#NEXUS [written Tue Mar 24 20:36:49 BRT 2015 by Mesquite version 3.02 (build 681) at DUDU/192.168.0.103] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=32; TAXLABELS 'Asterina_melastomatis_VIC_42822' 'Lembosia_abaxialis_VIC_42825' 'Prillieuxina_baccharidincola_VIC_42817' 'Asterina_chrysophylli_VIC_42823' 'Batistinula_gallesiae_VIC_42514' 'Parmularia_styracis_VIC_42447' 'Parmularia_styracis_VIC_42450' 'Parmularia_styracis_VIC_42587' 'Asterotexis_cucurbitacearum_VIC_24814' Asterotexis_cucurbitacearum_PMA_M_0141224 Asterina_cestricola_TH_591 Asterina_phenacis_TH_589 'Asterina siphocampyli_PpMP_1324' Asterina_weinmanniae_TH_592 Asterina_zanthoxyli_TH_561 'Inocyclus_angularis_VIC_39747' 'Inocyclus_angularis_VIC_39748' 'Inocyclus_angularis_VIC_39749' Asterina_fuchsiae_TH_590 Apiosporina_collinsii_CBS_118973 Apiosporina_morbosa_Dimosp Gibbera_conferta_CBS_191_53 Venturia_inaequalis_CBS_176_42 Venturia_populina_CBS_256_38_ Phaeotrichum_benjaminii_CBS_541_72 Trichodelitschia_bisporula_CBS_262_69v2 Asterina_sp_MFLU13_0619 Asterina_sp_MFU13_0485 Lembosia_albersii_MFLU13_0377 Saccharomyces_cerevisiae_DAOM_216365 Aulographum_hederae_MFLUCC_13_0001 Aulographum_hederae_CPC_21373 ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=539; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX 'Asterina_melastomatis_VIC_42822' tgccctagtaacggcgagtgaagcggcagcagctcaaatttgaaatccggcgcccccggcgcccgagttgtaatttgtaga-gggt-ggctcgggc-ccgt-ccccgtccaagtcccctggaacggggcgtcgtggagggtgagaatcccgtacgcggcggggcg--acgtgcccgtgtgagcccccttcgacgagtcgagttgtttgggaatgcagctctaaatgggaggtaaattccttctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagtcaaaaagcacgtgaaattgttgaaagggaagcgctcacgatcagactcgggcgcgggtgctcaacccaacc----------gg--gtgca-tcg--cccgcgcccgggccagcatcggctcgggcggccggatgaaggccccgggaacgtggctcctctc-ggggagtgttatagcccggggcgcaacgcggcccgcccggaccgaggaccgcgtt-cg 'Lembosia_abaxialis_VIC_42825' tgccctagtaacggcgagtgaagcggcagcagctcaaatttgaaatccggcgcccccggcgcccgagttgtaatttgtaga-gggt-ggctcgggc-ccgt-ccccgtccaagtcccctggaacggggcgtcgtggagggtgagaatcccgtacgcggcggggcg--acgtgcccgtgtgagcccccttcgacgagtcgagttgtttgggaatgcagctctaaatgggaggtaaattccttctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagtcaaaaagcacgtgaaattgttgaaagggaagcgctcacgatcagactcgggcgcgggtgctcagccccacc----------gg--gtgca-tcg--cccgcgcccgggccagcatcggttcgggcggccggatgaaggccccgggaacgtggctcctctc-ggggagtgttatagcccggggcgcaacgcggcccgcccggaccgaggaccgcgtt-cg 'Prillieuxina_baccharidincola_VIC_42817' tgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatccggcgccctcggcgcccgagttgtaatttgtaga-gggt-ggcccgggt-ccgt-ccccgtctaagtcccctggaacggggcgtcgtagagggtgagaatcccgtatgcgacggggcg--acgtacccgtgtgggcccccttcgacgagtcgagttgtttgggaatgcagctctaaatgggaggtaaattccttctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaaaagcacgtgaaattgttgaaagggaagcgctcacgaccagactcgggtgcgggtgctcaaccactcc-----------g--gtgca-tcg--cctgtgcccgggccagcatcggttcgggcggtcggataaaggctccgggaacgtagctcccctc-ggggagtgttatagcccggggcgcaatgcggcccgcccggaccgaggaccgcgtt-cg 'Asterina_chrysophylli_VIC_42823' ????????????g?cgagtgaagcggcaacagctcaaatttgaaatccggcgcccccggcgtccgagttgtgatttgcaga-gggt-ggctcgggc-ccgtcccccgtccaagtcccctggaacggggcgtcgcggagggtgagaaccccgtatgcgacggggag--acgtgcccgtacgagccccctccgacgagtcgagttgtttgggaatgcagctccaagtgggaggtaaattccttctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaaaagcacgtgaaattgttgaaagggaagcgctcacgaccagactcgggtgcgggtgctcaacctctcc-----------g--gtgca-tcg--cccgcgcccgggccagcatcgattcgggcggtcggataaaggccccgggaacgtggctcccctc-ggggagtgttatagcccggggcgtaatgcgacccgccccggatcgaggaccgcgttcg 'Batistinula_gallesiae_VIC_42514' tgccccagtaacggcgagtgaagcggcagcagctcaaatttggaatctggcgcccccggcgcccgagttgtaatttgcaga-gggc-ggcccgggt-ctgcaccccgtccaagtcccctggaacggggcgtcgtagagggtgagaatcccgtacgcggcggggcg--gcgggcccgcgtgggcccccttcgacgagtcgagttgtttgggaatgcagctctaattgggaggtaaattccttctaaagctaagtaccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagtcaaacagcacgtgaaattgttgaaagggaagcgctcacgatcagactcgggcgcgaccgctcagccggtccatc--a-gaccg--gtgca-tcg--gccgcgcccgggccagcaccggctcgggcggtcggataaaggctccgggaacgtagctccccac-ggggagtgttacagcccggggcgcaatgcgacccgcccgggccgaggaccgcgct-cg 'Parmularia_styracis_VIC_42447' tgccttagtaacggcgagtgaagcggcaacagctcaaatttgaaatcgggcgc-----aagtctgaattgtagtttgtaggtggat-ggttcgagt-gcgttcccgtcgaaagtcccctggaacagggcgtcgcagagggtgagaatcccgttcgcgacggggcg--atgtgctcgtgtgagcctccattgacgagtcgagttgtttgggaatgcagctctaaaggggaggtaaattccttctaaagctaaatactggccagagaccgatagcgaacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaacagcacgtgaaattgttgaaagggaagcgctcacgaccagactcgggtatggttgctcaggccatct-at--t-ggtgg--ttgta-tcg--gccgtacccgggccagcatcggttctggcggcgggagaaaagcggcgggaacgtggctccctt---gggagtgttatagcccgccgtgcaatgccgccagtcgggaccgaggaccgcgtt-cg 'Parmularia_styracis_VIC_42450' tgccttagtaacggcgagtgaagcggcaacagctcaaatttgaaatcgggcgc-----aagtctgaattgtagtttgtaggtggat-ggttcgagt-gcgttcccgtcgaaagtcccctggaacagggcgtcgcagagggtgagaatcccgttcgcgacggggcg--atgtgctcgtgtgagcctccattgacgagtcgagttgtttgggaatgcagctctaaaggggaggtaaattccttctaaagctaaatactggccagagaccgatagcgaacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaacagcacgtgaaattgttgaaagggaagcgctcacgaccagactcgggtatggttgctcaggccatct-at--t-ggtgg--ttgta-tcg--gccgtacccgggccagcatcggttctggcggcgggagaaaagcggcgggaacgtggctccctt---gggagtgttatagcccgccgtgcaatgccgccagtcgggaccgaggaccgcgtt-cg 'Parmularia_styracis_VIC_42587' tgccttagtaacggcgagtgaagcggcaacagctcaaatttgaaatcgggcgc-----aagtctgaattgtagtttgtaggtggat-ggttcgagt-gcgttcccgtcgaaagtcccctggaacagggcgtcgcagagggtgagaatcccgttcgcgacggggcg--atgtgctcgtgtgagcctccattgacgagtcgagttgtttgggaatgcagctctaaaggggaggtaaattccttctaaagctaaatactggccagagaccgatagcgaacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaacagcacgtgaaattgttgaaagggaagcgctcacgaccagactcgggtatggttgctcaggccatct-at--t-ggtgg--ttgta-tcg--gccgtacccgggccagcatcggttctggcggcgggagaaaagcggcgggaacgtggctccctt---gggagtgttatagcccgccgtgcaatgccgccagtcgggaccgaggaccgcgtt-cg 'Asterotexis_cucurbitacearum_VIC_24814' tgccctagtaacggcgagtgaagcggcagcagcccaaatttgaaatctggccccc---gg-cccgaattgtaatttggaga-ggat-gcttcggtc-gcgcacccggcccaagtcccttgggacagggtgccgcagagggtgagagtcccgtacgcggccgggtg--ccgcgcccatgcgaagctccctcgacgagtcgagttgtttgggaatgcagctcaaagcgggaggtatattccttccaaggctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaggatgaaaagcactttggaaagagagtgaaacagtatgtgaaattgttgaaggggaagcgtttgcggccagacctggcggcggtggctcagccggtcg-ct----gaccg--gtgcactcc--tctgccgccaggccagcatcagctcgggcggccggacaaaggcgatgggaacgtggcccctccc-ggggggtgttacagcccgtcgcacaatacggccagcctgggctgaggacagcgtt-cg Asterotexis_cucurbitacearum_PMA_M_0141224 tgccccagtaacggcgagtgaagcggcagcagcccaaatttgaaatctggcccc----ggacccgagttgtaatttgaaga-ggat-gcttc-ggtcgcgcacccggcccaagtcccttgggacagggtgccgcagagggtgagagtcccgtacgcggccgggtg--ccgcgcccatgcgaagctccctcgacgagtcgagttgtttgggaatgcagctccaagcgggaggtatattccttccaaggctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaggatgaaaagcactttggaaagagagtgaaacagtacgtgaaattgttgaaggggaagcgtttgcggccagacccggcggcggtggctcagccggtca-gt----gcccg--gtgcactcc--tccgccgccaggccagcatcagctcgggcggccggacaaaggcgacgggaacgtggcccctctc-ggggggtgttacagcccgtcgcacaatacggccagcctgggctgaggacagcgtt-cg Asterina_cestricola_TH_591 tgcctcagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggccccc---gggcccgagttgtaatttgcaga-ggat-gcttc-ggggcgggccccgtcccgagtcccttggaacagggcgccgcagagggtgagggccccgtacacggccggacg--cccgccccgtgcgaagctccttcgacgagtcgagctgtttgggaatgcagctccaaacgggaggtatattcctcccaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaaggtgaaaagcactttggaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgtttgcggccagacctggtggcggttgctcagccggtccctc--ggggccg--gcgcactct--tccgccacctggccagcatcggtccgggcggccggacaaaggccgggggaacgtggcccccgc--gcggggtgttatagcccccggcacaatacggccagcccggaccgaggacagcgt?-?? Asterina_phenacis_TH_589 tgcctcagtaacggcgagtgaagcggcagcagctcaaatttgaaatctggcccccc---ggcccgagttgtaatttgcaga-ggat-gcttc-ggggcgggccccggcccgagtcccttggaacagggcgccgtagagggtgagggccccgtacacggccggacg--tccgccccgtgcgaagctccttcgacgagtcgagttgtttgggaatgcagctccaaacgggaggtatattcctcccaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgtttgcggccagacctggtggcggttgctcagccggtccttc--tgggccg--gcgcactct--tccgccacctggccagcatcggttcgggcggccggataaaggttgggggaacgtggccccctc--gcggggtgttatagcccccttcacaatgcggcccgcccggaccgaggacagcgtt-cg 'Asterina siphocampyli_PpMP_1324' tgcctcagtaacggcgagtgaagcggcagcagctcaaatttgaaatctggccccc----ggcccgagttgtaatttgcaga-ggat-gcttc-ggggcgggccccggcccgagtcccttggaacagggcgccgtagagggtgagggccccgtacacggccggacg--cccgccccgtgcgaagctccttcgacgagtcgagttgtttgggaatgcagctccaaacgggaggtatattcctcccaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagtcaaaaagtacgtgaaattgttgaaagggaagcgtttgcggccagacctggtggcggtggctcagccggcccctc--tgggccg--gcgcactcc--tccgccacccggccagcatcggttcgggcggccggataaaggccgggggaacgtggccccctc--gcggggtgttatagcccccggcacaatgcggcccgcccggaccgaggacagcggt-cg Asterina_weinmanniae_TH_592 ???????????cggcgagtgaagcggcaacagctcaaatttgaaatctggcccc----gggcccgagttgtaatttgcaga-ggaa-gcttc-ggggtggcccccggtccaagtcccttggaacagggcgtcgtagagggtgaggatcccgtacacggccggacg--tccgccccgtgcgaagctccttcgacgagtcgagttgtttgggaatgcagctccaaacgggaggtatattcctcccaaggctaaatattggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttgaaagggaagcgtctgcggccagacctggcgacggcggctcagccggcccctc--gggaccg--gcgcactcc--gccgtcgcctggccagcatcggttcgggcggctggacaaaggcccggggaacgtggccccttc--gggaggtgttatagccccgggcacaatgcagcccgcccggaccgaggacagcgtt-cg Asterina_zanthoxyli_TH_561 tgcctcagtaacggcgagtgaagcggcaacagctcagatttgaaatccggccccca---ggcccgagttgtaatctgcaga-ggat-gcttc-ggggcggcccccggtccaagccccttggaacagggcgtcgtagagggtgaggatcccgtccacggccgggcg-gaccgccccgtgcgaagctccttcgacgagtcgagttgtttgggaatgcagctccaaacgggaggcatattcctcccaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaaaagtacgtgaaattgtcgaaagggaagcgtctgcggccagacctggtggcggttgctcagccggcccttc--ggggccg--gcgcactct--cccgccacctggccagcatcggtccgggcggccggacaaaggccccgggaacgtggccccctc--gcggggtgttata?cccggggcacaatgcggcccgcccggaccgaggacagcgtc-cg 'Inocyclus_angularis_VIC_39747' tgcctcagtaacggcgagtgaagcggcagcagctcaaatttgaaatctggca-----cccgcccgagttgtaatttggaga-ggac-gccttgggggccggccccggtccaagtcccttggaacaggacgccgcggagggtgagagtcccgtatgcggccgggtg--ccgtccccgcgcaaggctccttcgacgagtcgagctgtttgggaatgcagctccaaacgggaggtatattccttctaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaagagtacgtgaaattgctgaaagggaagcgtttgcggccagacttgaccgcggttgctcagccggtccact----gcccg--gcgcactct--tccgcggtcaggccagcatcagttcgggcggccggaggaaggctccgggaacgtagcccccc-----ggggtgttatagcccgctgcacaacacggcccgcccggactgaggacagcgcc-tg 'Inocyclus_angularis_VIC_39748' tgcctcagtaacggcgagtgaagcggcagcagctcaaatttgaaatctggca-----cccgcccgagttgtaatttggaga-ggac-gccttgggggccggccccggtccaagtcccttggaacaggacgccgcggagggtgagagtcccgtatgcggccgggtg--ccgtccccgcgcaaggctccttcgacgagtcgagctgtttgggaatgcagctccaaacgggaggtatattccttctaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaagagtacgtgaaattgctgaaagggaagcgtttgcggccagacttgaccgcggttgctcagccggtccact----gcccg--gcgcactct--tccgcggtcaggccagcatcagttcgggcggccggaggaaggctccgggaacgtagcccccc-----ggggtgttatagcccgctgcacaacacggcccgcccggactgaggacagcgcc-tg 'Inocyclus_angularis_VIC_39749' tgcctcagtaacggcgagtgaagcggcagcagctcaaatttgaaatctggca-----cccgcccgagttgtaatttggaga-ggac-gccttgggggccggccccggtccaagtcccttggaacaggacgccgcggagggtgagagtcccgtatgcggccgggtg--ccgtccccgcgcaaggctccttcgacgagtcgagctgtttgggaatgcagctccaaacgggaggtatattccttctaaggctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttggaaagagagttaaagagtacgtgaaattgctgaaagggaagcgtttgcggccagacttgaccgcggttgctcagccggtccact----gcccg--gcgcactct--tccgcggtcaggccagcatcagttcgggcggccggaggaaggctccgggaacgtagcccccc-----ggggtgttatagcccgctgcacaacacggcccgcccggactgaggacagcgcc-tg Asterina_fuchsiae_TH_590 tgcctcagtaaccgcgagtgaagcggcaacagctcaaa-ttgaaatctggcccc----gggcccgagttgtaatttgcaga-ggat-gcttc-ggggcggcccccggtccaagtcccttg-aacagg-cgtc-tagagggagaggaccc-gtacacgaccgg-cg--tccgccccgtgcgaa-ctccttcgacgagtcgagttgtttgggaatgcagctccaaacgggaggtatattcctcccaa-gctaaataccggccggagaccgatagcgcacaagtagagtgatcgaaagatgaaaa-cactttggaaa-a-agtgaaaaagtacgtgaaattattgaaagggaagcgtctgcggccagacctggtggcggttgctcagccggtccttc--ggggccg--gcgcactct--tccgccacctggccagcatcggtttgggcggccggacaaagKcctcgggaacgtggccccctc--gcggggtgttatagcccttggcacaatgcg?????????????????????????-?? Apiosporina_collinsii_CBS_118973 ??????agt-acggcgagtgaagcggc-acagctcaaatttgaaatctc----------cgcccgagttgtaatttgtaga-ggat-gcttc-gggtgaagccgcggtccaagtcccttggaacaggacgtcagagagggtgagaaccccgtacctggccgccgg-tgccccccgctgtgaagctccttcgacgagtcgagttgtttgggaatgcagctctaaattggtggtaaattccatctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcggccagacttgcccgcggttgctcagcccgcct-tt--t-ggcgg--gtgcactct--tccgcggtcaggccagcatcggttcgggcggccggagaaaggcgtcgggaacgtggcc--------------------------tccccaatgcggccagcccggaccgaggttcgcgctct? Apiosporina_morbosa_Dimosp ????????taacggcgagtgaagcggcaaaagctcaaatttgaaatcta----------cgcccgagttgtaatttgtaga-ggat-gcttc-gggtgaagccgcggcccaagtcccttggaacaggacgtcgtagagggtgagagccccgtacctggccgccgg-tgccccccgctgtgaagctccttcgacgagtcgagttgtttgggaatgcagctctaaattggtggtaaattccatctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcggccagacttgcccgcggttgctcagcccgccc-tc--t-ggcgg--gtgcactct--tccgcggtcaggccagcatcggttcgggcggccggataaaggctccgggaacgtagcc--------------------------tccctaatgcggccagcccggaccgaggttcgcgctct? Gibbera_conferta_CBS_191_53 ??????????????????????gcggcaacagctcaaatttgaaatcta----------cgcccgagttgtaatttgtaga-ggat-gtttc-gggtgaagccacggtccaagtcccttggaacaggacgtcatagagggtgagaaccccgtacctggccgtcgg-tgccccccgctgtgaaactccttcgacgagtcgagttgtttgggaatgcagctctaaattggtggtaaattccatctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcggccagacttgcccgcggttgctcatcccgcct-tt--t-ggcgg--gtgcactct--tccgcggtcaggccagcatcggtttgggcggtcggataaaggcgctgggaacgtggcc--------------------------tccccaatgcggccagcccggaccgaggttcgcgctttg Venturia_inaequalis_CBS_176_42 ???ctcagtaacggcgagtgaagcggcaacagctcaaatttgaaatcta----------agcccgagttgtaatttgcaga-ggat-gtttc-gggtgaagccacggtccaagtcccttggaacaggacgtcatagagggtgagaaccccgtacctggccgtcgg-tgccccccgctgtgaaactccttcgacgagtcgagttgtttgggaatgcagctctaaattggtggtaaattccatctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcggccagacttgcccgcggttgctcagcccgcct-tt--t-ggcgg--gtgcactct--tccgcggtcaggccagcatcggtttgggcggtcggataaaggcgtcgggaacgtggcc--------------------------tccccaatgcggccagcccggaccgaggttcgcgcttt? Venturia_populina_CBS_256_38_ ?????????aacggcgagtgaagcggcaacagctcagatttgaaatcta----------agcccgagttgtaatttgcaga-ggat-gtttc-gggtgaagccacggtccaagtcccttggaacaggacgtcatagagggtgagaaccccgtacctggccgtcgg-tgccccccgctgtgaaactccttcgacgagtcgagttgtttgggaatgcagctctaaattggtggtaaattccatctaaagctaaataccggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcggccagacttgcccgcggttgctcagcccgcct-tt--t-ggcgg--gtgcactct--tccgcggtcaggccagcatcggtttgggcggtcggataaaggcgtcgggaacgtggcc--------------------------tccccaatgcgaccagcccggaccgaggttcgcgcttt? Phaeotrichum_benjaminii_CBS_541_72 tgccttagta-cgg-gagtgaagcggcaacagctcaaatttgaaatctgg---------cgtccgagttgtaatttgtaga-ggat-gcttc-aggcgcggcgccgaccgaagttctttggaacaggacgtcagagagggtgagaaccccgtatgcgttcggcgcgcagttgcctgtgtgaagctccttcgacgagtcgagttgtttgggaatgcagctctaaatgggtggtaaattccatctaaagctaaatactggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcaaccagactcgtccgcgggggtatcgttcgccg-tc--a-ggcgggcgtatacgcc--tccgcggccgggccagcatcggtttgggcgaccggataaaggccctaggaatgtgacc--------------------------ctcctaatgcggccagcctggaccgaggtccgcgcttcg Trichodelitschia_bisporula_CBS_262_69v2 ??ccttagtaacggcgagtgaagcggcaatagctcaaatttgaaatcggg---------cgtccgagttgtaatttgtaga-ggat-gcttc-agacacggcgtcggccgaagttctttggaacaggacgtcatagagggtgagaaccccgtatgtgttcgacgtgcagttgtctatgtgaagctccttcgaagagtcgagttgtttgggaatgcagctctaaatgggaggtaaattccttctaaagctaaatactggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaaaagtacgtgaaattgttgaaagggaagcgcttgcgatcagactcgtccgtagaggtagcgttcgccg-tc--a-ggcgggcgtatacgcc--tctacggccgggccagcatcggtttgggcgaccggataaaggccctaggaatgtggcc--------------------------ctcttaatgcggccagcccggaccgaggtccgcgcttcg Asterina_sp_MFLU13_0619 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCTCTTTTGACGAGTCGAGTTGTTTGGGAATGCAGCTCTAAACGGGAGGTATATTCCTCCCAAGGCTAAATACCGGCCGGAGACCCATAGCGCACAAGTAGAGTGATAGAAAGATGAAAAGCACTTTGGAAAAAGAGTTAAAAAGTACGTGAAATTGTTGAAAGGGAAGCGTAGGCGGCCAGACCCGGTGGCGGTTGCTCAGCCGGTCCCCCCGGGGGCCG--GCGCATTCT--TCCGCCACCTGGCCAGCATCGGTTGGGGTGCCCGGACAAAGGCCCTGGGAACGTGGCCCCCCTCGCGGGGGTGTTATAGCCCGGGGCATAACGCGGCCCGCCCGGACCGAGGACAGCGTTC-G Asterina_sp_MFU13_0485 ----------------------------------------------------------------GAGTTGTAATTTGGAGA-GGAT-GCCTC-GGGGTCGTCTCCGGCCTAAGTTCCTTGGAACAGGACGTCGTAGAGGGTGAGAATCCCGTACGCGGCCGGGTG--CCTTCCCCGTGTGAGGCTCCTGCGACGAGTCGAGTTGTTTGGGAATGCAGCTCTAAATGGGAGGTATATTTCTCCTAAAGCTAAATACCGGCCAGAGACCGATAGCGCACAAGTAGAGTGATCGAAAGATGAAAAGCACTTTGGAAAGAGAGTTAAAAAGTACGTGAAATTGTTGAAAGGGAAGCGTTTGCGGCCAGACTTGATGGCGGTTGCTCAGCCGGTCTCT-----GCCCG--GTGCACTCT--TCCGTCGTCAGGCCAGCATCAGTTTGGGCGGCCGGATAAAGGCTTTGGGAACGTGGCTCCTC-----GGAGTGTTATAGCCCTTTGCACAATACGGCCCGCCCGGACTGAGGACAGCGTTC-G Lembosia_albersii_MFLU13_0377 ----------------------------------------------------------------------------------------------------------GCACAGGTTCCCTTGAACGGGACGCCGCAGAGGGTGAGAGCGCCATCCGCGTCCGGGCG--CATTCGCCGCGAGAGGCTCCTTCGACGAGTGGAGTTATTTGTGAGTGCAGCTCCAAGCGGGAGGTATATTCCTTTTAAAGCTAAACACCGGCCGGAGACCGATAGCGCACAAGTAGAGTGATTGAAAGATGAAAAGCACTCTGGAAAGAGAGTGAAACAGTACGTGAAATAGTTGAAAGGGAAGCGTTTGCCGCCAGACTGGACGGCGCCCGCTCGGCCGGCCCTCC--GGGGCCG--GCGCACTCG--GGCGTCGCCGGGCCAGGGTCGGTTTGGGCGGCCGGACAAAGGCGCGGGGAACGTGGCTCCCT---CGGGAGTGTTACAGCCCCGCGCGCAACGCGGCCAGCCCGGACCGAGGACCGCGTTCTG Saccharomyces_cerevisiae_DAOM_216365 tgccttagtaacggcgagtgaagcggcaaaagctcaaatttgaaatctggtaccttcggtgcccgagttgtaatttggaga-gggcaacttt-ggggccgttccttgtctatgttccttggaacaggacgtcatagagggtgagaatcccgtgtggcgaggagtg---cggttctttgtaaagtgccttcgaagagtcgagttgtttgggaatgcagctctaagtgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtacagtgatggaaagatgaaaagaactttgaaaagagagtgaaaaagtacgtgaaattgttgaaagggaagggcatttgatcagacatggtgttttgtgccctctgctcct-tg--t-gggta--ggggaatctcgcatttcactgggccagcatcagttttggtggcaggataaatcca-taggaatgtagcttgcctc---ggtaagtattatagcctgtgggaatactgccagctgggactgaggactgcgacgta Aulographum_hederae_MFLUCC_13_0001 TGCCTCAGTAACGGCGAGTGAAGCGGCAATAGCTCAATTTTGAAATCTAGCACCTCTGGTGTTCGAGTTGTAATTTGTAGA-AGAT-GTTCC-CGAGTTTACCTTGGTCTATGTTCCTTGGAACAGGTCGTCATAGAGGGTGAGAATCCCGTATGTGGCTGAGTG--TACTCTCGATGTGGGACT-CTTCGTCGAGTCGAGTTGTTTGGGAATGCAGCTCAAAGTAGGAGGTAAATTTCTTCTAAAGCTAAATACCGGCCAGAGACCGATAGCGCACAAGTAGAGTGATCGAAAGATGAAAAGCACTCCGGAAGGGGGGTCAAAAAGCACGTGAAATTGTTGAAAGGGAAGCGCTTGCAACCAGATTGCATCTGGG----------------------GACTT--GTGAACCTT--------TTGCTGGCAGTTTTGTTTTCGGTAGCCAGTT-AACATGCCATCAATGTAGCTCCCTC---GGGAGTGTTATAG--GGTGGTCTAATGTGGCTTATCGTGAGCGAAACTGCCGTAATG Aulographum_hederae_CPC_21373 TGCCTCAGTAACGGCGAGTGAAGCGGCAATAGCTCAATTTTGAAATCTAGCACCTCTGGTGTTCGAGTTGTAATTTGTAGA-AGAT-GTTCC-CGAGTTTACCTTGGTCTATGTTCCTTGGAACAGGTCGTCATAGAGGGTGAGAATCCCGTATGTGGCCGAGTG--TACTCTCGATGTGGGACT-CTTCGTCGAGTCGAGTTGTTTGGGAATGCAGCTCAAAGTAGGAGGTAAATTTCTTCTAAAGCTAAATACCGGCCAGAGACCGATAGCGCACAAGTAGAGTGATCGAAAGATGAAAAGCACTCCGGAAGGGGGGTCAAAAAGCACGTGAAATTGTTGAAAGGGAAGCGCTTGCAACCAGATTGCATCTGGG----------------------GACTT--GTGAACCTT--------TTGCTGGCAGTTTTGTTTTCGGTAGCCAGTT-AACATGCCATCAATGTAGCTCCCTC---GGGAGTGTTATAG--GGTGGTCTAATGTGGCTTATTGTGAGCGAAACTGCCGTAATG ; END; begin mrbayes; charset locus1 = 1 -539; log start filename = mydata.log; END; begin mrbayes; outgroup Saccharomyces_cerevisiae_DAOM_216365; prset applyto = ( 1 ) statefreqpr = dirichlet ( 1 , 1 , 1 , 1 ); lset applyto = ( 1 ) nst = 6 rates = invgamma; unlink shape = ( all ) pinvar = ( all ) statefreq = ( all ) revmat = ( all ); mcmcp ngen = 10000000 relburnin = yes burninfrac = 0.25 printfreq = 1000 temp = 0.15 samplefreq = 1000 nchains = 4 savebrlens = yes stoprule = yes stopval = 0.01; mcmc; sump; sumt; END; BEGIN TREES; Title 'Trees from "sup_parm2.nex"'; LINK Taxa = Taxa; TRANSLATE [0] 1 'Asterina_melastomatis_VIC_42822', [1] 2 'Lembosia_abaxialis_VIC_42825', [2] 3 'Prillieuxina_baccharidincola_VIC_42817', [3] 4 'Asterina_chrysophylli_VIC_42823', [4] 5 'Batistinula_gallesiae_VIC_42514', [5] 6 'Parmularia_styracis_VIC_42447', [6] 7 'Parmularia_styracis_VIC_42450', [7] 8 'Parmularia_styracis_VIC_42587', [8] 9 'Asterotexis_cucurbitacearum_VIC_24814', [9] 10 Asterotexis_cucurbitacearum_PMA_M_0141224, [10] 11 Asterina_cestricola_TH_591, [11] 12 Asterina_phenacis_TH_589, [12] 13 'Asterina siphocampyli_PpMP_1324', [13] 14 Asterina_weinmanniae_TH_592, [14] 15 Asterina_zanthoxyli_TH_561, [15] 16 'Inocyclus_angularis_VIC_39747', [16] 17 'Inocyclus_angularis_VIC_39748', [17] 18 'Inocyclus_angularis_VIC_39749', [18] 19 Asterina_fuchsiae_TH_590, [19] 20 Apiosporina_collinsii_CBS_118973, [20] 21 Apiosporina_morbosa_Dimosp, [21] 22 Gibbera_conferta_CBS_191_53, [22] 23 Venturia_inaequalis_CBS_176_42, [23] 24 Venturia_populina_CBS_256_38_, [24] 25 Phaeotrichum_benjaminii_CBS_541_72, [25] 26 Trichodelitschia_bisporula_CBS_262_69v2, [26] 27 Asterina_sp_MFLU13_0619, [27] 28 Asterina_sp_MFU13_0485, [28] 29 Lembosia_albersii_MFLU13_0377, [29] 30 Saccharomyces_cerevisiae_DAOM_216365, [30] 31 Aulographum_hederae_MFLUCC_13_0001, [31] 32 Aulographum_hederae_CPC_21373; TREE supp_tree = (30:0.4822926381456511,((((1:0.007107421658280502,2:0.002883355031836431):0.02411800180546936,(3:0.01615331271278384,5:0.09131222097432799):0.01634174307871383,4:0.08223412982401196):0.03396901186720854,(6:0.001454067753478064,7:0.001436357458536059,8:0.001517145322906554):0.1623430984567711):0.07580693798463838,((((9:0.02613301663150842,10:0.009707728687311934):0.1112341865579096,((11:0.02142026991422994,(12:0.01331467872006209,13:0.01615891379992717):0.007568988189300868):0.02020655993848674,14:0.05302251113701061,15:0.03470168337882598,19:0.02328067566621239,27:0.07944832986162126):0.05596162328262621):0.0284266021998037,(16:0.001458664877732456,17:0.001504515557040742,18:0.001475825842651778):0.08400400639387147):0.02464875666045542,28:0.03671779155872757,29:0.246565568801827):0.04235068942316076,(31:0.003095663094470176,32:0.004144538912784549):0.4497731403195871):0.04564455723501767,(((20:0.01016797376661278,(22:0.00745454290308894,(23:0.001572664853778229,24:0.006232153107671918):0.006785727111264937):0.01648644175745988):0.008575276049245942,21:0.01885809547758345):0.05725624941332553,(25:0.01412047853709031,26:0.0535122475239601):0.1284881457511942):0.03153494229451076); END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 539; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 539; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 539; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1427240209424; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 6588584892870245714; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 5847146523298749420; mqVersion 302; checksumv 0 3 2037255607 null getNumChars 539 numChars 539 getNumTaxa 32 numTaxa 32 short true bits 3458764513820540943 states 15 sumSquaresStatesOnly 297168.0 sumSquares -1.745292573673845E22 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 151; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1916 961; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #6588584892870245714 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #6588584892870245714; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1765 889; 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.ManageTrees.ManageTrees; tell It; showTrees 0 #mesquite.lists.TreesList.TreesList; tell It; setTreeBlock 1; getWindow; tell It; newAssistant #mesquite.lists.NumForTreeList.NumForTreeList; tell It; suppress; setValueTask #mesquite.trees.NumberOfTaxa.NumberOfTaxa; desuppress; endTell; newAssistant #mesquite.lists.TreeListRooted.TreeListRooted; newAssistant #mesquite.lists.TreeListPolys.TreeListPolys; newAssistant #mesquite.lists.TreeListPolyAssumption.TreeListPolyAssumption; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1765 889; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; endTell; showWindow; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #5847146523298749420 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1765 889; 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; toggleShowPaleExcluded 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.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;