTGTGAGTGCGTGTTGGCAGTGTGCGGACTGAACGAAGGTTG---------------TGTGTTGTTA----TGTGCCTGCTGCACTGCTGACTT------------------------------TGCATTCATTTGTATGGTCTTGGCGGAGTGGCGGGTACTGTGCATGCGCARCTGACTTATTTTTTCAAACCC--CATACCTAAATGACTGAT---TATACTGTGAGAACGAAAGTTCTTGCTTTAAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATACCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGKCTTTCTTCCTTCCGTGTAGTCGGTGGAGGAGAGTTGCAGATGTGAAGTGTCTC------------GCTATGGTTG---GCATTT--------GTAATG-------AATGCACAGCTTGCGAGTCCTTTTAAATGGACACGACTTTCTCTTTTTTGTA-TCTGCGTGGTGCTGTGTATGAACGCGGTGGTTTTCGGATCGCTCGCGGCTGTCGGCGACTTCGGTGAATGCAT--TATGGAGTGGACCTCGATTCGCGGTATGTTGGGCTTCGGCTGGACAATGTTGCTTAT-TGTGTGTTTGTTCCGTGTTCGCCTTGAGGTGTACTGGTAGTTGTGGGATTG-AACTGGTTACTGTT-------GT-TAGTAGTGTGTAGTGCGTTG---TCGTGGATGC-ATCTGTCTTTTGTGCACTTTTGTGTGTGCAGT----TGATAGAAGAGGAGTTTGAATTTGGGAAAT-TAGTGTACT--GTGGGTTAATCCTG-CGTG-------------------TATATCTCAA Pythium_alternatum_ CACCTAAAA---ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGT-GGGG----------TATTCGCACTTTT-TGTGT-------CGAGTATTC----TGCGGCGGCTGAACGAAGGTTG---------GT--TGAGTGTTGTC-----TCCGCGTGCTTTAT---------------------------------------TGTAT-----------------GCGGGA---CGTACTC--CGC-----CGGCTGACTTATTTTTTCAACCCC---TTACTTTAACAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTTCGGGTTATACCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-TCTGTGTAGTCAGAGGAAGAGA-CGGCTGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTC-------GTAATG------AGAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGAG-TTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGAGTGTGAAATCCGTGTTCGCCTCGAGGTGTACTGGCGGTTGTGGGCTTG-ATCAGTTGATTGTT-------GTGTAGTAGACTG--GTACATTG--TTTGTGGATTC-GTCTGTA-ACTGGC-GCACTTG--TGTGTTGG----TTGTAGGAGA-ATGATTG-ATTTGGGAAATTTTGTGTTT------ATTCGCCTTCG-GGTGAATC---------------CACATCTCAA Pythium_canariense_ CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGT-CGGGA--GTGT---TCTGCGTGCGCTT-TGCAC---GGAGAGCGT-TTCT---TGCAACGGCTGAACGAAGGTTG---------GT--GGCGTGTTGTCTTTTCTTTGCGTGCTTGAT---------------------------------------TGTAT-----------------GCGGGAGA-CGTACGC--CGC-----CGGCTGACTTACTTTTTCAACCCC--ATTACGAAACAAACTGAAGTATATACTGTGAGAACGAAAGTTCTCGCTTTGAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTCTT-------GGTATTCTTTCCAAGAGCACGGCGGTCGAGTCCTTTGAAAACGACACGA---TCTTTCTTATGAGTTTTGCGACGTGTGTTGGTCGAACGCGGTGATTTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGAGTGTGGAATCCGTGTTCGCCTCGAGGTGTACTGGCGGTCGTGAGCTTG-ACCTGTTTGTCGGT-------GTGTAGTAGGCTT--GTGCATTGTTTTCGCGGACTC-GTCTGCG-ACTGAC-GCTTTCG--GGTGTTGGTGTATTGCAGGAGA-GAGCTTG-ATTTGGGAAGTTTTGTGTTT---GTTGTTTGCCTTCG-GGTGGAATA--------------AGCATCTCAA Pythium_iwayamai_CBS15664 CACCTAAA----ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGTCGGGA---GTGT---TCTGCGTGCGCGCTTGCAC---GGAGAGCGTTTCT----TGCAACGGCTGAACGAAGGTTG---------GT--GGCGTCTTGTCTTC--TTTGCGTGCTTGAT---------------------------------------TGTAT-----------------GCGGGAGA-CGTACGC--CGC-----CGGCTGACTTACTCTTTCAACCCC--ATTACGAAACAAACTGAAG--TATACTGTGAGAACGAAAGTTCTCGCTTTGAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAACCTTGCCTTTCTTTTCCCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTG-------GATATG-TGTCTAAAAGCACGATGGTCGAGTCCTTTGAAAACGACACGA---TCTTTCTTATGAG-TTTGCGACGTGTGTTGGTCGAACGCGGTGATCTTCGGATCGCTCGTGGTCGTCGGCGACTTCGGTGAATGCATTATATGGAAGAAACCTTGCTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTATGTGGGTGTGACTTTCGCGTTCGCCTTGAGGTGTACTGGCGGTTGTGGGCTTG-ATCTGTTGGTTGTC-------GTGTAGTAGACTA--GTGCATTG--TTTGTCGATTC-GTCTGCA-ATTGC-----------------------TTGCAGGAGA-ATGATTG-ATTTGGGACATTTTGTGTTT----GTTTCCACTTTGC-GGTGGGCGACA------------TACATCTCAA Pythium_paddicum_ CACCTAAAAA--ACTTTCCACGTGAACTGTCTTACTTAGTTTTGCGCTGCTGC-GGTAGCGGTGT---TCTGCGCACTTGTGCGTGG-------TGCGCTGTTTATCTGCAGCGGCTAAACGAAGGTTG---------GTT-GGAGTGTTGT------TGTGTGTGCTTTCT---------------------------------------TGCGC-----------------GCCAT----CGTACGCTCTGC-----CGGCTGACTTATTTTTTCAACCCC---TTACTTTAAAAACTGAAC--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCCTTTCTTTT-TCTGTGTAGTCAGGATTGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTG-------GTAAAA-----CAAAAGCACGGCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGTG-TCTGCGGCGTGTGGCGCTCGAACGCAGTGATTTTCGGATCGCTTGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTCGGTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGATGCTGTGTGTGGATTCCGTGTTGACCTTGAGGTGTACTGGCGGTTGCGGGCTTG-ACCCGGGTGTTGTT-------GTGTAGTAGAGTG--TTGCATTT-TGTTGTGGACTC-GTCCGTG-ACTGGC-GCCTTTGTTGGTGTCGG----TTGTGGGAGA-AGGGTTG-ATTTGGGAAATTTTGTGTGC----------ACTTTTG-TG---------------------TACATCTCAA Pythium_okanoganense_CBS31581 CACCTAAAA---ACTTTCCACGTGAACTGTCTTACTTAGTT-TGCGCTGCTGCGAGGGG--GTGT---TCTGCGCACATGTGCGTGG--------GCGTCTTT----TGCGGCGGCTAAACGAAGGTTG---------GT--TGAGTGTTGT------TGTGCGTGCTTTAT---------------------------------------TGCGC-----------------GCCGT----CGTACGCT-TGC-----CGGCTGACTTATTTTTTCAACCCC-TTTTAACTTAC-AACTGAAT--TATACTGTGAGAACGAAAGTTCTCGCTTTTAACTAGATAACAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGAATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTTATGCCTGGAAGTATGTCTGTATCAGTGTCCGTAAATCAAACTTGCCTTTCTTTT-CCTGTGTAGTCAGGGGAGGAGA-CGGCCGATGTGAAGTGTCTC------------GCGTGCGTCG---GTTTTTG-------GTGAAA-----CAAAAGCAC-GCGGTCGAGTCCTTTTAAAACGACACGA---TCTTTCTTATGTGCTCTGCAGCGTGTGGCGCTCGAACGCGGTGATTTTCGGATCGCTTGTGGTCGTCGGCGACTTCGGTGAATGCAT--TATGGAGGAAACCTCGGTTCGCGGTACGTTAGGCTTCGGCTGGACAATGTTGCGTTACTGGGTGTGGATTCCGTGTTCTCCTTGAGGTGTACTGGCGGTTGCGGGCTTG-AACCGGGTGTTGCT-------GTGTAGTAGAGAG--TTGCATTT-TGTTGTGGACTC-GTCCGTG-GCCGGCTTCCTTGATTGGTGTCGG----TTGTGGGAGA-AGGATTG-ATTTGGGAAATTTTGTGTGC---ATGTGTCATTTCTG-GCTCGTG----------------TACATCTCAA ; END; Begin PAUP; Set Criterion = Likelihood; LSet Nst = 2 BaseFreq = Estimate TRatio = Estimate Rates = Gamma Shape = Estimate NCat = 8; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 1044; END; BEGIN TREES; Title 'ITS.Trees from "MP_tree.tre"'; LINK Taxa = ITS.Taxa; TRANSLATE 1 'Pythium sp. WJB-1', 2 Pythium_sp._6_eu, 3 Pythium_polare_, 4 Pythium_cederbergense_, 5 Pythium_viole_, 6 'Pythium sp. STE-U 7549', 7 Pythium_okanoganense_CBS40183, 8 Pythium_iwayamai_CBS69783, 9 Pythium_nagaii_, 10 Pythium_spinosum_, 11 Pythium_alternatum_, 12 Pythium_canariense_, 13 Pythium_iwayamai_CBS15664, 14 Pythium_paddicum_, 15 Pythium_okanoganense_CBS31581; TREE PAUP_1 = (1:0.0,2:0.0,(((3:26.0,((4:18.0,13:29.0):17.0,((5:22.0,12:11.0):6.0,6:23.0):11.0):23.0):29.0,(((7:9.0,(8:8.0,14:5.0):7.0):14.0,15:17.0):36.0,(9:89.0,10:90.0):65.0):39.0):30.0,11:17.0):34.0); END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 1044; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 1044; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1418271772531; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 119379172897300322; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3165546025560017269; mqVersion 275; checksumv 0 3 532421219 null getNumChars 1044 numChars 1044 getNumTaxa 15 numTaxa 15 short true bits 2305843009213693967 states 15 sumSquaresStatesOnly 341709.0 sumSquares -4.6116860184273213E18 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 301; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1154 703; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #119379172897300322 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #119379172897300322; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 853 636; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #119379172897300322 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 952.1418271642968.5224240528809136078; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 853 636; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.reroot; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle on; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; setCornerMode Right_Angle 50; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setTree '(10:45.0,(9:89.0,((15:17.0,(7:9.0,(8:8.0,14:5.0):7.0):14.0):36.0,((11:17.0,(1:0.0,2:0.0):34.0):30.0,(3:26.0,((4:18.0,13:29.0):17.0,(6:23.0,(5:22.0,12:11.0):6.0):11.0):23.0):29.0):39.0):65.0):45.0);'; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; showWindow; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleCentred on; toggleHorizontal on; toggleWhiteEdges on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocStrings.DrawTreeAssocStrings; tell It; setOn on; toggleCentred on; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #3165546025560017269 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 853 636; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.align.AlignToDropped.AlignToDropped; tell It; gapCosts 8 3 2 2; subCosts 10 5 10 10 10 5 5 10 10 10 5 10; endTell; getEmployee #mesquite.molec.ColorByAA.ColorByAA; tell It; emphasizeDegeneracy off; endTell; getEmployee #mesquite.chromaseq.ColorQuality.ColorQuality; tell It; toggleAmbiguities on; toggleMarks on; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; getEmployee #mesquite.chromaseq.SourceFileInfoEditor.SourceFileInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;