#NEXUS [MacClade 4.08 registered to William Piel, TreeBASE] BEGIN TAXA; DIMENSIONS NTAX=10; TAXLABELS Pindara_terrestris Helvella_silvicola Helvella_aestivalis Helvella_corium Helvella_dovrensis Helvella_chinensis Helvella_rivularis Helvella_solitaria Helvella_macropus Helvella_cupuliformis; END; BEGIN CHARACTERS; DIMENSIONS NCHAR=992; FORMAT DATATYPE=DNA MISSING=? GAP=- ; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 690 700 710 720 730 740 750 760 770 780 790 800 810 820 830 840 850 860 870 880 890 900 910 920 930 940 950 960 970 980 990] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Pindara_terrestris GGATCATTA--------CAGAGTTCAT--------------------------------------------GCCCTTCGGGTAGACCTCCACCCTTGCATACCTTACCTTTGTCGCTTTGGCGGCCCGCTCACCTTGTGTGAGCCACTGGTCTTGGCCGGTGCGTG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACCGTC----GA-AGG------TTATCAAC----------------TCTATA-------------------ATTTATG-TC-GTCTG-AAG-TAACTATAAA----ATAG---TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGGATCTTTGAACGCACATTGCGCCCCCTGGCATT-CCGGGGGGCATGCCTGTTCGAGCGTCATTAACACCACTCAA----GCTCAGCTTGGTATTGGGTCACGCCAGAAATGGTGA--ACCTCAAACTCAGTGGCGGCACC-------GT-----------TGGGC-------------------CCCGAG-CGTAGTA----AATATCT--CGCT-----GAGG--GTTCC--TCCGGTT--------------------------------------------------------------GGCGACCA-ACAACCCAATTTTCTAAGGTTGA-----------------------------------------------------CCT-CGGAA-CAGGTAGGAATACCCGCTGAACTT-AAGCATATC-AAT-AAGCGGAGGA [533] Helvella_silvicola GGATCATTAC--CAATCAGTATCACAAAGTGTAACTTGAAGG----------------GCCGTGGAAGGTAGC---CGCCTACTTTGCCAGGCCCCCGGAGTTGGGGGTGGG--------------TTGCGC--AG-GCTCAA-GCGGGTGTTCCTGCCTCCTCAGCA--CCACGTTCTGTCCCCCGTCACCCC-TCCC-------------TTAGGTCGCGAGGCCAC----------TTCCT-A-----AAACACAAGGACTCTGAGTACAT---ACCCCTGTTGCTTCCCC--GGGAAA--TCCC-AGGGAGGT-CTGAGC-CGATT------ACACCGCGCG---------CCAAACTACC-----------GGC-GCC-ATCTCCGTCTGA---AGGCC--AGCGCG--CCAATGAAAGAAGGAAC-GAGC--GAGGAAAT-AAAAAAACTTTCAACAACGGATCTCTTGTTTCCTGCATCGATGAAGAACTCAGTGAAATGCCATAAGTAATCTGAATTACAGAATTCAGTGAATCATCAAATCTTTGAAGGCACTTTGCGCCCGCTGGCATT-CCGGGGGGCATGCCTGTTTGAGCGTCTCCTGGACGACT-ACTCA--CACCA--GCAGATGCGTGGTCATGGTGGCAGAGGCG--GGCC-CAGAGAGGCAGCC-GCCAT---GCTAGAA----CACATGG-CAGACG--CCTGCCGCATG-ACCGAGTGTGAT--------ATCACACATCATGTCGCCGG---------------------AGTA-----------------------------------------------------GAGTGCGGCAAG-CTGCCAGCCCTGGCCCCTGTGTTGGGCAGGAAGAGC---------------------GAGACATTGGAAC-TCCT-CGAAT-CAGGTAGGGATACCCGCTGAACTT-AAGCATATC-AAT-AAGCGGAGGA [741] Helvella_aestivalis GGATCATTATGGAGTCCCGACCCACCCAG-GAATAATGAAG-----TAAGACCCACCCAGTGCGAGGGGGGCGACATGAGCACATTAGCCGGCCGCCCTCGCGTGGGGGG--CAATCCTGCAAAA-CCCTCACTGCGT-------ACCA------------------ANNNNCCC--GTTG-----------------------------CTTCCCCGGGGCGG-CAGTACA-------------------CCTGCCTGGGTNCCGGGCGCCACGGCGNNNCCCGGGAGTCACCC--GGGAAGG-TCCCCC------------------------CCCC-AAA------------ACAACCA-----TCCCT-------AGCC----TCCGTCTGAC--AGGCCTC-------------GTGCTCTGACACAAC-CAAGC-------AAAAAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCCTGGTATT-CCGGGGGGCATGCCTGTTTGAGCGTCTCGTGCGCAA---ACTCT--CACA----CGTTGTTGTGGTGATGGCCGAGGTGG-GATGGCCGCCAATCNN----C-ACCCT---GCCGGAAAG--CAAAGG--CGGACGCACCTGTGGCCGGTACGTAGTATGGACTCAG--AATTCCGTGCGGCCCGC-AGC-----------------------------------------TTGAG--CATCCAGCACGGCAAGCCGGAANNCCAAACNNNNCCCGCA-------------------------------------------------------------------------TTCCT-CAAAT-CAGGTAGGGATACC??????????????????????????????????? [684] Helvella_corium GGATCATTA---CCATCAAATTCACAAAGTGTAACTTGAAAGGCTGTGG------------------GGTAGCTGCCC-ACTGTGGACAGCTCCCAGGTCTGGGGATGGGATGTGGTGGGTTGGTTGCGCAAAGCTTGG-GC-AGTGTCTTCCTGCCTCTCTGTGGGGCGTTCCACTGCCCCCCCACCCCCCCCCCCTCCATCCCCCTCTTCCTCCGTTAAGTCGGCACAATG-------TTTTCCA----AAACACATAGACTCTGCGTACAT---ACCCCTGTTGCTTCCCT---GGGGA-CATCCCTGGGGGAGGTAACTGAGC--------ACAACACACTG--------CCCAACCAAC-----------AGGT-GCC-TCCTCTGTCTGT---AGGCC--AGTGTG--CCAA-GAAACAAGGAAC-AAGCAAG--GAAATAAAAAAAACTTTCAACAACGGATCTCTTGGTTCCCACATTGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCATATTGCGCCCCCTGGCATT-CTGGGGGGCATGCCTGTTTGAGCGTCTCCTGGACAACT-ACTCA--CGTGAGTGGAT--GCGTGGTCATGGTGGTGGAGGCGAGCCCC-TAGAGGG-TGGCC-ACCAC---GCTGGAA----TCCATGGGTGGACG--CCTGCCGCAT--GCCGAGCGTGAT--------ATTACACATCATGTCGCTGT------------GGTTG----AGCATGGTGAGGCTGCCAGCCCT---------------------------------------------------------GGTCCCTGTGTTGGGTGGGGAGAGC---------------------AAGACATTAGAAC-TCCT-CAAAT-CAGGTAGGGATACC-??????????????????????????????????? [784] Helvella_dovrensis GGATCATTA-------CAAATCCAC---------------------------------GCCGTGGC---TAGC------------------CCCTCGGCGGATGGGGGGCGTGCCGGCCCATTGGCCAATCGCGCGCCCGACCCCC-CCAAACTC-----TCTGCGT-----ACACATCCCCGTTGCTTCCCC--GGGCAGGCGT-CACGCT--CCCGGGGGAGGACACACCGACAGCACACGATGCCGGCAAACA---GG--CCC--GTCCA----ACCC------------------------TCCCC------------------------------------------ACTCAAT-CCACC--TGTCC-GAAGCCAGC--ACGGCCGTGGGA---AGGAGG-AGCGAG--CTAGGGACGGAGAGAATGAAAGAAGAAGAACGTAAAGAAACTTTCAACAACGGATCTCTTGGTTCCCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCCTGGCATT-CCGGGGGGCATGCCTGTTCGAGCGTCTCTGGAAAGTAG-ACTCACGCGACG--AAACGCGTGGTGGTGACGGCGGCGGCGG-TCCCTGTTGCAGGGGAGGCC-ACCCCG--GC-GGAA----ACCATGGGCGGACG--ACTGCCGCGT-CGCAGAGCGTGAT--------AATTCGCTATCGCCTCGAGC--GCGGA---CCGGTTG----------CCAGCCCTCGCAAGGCGCCCGCCAAGCTGCAGAGTGTGACGGTCT-CGCCCTCGCCT-CGAGCNCGGCAAGGCTGCCGACCCTGGCCCACCGCCAG-CTCCGG---CCGGGTGCCAGGAG-AAGACATTGGAACT-CCT-CGAAT-CAGGTAGGGATACC??????????????????????????????????? [777] Helvella_chinensis -------------------------------------------------------------------------------------------------------------------CCCCCGGGTCCGGGGGT-CTACACTCTAGCGTCGGG------AGCTC-GC--GCGNNCGGTNANCTCGCNTNCGACG--ACTCCCGCCCCCCTACTGCCAAACGGC----------GA-------TTTCCAAA---CCCAACCC----TCTGCGTACAC---ATCCCTGTTNCTTCCC-GGGGACNNNNCCCCGAGGCTCC-------GAGC---A-ACG----NG------------CCCAACCAACC--------AGAGGCC--CC--CCTCCGTCTGA---AGGCC--AGCGTGATCCACGGAAGAA-GTAAC-GAGCGAGC--AAATAAGAAAAACTTTCAACAACGGATCTCTTGGTTCCCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCCTGGCATT-CCGGGGGGCATGCCTGTTCGAGCGTCTCCTGGACGA---ATCCT-GCGCCA-GTGAAGGGCGCGGTCGTGGCGGCGGTGGCGTG-CCCGATAGCGGCGGCC--ACCGNNN-GCTGGAA----TCCATGG-CGGACG--CCTGCCGCGT-GGCCGAGCGTGATATG------TTTCACTGGACGCTGCTGCGCGGC-------------------GAAGGCTGCCAGCCCAGNC--------------CGTTTGTCGGGCGGGGCAGAGCGAGACATTTGGAACTCCTCGA?????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? [732] Helvella_rivularis ????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????TTTTT------AACAGGAGAGAACATNTGCACG------CCTCGCAATCCATTT---GAAAACCACACTG-CACTTCAGAGGGGGA--GCCTCTCTTGG--CCTCTCCTTCTTTC-ATCACTACAAACAC---------------------TTTGAA---------AGTTTT--TGTATTTGTTGGTTAACTAT-------AATGTAAATACAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATT-CCGAGGAGCATGCCTGTTTGAGTGTC--GTGTAATTCTCAATCT-CAACTTTTTTTGTTGTGGATTGGATTTGGGAGCTTGTCGTGTCTCTTTGCTATAAG------------TGAAAGA----------------GGGTTAGACTCTCCTTG----------------AATGCATTAGCTCGGTCACGTAGGTTTGCCCGACGGTTCACGTGTG????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? [884] Helvella_solitaria -------------------------------------------------------------------------------------------GCT-CCCTCGCCGGCNGGG---AAGC---CACTTGCCCTCCCGGCGT-TAACCGAAACCACCCTC-ACCCTGCGTACC-TTCCCACGTT------------------------------CTTCCCCGGGGC----ACGT------GCCTGCCCCNGCNGCCCTCCCCCTCCCCCCCGGAGAGGGCGGTCNCGG-GAGACTCCC--GGGAAGG-TCCCGAGCG---------------------------------------------AAACAC---GGCGG---------------------------AGACCCCAGTATGACGGCAGGTGCCGACCAACAAAGCAAGC-GAAATGAAAGAAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCCTGGCATT-CCGGGGGGCATGCCTGTTCGNACGTCTCATCGACGC---ACTCA----CA-GTG----GCTGTGGTCATGGCGGCGGTGGCGGG--CCGCAAGGTGCTGCC--ACCCC---GCTGGAA----TTCATAG-CGGACG--CCTGCAGCGT-GGCCGAGCGTGATAGGACACAAATTCG-----CCCGC-------------TC-------------GCCAGGACGCCAGTCCGGC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? [712] Helvella_macropus ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCGCTGGCTTCGGCATGT--GA---GCGCCGT-------CAGAG---------------CCATCAATTCTGCCTATCC---------------------------------------------------AGTATTA-TCAG-AAACAA-AAAACATA-------ATAGTAAA--CAACTTTCAACAACGGATCTCTTGGTTCCAGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCTCGGTATT-CCGGGGGGCATGCCTGTTCGAGCGTCATTA-CACCCCTCAA----GCGTA----GCTTGG--TATTGGGTT----------CTGCCCCCC--GCGGCGTGCC------------GAAAAG---CAGTGG-CGGTCCGGTGTGACTTTA-AGCGCAG-----TA-------AATCTTCCCCGCTTT--------------------------------------------------GAAAGTTCGCC-CC-GT--GGCTTG-CCAGACAACCCCATTTATTTCAATGATTGACCT?????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? [518] Helvella_cupuliformis ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A-AGG------ACATAACA--------------------------TTTGAACACTGTCTGAGTTGCAGTCTGAGTTTTTATTAAC------------AATAATTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAATTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATT-CCGGGGGGCATGCCTGTCCGAGCGTCATTAGCTGCCCTCAA----GCACGGCTTGTGTGTTGGGCTTCC------------GTCCCTGGTAACGGGGAGGCCC------------AAAAG--GCAGTGG-CGGCA---CCATGTCTGGTCCTCGAGCGT-AT----------------------------------------GGGGCTTTGTCACCCGCTCCCGTAGGTCCAG-CT--GGCAGCTAGCCTCG-CAACCAAT-CTTTTTAACCAGGTTGACCTCG???????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? [520] ; END; BEGIN CODONS; CODONPOSSET * CodonPositions = N: 1-992; CODESET * UNTITLED = Universal: all ; END; BEGIN ASSUMPTIONS; OPTIONS DEFTYPE=unord PolyTcount=MINSTEPS ; END; BEGIN TREES; TRANSLATE 1 Pindara_terrestris, 2 Helvella_silvicola, 3 Helvella_aestivalis, 4 Helvella_corium, 5 Helvella_dovrensis, 6 Helvella_chinensis, 7 Helvella_rivularis, 8 Helvella_solitaria, 9 Helvella_macropus, 10 Helvella_cupuliformis ; TREE * ITS_tree = [&R] (((((1,10),7),9),(3,8)),((2,(4,6)),5)); END; BEGIN MacClade; Version 4.0 87; LastModified -943085232; FileSettings editor '0' '0' '1' '1'; Singles 000; Editor 00011001111111100100010010 '1' '12' Geneva '9' '142' '1' all; EditorPosition '156' '67' '339' '981'; TreeWindowPosition '103' '213' '571' '831'; ListWindow Characters closed Geneva '9' '50' '10' '273' '399' 000; ListWindow Taxa closed Geneva '9' '50' '10' '225' '353' 100000000; ListWindow Trees closed Geneva '9' '364' '67' '129' '379' ; ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow ExSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow CharSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow TaxSets closed Geneva '9' '50' '10' '276' '490' ; ListWindow CharPartitions closed Geneva '9' '50' '10' '276' '490' ; ListWindow CharPartNames closed Geneva '9' '50' '10' '276' '490' ; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490' ; ChartWindowPosition '52' '30' '718' '1220'; StateNamesSymbols closed Geneva '9' '10' '50' '30' '148' '220'; WindowOrder Data; OtherSymbols &/ 00 ?-; Correlation '0' '0' '1000' '0' '0' 10011010; Salmo 00000001; EditorFile '2'; ExportHTML _ MOSS '100' 110000; PrettyPrint 10; EditorToolsPosition '252' '291' '115' '165'; TreeToolsPosition '616' '9' '126' '138'; TreeWindowProgram 10; TreeWindow 0000; Continuous '0' '3' 1; Calculations 0000001; SummaryMode '0' '0' 0; Charts Geneva '9' (normal) 0010; NexusOptions '0' '0' '200' 001011010; TipLabel '1'; TreeFont Geneva '9' (normal); TreeShape 1.0 1.0 0100; TraceLabels 0101; ChartColors '0' '0' '65535' '9' '0' 1; ChartBiggestSpot 1; ChartPercent 10; ChartBarWidth '10' 1; ChartVerticalAxis 10101; ChartMinMax '0'; TraceAllChangesDisplay '1' 1; BarsOnBranchesDisplay '0' '0' '60000' '10000' '10000' '10000' '10000' '60000' '65000' '65000' '65000' '6' '1' 0000101; ContinuousBranchLabels 0; AllStatesBranchLabels 1; IndexNotation '2' 1; PrintTree 10.00 '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' Geneva '9' (normal) Geneva '10' (normal) Geneva '9' (normal) Geneva '9' (normal) Geneva '9' (bold ) Geneva '9' (normal) Geneva '9' (normal) '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '1' '1' '1' '1' '0' '5' '-39' '4' '-40' '0' '1' '2' '1' '8' '0' '0' '0' '2' 1000111000000000000100000111000; MatchChar 00 .; EntryInterpretation 01; ColorOptions 00; TreeTools '0' '5' '4' '0' '10' '4' '0' 00100111111101110; EditorTools '0' '0' '0' '1000' '0' '0' '6' '3' '1' 100010101110011; PairAlign '2' '2' '3' '2' '1' '1' '2' '1' '3' 1010; BothTools '1'; END;