#NEXUS [MacClade 4.08 registered to Evolutionary Phytopathology, CBS-KNAW] BEGIN DATA; DIMENSIONS NTAX=11 NCHAR=545; FORMAT DATATYPE=DNA 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Pseudovirgaria_hyperparasitica_EU041765 ---------------------------------AAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTGACAGCGTCTGCATGAGAGCATTAACCCTTTAAATTTGAGAATTGTCTGAGTAAAAAGAAACAG-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTCGTCCTACTCGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGCTAGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCGAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGAT------------------------ [479] Pseudovirgaria_hyperparasitica_EU041767 ---------------------------------AAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTGACAGCGTCTGCATGAGAGCATTAACCCTTTAAATTTGAGAATTGTCTGAGTAAAAAGAAACAG-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTCGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCGAGTGGAGCCTTCTATA------------------------------------------------ [454] Pseudovirgaria_grisea_CPC_19132 ------ACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTAATAGCGCCTGCATGAGAGCATTAACCCTTAAAATTTGAGAATTGTCTGAGTAAAAAGAAATAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTTGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCTAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAAGCATATCA- [528] Pseudovirgaria_grisea_CPC_19126 -------CAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTAATAGCGCCTGCATGAGAGCATTAACCCTTAAAATTTGAGAATTGTCTGAGTAAAAAGAAATAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTTGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCTAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAAGCAT----- [523] Pseudovirgaria_grisea_CPC_19128 ------ACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTAATAGCGCCTGCATGAGAGCATTAACCCTTAAAATTTGAGAATTGTCTGAGTAAAAAGAAATAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTTGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCTAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAAGCATATCAA [529] Pseudovirgaria_grisea_CPC_19130 ------ACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTAATAGCGCCTGCATGAGAGCATTAACCCTTAAAATTTGAGAATTGTCTGAGTAAAAAGAAATAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTTGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCTAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAAGCATATCA- [528] Pseudovirgaria_grisea_CPC_19134 ------ACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTAATAGCGCCTGCATGAGAGCATTAACCCTTAAAATTTGAGAATTGTCTGAGTAAAAAGAAATAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTTGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCTAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAAGCATATC-- [527] Cf._Ramularia_sp._EF600968 ----------------------------------------------------------GC--TTCGGTCTACCCCTCCCACCCCATGTTTACTGTAATC-GTTGCTCATGCAGATAGCCTAACAGCGTCTGCATGAGAGCATTAACCCTTTAAATTTGAGAATTATCTGAGTAAAAAGAAACAA-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTCGCTAGGGCACTGCTTAAATCGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCGAGTGGAGCCTTCTATAGTTGACCTCAGATTAGATAGGGATACCCGCTGAACTTAA--------- [469] Cf._Ramularia_sp._EF600967 ---------------------------------AAGGATCATTATCAGGTGG-CGTAGGC--TTCGGTCTACCCCTCCCACCCTATGTTTACTGTAATC-GTTGCTCATGCAGGTAGCCTGACAGCGTCTGCATGAGAGCATTAACCCTTTAAATTTGAGAATTGTCTGAGTAAAAAGAAACAG-AACAAAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTATGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGCTTGCCAGGGGGCATGTCTATCTGAGCGTCGTTACAACTCTCAAGTTTTACTTGGTATTGGTGGTTGTCCTACTCGCTAGGGCACTGCTTAAATTGAACCCGACGTGCC-TGTCTA-GGAACGCAGC-AGATTTTGCAATC-CTTTAGGCAC-AGATGGGCCACTTCGAGTGGAGCCTTCTATAGT---------------------------------------------- [456] Radulidium_subulatum_EU041789 GTCGTAACAAGGTCTCCGTAGGTGAACCTGCGGAGGGATCATTAACAGGTTCTGGTCGGCCGTCCGGTCGCACCGTCCCTCCCTCTGTCTACCGTACACTGTTGCTCGAGC-----GGGCGCAAGCCCGCGCGGGATAACCACAACCCTTCT---TAGCGAA-TGTCTGAGTACCAACAAATACAAACAAAACTTTTAACAACGGATCTCTTGGTTCCAACATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTACGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTCGGTTCTCCGGGGGGCATGTCTGTCCGAGCGTCGTTGCAACTCTCAAGTTT-ACTTGGTCATGGGGATCGTGCCGCCCGGCGGCGCGTCCCTCAAACGCAACTCGACGTGCCTTGTCAGCGGAGCGCAGT-AGAA--TGCTGCTTCGTGAGGTGCCACCCGGGCT-CTTCG--GAGACCACCG---TGTTGACCTCGGATCAGATA----------------------------- [497] Radulidium_epichloes_EU041785 -----AACAAGGTCTCCGTAGGTGAACCTGCGGAGGGATCATTAACAGGTTCTGGTCGGCGGCTCCGTCGCACCGTTCCTCCCTCTGTCTACCGTACACCGTTGCTCGGGC-----GGGCTCCGGCCCGCGCGGGATCATCACAACCCTCCC---TTGCGAA-TGTCTGAGTACCAACAAATACCAACAAAACTTTTAACAACGGATCTCTTGGTTCCAACATCGATGAAGAACGCAGCGAAATGCGATAGCTAGTGTGAATTGCAGATTTACGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTCGGTTCTCCGGGGGGCATGTCTGTCCGAGCGTCGTTGCAACCCTCAAGCTT-GCTTGGTCATGGGGATCGTGCCGCCTGGCGGCGCGTCCCTCAAACGCAACTCGACGTGCCTTGTCAGCGGAGCGCAGT-AGAA--TGCCGCCCCGTGAGGTGCCACC-GGGCT-CTTCG--GAGACCACCC---AGTTGACCTCGGATCAGATAGGGATACCCGCTGAACTTAAGCA------ [514] ; END; BEGIN CODONS; CODONPOSSET * CodonPositions = N: 1-545; CODESET * UNTITLED = Universal: all ; END; BEGIN SETS; CHARSET ITS = 59-497; TAXSET outgroups = 10-11; END; BEGIN ASSUMPTIONS; OPTIONS DEFTYPE=unord PolyTcount=MINSTEPS ; END; BEGIN TREES; [! >Data file = /Users/e.groenewald/alignment.nex >Heuristic search settings: > Optimality criterion = parsimony > Character-status summary: > 106 characters are excluded > Of the remaining 439 included characters: > All characters are of type 'unord' > All characters have equal weight > 301 characters are constant > 26 variable characters are parsimony-uninformative > Number of (included) parsimony-informative characters = 112 > Gaps are treated as "fifth base" > Starting tree(s) obtained via stepwise addition > Addition sequence: random > Number of replicates = 100 > Starting seed = 1150933665 > Number of trees held at each step during stepwise addition = 1 > Branch-swapping algorithm: tree-bisection-reconnection (TBR) > Steepest descent option not in effect > 'MaxTrees' setting = 1000 (will not be increased) > Branches collapsed (creating polytomies) if maximum branch length is zero > 'MulTrees' option in effect > Topological constraints not enforced > Trees are unrooted > >Heuristic search completed > Total number of rearrangements tried = 856 > Score of best tree(s) found = 155 > Number of trees retained = 2 > Time used = <1 sec (CPU time = 0.00 sec) ] TRANSLATE 1 Pseudovirgaria_hyperparasitica_EU041765, 2 Pseudovirgaria_hyperparasitica_EU041767, 3 Pseudovirgaria_grisea_CPC_19132, 4 Pseudovirgaria_grisea_CPC_19126, 5 Pseudovirgaria_grisea_CPC_19128, 6 Pseudovirgaria_grisea_CPC_19130, 7 Pseudovirgaria_grisea_CPC_19134, 8 Cf._Ramularia_sp._EF600968, 9 Cf._Ramularia_sp._EF600967, 10 Radulidium_subulatum_EU041789, 11 Radulidium_epichloes_EU041785 ; TREE Fig._1 = [&R] (((((1,2,9),8),(3,4,5,6,7)),11),10); END; BEGIN MacClade; Version 4.0 87; LastModified -900170866; FileSettings editor '0' '0' '1' '1'; Singles 100; Editor 00011001111111100100010010 '0' '24' Geneva '9' '346' '1' all; EditorPosition '503' '848' '563' '849'; TreeWindowPosition '46' '6' '1131' '1870'; ListWindow Characters closed Geneva '9' '50' '10' '273' '399' 000; ListWindow Taxa closed Geneva '9' '50' '10' '276' '490' 100000000; ListWindow Trees closed Geneva '9' '50' '10' '276' '490' ; ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow WtSets closed Geneva '9' 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