#NEXUS [MacClade 4.08 registered to Stephen R. Downie, University of Illinois at Urbana-Champaign] BEGIN TAXA; DIMENSIONS NTAX=13; TAXLABELS Aethusa_cynapium Dichoropetalum_carvifolia Dichoropetalum_pschawicum Dichoropetalum_schottii Dichoropetalum_aromaticum Dichoropetalum_golestanicum Dichoropetalum_paucijugum Dichoropetalum_scoparium Dichoropetalum_seseloides Dichoropetalum_achaicum Peucedanum_nebrodense Ormosolenia_alpina Ormosolenia_pisidica; END; BEGIN CHARACTERS; DIMENSIONS NCHAR=755; FORMAT INTERLEAVE SYMBOLS= " 0 1 2 3 A C G T" MISSING=? GAP=- ; MATRIX Aethusa_cynapium 01223 12211 10013 01110 Dichoropetalum_carvifolia 10103 10211 10011 11121 Dichoropetalum_pschawicum 10103 10211 10011 11121 Dichoropetalum_schottii 10103 10211 10011 11121 Dichoropetalum_aromaticum 00110 31110 10113 00002 Dichoropetalum_golestanicum 00100 21200 10121 10101 Dichoropetalum_paucijugum 00020 11111 10103 00002 Dichoropetalum_scoparium 10200 20200 10121 11101 Dichoropetalum_seseloides 00100 10111 10121 11112 Dichoropetalum_achaicum 10003 12211 10121 11121 Peucedanum_nebrodense 11012 02200 20012 11111 Ormosolenia_alpina 11011 02000 11010 11121 Ormosolenia_pisidica 11011 02100 01111 11121 Aethusa_cynapium TCGAATCCT--GCAA-TAG---CAGAATGA-CCCGCTAACACGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAAATCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------CAAC---GGC-GTCG-TTCCAAAA--CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCGTCTT-GCCCC-ACAAAACCACTC-AC--TCCT-GAGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAGGC-GAG--TCTCC---GGCG-ATGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AAGG-CCCTCTT-GTCTTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CAGGACCCTTA-GGCGGC-ACACACT--CTGTG----CGC-TTCGA [605] Dichoropetalum_carvifolia TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACCATTT-GGG-CAA--GCGT-CGGG-GG------CCCT-TGGT----CCCC-TGTCC-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTTGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GCAC-GTCTGTATC-CCGTT-AGCGGG---------------AAAC---GAC-GTCG-TTCCAAAA--CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCATCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTT-GTATTGTCGCGGGGAT--CCTCGTC-ATCT-TAGCGA-GCTC--CAGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTCGA [608] Dichoropetalum_pschawicum TCGAATCCT--GCAAACAG---CAGAATGA-CCCGCTAACTCGT--AAACCATTT-GGG-CAA--GCGT-CGGG-GG------CCCT-TGGT----CCCC-TGTCC-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GCAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCATCTT-GCCC--ACAAA-CCACTC-AC--TCAT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTCTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTT-GTATTGTCGCGGGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CAGGATCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTCGA [608] Dichoropetalum_schottii TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT-AAAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTG-GTATTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CGGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTCGA [609] Dichoropetalum_aromaticum TCGAATCCT--GCAAATAGG--CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TG-CT-GCGAATCC--CTGG---TAGG-TGG--TCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGAATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCACGCATCGTCTT-GCCCC-GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTT-TTATTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CGGGACCCTTA-GGCGGC-ATAGAGT-ACTCTGTGCGCGC-TTCGA [607] Dichoropetalum_golestanicum TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------CCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGCATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCACGCATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AAGG-CCCTCTT-GTCTTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CAGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGAGC-TTCGA [606] Dichoropetalum_paucijugum TCGAATCCT--GCAAATAGG--CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCTAATCC--CTGG---TAGG-TGG--TCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-ATCGGG---------------AAAC---GAC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCAGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCACGCATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-AGGAAATTGGCCTCCCG--TGCCTTGTT-GTG---CGGTTGGCGGAAAAGC-GAG--TCTTC---GGCG-ATGGACGCCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTT-GTATTGTCGTGCGAAT--CCTCGTC-GTCT-TAACGA-GCTC--CGGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTTGA [607] Dichoropetalum_scoparium TCGAATCCT--GCAA-TAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCAAGTCC--CTGG---TAGG-TGG--TCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAAA-CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCTTCTT-GTATTGTCGCGCGAAT--CCTCGTC-ATCT-TAACGA-GCTC--CGGGACCCTTA-GGCGGG--CGCAAA-ATACTCTGTGCGC-CTC-A [607] Dichoropetalum_seseloides TCGAATCCT--GCAAATAGG--CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--TCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCACGCATCGTCTT-GCCA--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTAC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTT-GTATTGTCGCGCGAAT--CCTCGTC-ATCC-TAGCGA-GCTC--CGGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTCGA [607] Dichoropetalum_achaicum TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------GCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAAATCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT-AAAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CAC??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????ATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCCT-GTAGTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CGGGACCCTAA-GGCGGC-ACAGAGT-ACTCTGTGCGAGC-TTCGA [610] Peucedanum_nebrodense TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-TGGG-GG------GCCT-CGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT-AAAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCACGCATCGTCTT-GCCC--GCAAA-CCACTC-GC--TCCT-GCGAA-GTTGT-GCC---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGTGGAAAAGC-GAG--TCTCC---GGCG-ACGGACGTCGCG-ACATCGG-TGG--TTGT---AA--AATG-CCCTCTG-GTATTGTCGCGCGAAT--CCTCGTC-ATCT-TAGCGA-GCTC--CGGGACCCTTA-GGCGGC-ACAGAGT-ACTCTGTGCGCGC-TTCGA Ormosolenia_alpina TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------CCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACCGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCGCGCATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCT---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTCC---GGCG-ACGGGCGTCGCG-ACATCGG-TGG--TTGT---AA--AAGG-CCCTCTT-GTCTTGTCGCGCGAAT--CCCCGTC-GTCT-TAGCGA-GCTC--CAGGACCCTTA-GGCGGC-ACAG----ACTCTGTGCGCGC-TTTGA Ormosolenia_pisidica TCGAATCCT--GCAAATAG---CAGAATGA-CCCGCTAACTCGT--AAACAATTT-GGG-CAA--GCGT-CGGG-GG------CCCT-TGGT----CCCC-TGTCT-GCGAATCC--CTGG---TAGG-TGG--CCAC-------TCCCGGGTGG-CCACTGGC-CTGCA-AAA-TCATTCGGG-CGCGGAATGCGCCAAGGA-CCTT--AAAACTGAATT-GTAC-GTCCGTATC-CCGTT-AGCGGG---------------AAAC---GGC-GTCG-TTCCAAAA--CACAA--CGACTCTCGACAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAAGCCAC-TAGGCCG-AGGGCACGTCTGCCTGGGTGTCGCGCATCGTCTT-GCCC--GCAAA-CCACTC-AC--TCCT-GCGAA-GTTGT-GCT---GGTTTGGGGG-CGGAAACTGGCCTCCCG--TGCCTTGTC-GTG---CGGTTGGCGGAAAAGC-GAG--TCTTC---GGCG-ACGGGCGTCGCG-ACATCGG-TGG--TTGT---AA--AAGG-CCCTCTT-GTCTTGTCGCGCGAAT--CCCCGTC-GTCT-TAGCGA-GCTC--CAGGACCCTTA-GGCGGC-ACAG----ACTCTGTGCGCGC-TTCGA ; END; BEGIN SETS; CHARSET Morph = 1-20; CHARSET ITS = 21-755; END; Begin trees; [Treefile saved Friday, September 17, 2010 2:35 PM] [! >Data file = nebrodense TreeBase >Heuristic search settings: > Optimality criterion = parsimony > Character-status summary: > Of 755 total characters: > All characters are of type 'unord' > All characters have equal weight > 667 characters are constant > 45 variable characters are parsimony-uninformative > Number of parsimony-informative characters = 43 > Gaps are treated as "missing" > Starting tree(s) obtained via stepwise addition > Addition sequence: simple (reference taxon = Aethusa cynapium) > Number of trees held at each step during stepwise addition = 1 > Branch-swapping algorithm: tree-bisection-reconnection (TBR) > Steepest descent option not in effect > Initial 'MaxTrees' setting = 200 (will be auto-increased by 100) > 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 = 1917 > Score of best tree(s) found = 145 > Number of trees retained = 1 > Time used = 0.05 sec ] Translate 1 Aethusa_cynapium, 2 Dichoropetalum_carvifolia, 3 Dichoropetalum_pschawicum, 4 Dichoropetalum_schottii, 5 Dichoropetalum_aromaticum, 6 Dichoropetalum_golestanicum, 7 Dichoropetalum_paucijugum, 8 Dichoropetalum_scoparium, 9 Dichoropetalum_seseloides, 10 Dichoropetalum_achaicum, 11 Peucedanum_nebrodense, 12 Ormosolenia_alpina, 13 Ormosolenia_pisidica ; tree PAUP_1 = [&U] (1,(((2,3),(4,((((5,7),9),(6,8)),10))),(11,(12,13)))); End;