#NEXUS [written Sat Feb 27 10:58:51 MSK 2016 by Mesquite version 3.04 (build 725) at Home-PC/94.19.95.218] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=26; TAXLABELS Sporidiobolus_johnsonii_JN246542 'Rogersiomyces malaysianus LE-BIN 3507' 'Rogersiomyces malaysianus LE-BIN 3507-10' Sistotrema_resinicystidium_DQ898708 Sistotrema_farinaceum_DQ898707 Clavulicium_delectabile_AY586688 Sistotrema_sernanderi_AF518650 Hydnum_repandum_KF294643 Sistotrema_confluens_AY647214 Haplotrichum_conspersum_DQ521414 Thanatephorus_cucumeris_AF354119 Paullicorticium_ansatum_AY586693 Sistotrema_oblongisporum_KF218970 Sistotrema_coroniferum_AM259215 Clavulina_cristata_AY586648 Sistotrema_brinkmannii_KF218967 Botryobasidium_subcoronatum_AY647212 Sistotremastrum_niveocremeum_JX310442 Ustilago_maydis_FJ644528 Sistotremastrum_suecicum_EU118667 'Auricularia auricula-judae AF291289' Ceratobasidium_cornigerum_AY152405 Filobasidium_capsuligenum_EF611233 Cryptococcus_neoformans_FJ914904 Craterellus_cornucopioides_AF105305 Cantharellus_cibarius_KF294658 ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=833; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Sporidiobolus_johnsonii_JN246542 ---cgggaaaagctcaaatttgtaa-tctggcgctttc--ggcgtccgagttgtaatctcgagaagtgttttccgcgtcagaccgcacacaagtctcctgga-acggagcgtcatag-tggtgagaacccagtacacggtgcggatg-cctgatgc-tttgtgatacactttcgaagagtcgagttgtttgggaatgcagctcaaattgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtt-aacagtacgtgaaattgttggaagggaaacgcttgaagtcagacttgctattcggagcttg--------------------------cttcgat-tcgcaggcccgcatcagtttttcggggcggaaaatcgtagagagaaggtagcagtttcggctgtgttatagctttctactggattcgtcctgggggactgaggaacgc-----agcgggc-ttcgcctatgctta-tgcgggtggaatggctttaaacgac-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 'Rogersiomyces malaysianus LE-BIN 3507' agc--gggaaagctcaaatttaaaa-tctggcagtctttggctgtccgagttgtaatctagagaagcgttttccgcgctggactgtacacaagtttcctgga-acggaacatcatagagggtgagaatcccgtccttggtacagact-cccagtgc-tctgtgatgcgctttccacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgcttgaagtcagtcgcgtctgcttggactcagccttgcc-tc--ggcttggtgcatttcc-tgc-agacgggccaacgtccatgtcttgcgccggaaaaggggtgagggaatgtggctcctccgggagtgttatagcctttgctcgtatacgacgcgagatatggagtggaac-----agcatgc-ttcggtggtgcttg-tgttggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgaaatgaaagtgatagctgggatccct---ttgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggtagag--------------------------------------------------------------------------------------------------------------------------- 'Rogersiomyces malaysianus LE-BIN 3507-10' aagcgggaaaagctcaaatttaaaa-tctggcagtctttggctgtccgagttgtaatctagagaagcgttttccgcgctggactgtacacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttggtacagact-cccagtgc-tctgtgatgcgctttccacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgcttgaagtcagtcgcgtctgcttggactcagccttgcc-tc--ggcttggtgcatttcc-tgc-agacgggccaacgtccatgtcttgcgccggaaaaggggtgagggaatgtggctcctccgggagtgttatagcctttgctcgtatacgacgcgagatatggagtggaac-----agcatgc-ttcggtggtgcttg-tgttggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgaaatgaaagtgatagctgggaatccct--ttgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgaatagggcgaagccagaggaaactctggtggaggctcgtaGcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotrema_resinicystidium_DQ898708 aagcgggatgagctcaaatttaaaa-tctggcagtctttgattgtccgagttgtaatctagagaagcgttttccgcgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagact-cccagtgc-tctgtgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcgcgtctacttggactcagccttact-tc--ggtttggtgcatttccttgt-tgacgggccagcgtccatgttgtctaccggaaaaggggtgaaggaatgtggctctttcgggagtgttatagcctttgctcgtatacggtgtgtgatatggagtggtac-----agcatgc-ttcggcggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgcaatgaaagtgatagctgggaacccttt-acgggaggcaccggcgccccgagctgaccttttgtgaagcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgcatagggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatgtgggtatagggg Sistotrema_farinaceum_DQ898707 aagcgggatgagctcaaatttaaaa-tctggcagtctttgattgtccgagttgtaatctagagaagtgttttccgcgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagact-cccagtgc-tctgtgatgcactctcaacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcacgtctgcttggactcagccttacc-tc--ggtttggtgcatttccttgt-agacgggccagcgtccatgttgtccgtcggaaaaggtgcgtgggaatgtggcttcttcgggagtgttatagcccatgttcgtatacggcgtgtgatatggagtggtac-----agcatgc-ttcggcggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgcaatgaaagtgatagctgggaacccctt-atgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgcatagggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatgtgggtatagggg Clavulicium_delectabile_AY586688 aagcgggaagagctcaaatttaaaa-tctggcagtctttgattgtccgagttgtaatctagagaagcgttttccgcgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagactgcctagtgc-tttgtgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagg-aaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgcttgaagtcagtcgcgtttgcttggactcagccttaccttt--ggKttggtgcatttccttgt-agacgggccagcgtccatgttattccccggagaagggttgaaggaatgtggctccttcgggagtggtatagccttDactcgtatgcgggggatgatattgagtgagac-----agcatgc-ttcggtggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaRggagtctaacatgtctgcgagtgtttgggtggaaaacccggacgcgtaatgaaagtgataactgggaccccttt-tgggggggcaccggtgccccgagctgaccttgtgtgacgcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgaatagggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtgtagggg Sistotrema_sernanderi_AF518650 aagcgggatgagctcaaatttaaaa-tctggtgtcctttgggcatccgagttgtagtctagagaagcattttccgtgtcggaccatgtacaagtctcctgga-acggagcgtcatagagggtgagaatcccgttcttgacatggacc-cccgatgc-tatgtgatgtgctctcaaagagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcgcgtctgcttggactcagccttact-tc--ggtttggtgcatttcctagt-agacgggccagcgtcgatgttagccgctggaaaaaggtgtagggaatgtggctctttcgggagtgttatagccctatgtcatatgcagtggccggtatcgagtgtaac-----agcacgc-ttttgcggtgcttg-tgctggcgtaatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggtaaacccgagcgcggaatgaaagtgatagctgggatctcc---aagagaggcaccggcgccccgagctgatcttctgtgacgcatcggaggta-agcatatatgttgggacccg-aagatggtgaactatgcctga--agggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Hydnum_repandum_KF294643 aagtgggatgagctcaaatttaaaa-tctggtagtctctggctgcccgagttgtaatctagagaagtgttttctgtgctggactgtgtttaagtttcctgga-atggaacatcatagagggtgagaatcccgtctttgacacagacc-gccagtac-tctgtgatgcactctcaacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacaattgaagtcagttgcatctacttggactcagccttact-tt--ggtttggtgcatttccttgt-ggatgggccagtgttcatgttgattactggaaaaggggctagggaatgtggctcttttgggagtgttatagccttggctcatatacagtgattaatatggagtggtac-----agcatgc-ttcggtggtgcttg-tactggcataatggctttaaatgacccgtcttgaaacacggaccaaggagtctaacatgtctgcaagtatttgggtgataaactcaagtgcgtaatgaaagtgatagctgggaccctc---aaagggggcaccagtgccccgagcggatcttctgtgatgcatcggaggta-agcatatatgttgggacccg-aagatggtgaactatgcctga--agggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotrema_confluens_AY647214 aagagggataagctcaaaattagaa-tctggtagtctttggctatccgaattgtagtctatagaggtgttttctgcgctggactgtgtacaagtctcctgga-atggaacatcatagagggtgagaatcccgtactcgacacagacc-cccagtgc-tatatgatacactctcaacgagtcgagttgtttgggattgcagctcaaagtgggaggtaaattccttctaaagctaaatacaggcgagagaccgatagcgaacaagtaccgtaagggaaagatgaaaagcactttggaaagagagtcaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcacgtctactggaatcagcccttact-tc--ggttcggcgcatttccttat-agacgggtcagtgtccatgttgactgtcggagaaaactttagggaaggtgactcttc--ggagtgttatagccctaatctatatacggtggttaatatggagtgatac-----agcacac-ttcggtggtgcttg-tactggcataatggctttaagcgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtatttgggtgataaacctaattgcataacgaaagtgatagctgggatcctt---aagagaggcactagcaccccgagtggatctctagtgacacgtcggaggta-agcatatatgttgggacccg-aagatggtgaactatgcctga--agggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Haplotrichum_conspersum_DQ521414 aagcgggaaaagctcaaatttaaaa-tctggcggtctttggccgtccgagttgtagcctagagaagcgtcttccgcggcggaccatgtacaagtctcctgga-acggagcgtcatagagggtgagaatcccgtccttgacatggacc-cccgtcgc-tctgcgatgcgctctcgaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtcaaacagtacgtgaaattgttaaaagggaaacgatcaaagtcagtcgcgtctgtcgggactcagcctagcc-tt--ggcgtggcgcatttcccggc-tgacgggccagcgtcgattttggccggcggaaaagggtaggaggaatgtggctcttcaccgagtgttatagcctccgaccgcaaacgccggccgggatcgagccctcc-----ggcacgc-ctcggcggtgcccg-cgctggcgtaatggctttgaccgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggcgaaaaacccgggcgcgtaatgaaagtgatggtcgggacccct---cgtgggggcaccgacgcccgtggccgaccttctgtgaagcgcacgaggca-agcatgcatgttgggacccg-aagatggtgaactatgcctga--agggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Thanatephorus_cucumeris_AF354119 aagcgggaagagctcaaatttaaaa-tctggcagtgtat-tctgtccgagttgtagtctagagaagcatcatccgtgctggaccatgtacaagtctcttgga-acagagcgtcatagagggtgagaatcccgtccttgacatggact-cccagtac-tttgtgttgtgctctcaacgagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggagagagagttaaacagtacgtgaaattgttgaaatggaaacgcttgaagtcagtcgcgttctctgggattcagccttgct-tt--tgcttggtgcatttcccggt-ctacgggccagcatgaattttgaccaatggaaaaaggcttggggaatgtggcaccttcgggtgtgttatagccccttgtcacatacgttggttgggattgaggtctta-----ggcacgc-ttcggttgtgctta-tgctggcgtaatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcaagtgtttgggtgcaaaacccgagcgcgtaatgaaagtgatagttgggacctct---cagaggggcaccgacgcccggaccagaccttctgtgacggatccgaggta-agcatatatgttgggacccg-aagatggtgaactatgcctgc--agggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatgtgggtatagggg Paullicorticium_ansatum_AY586693 aagcgggaaaagctcaaatttgaaa-tctggcggtttc--accgtccgagttgtatgcttacgaagtgttttcggtgttggaccatgtacaagtcccttgga-acagggcgtcatagagggtgagaatcccgtacttgacatggact-cccagtgc-cttgtgatacactttcaaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaggctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtgaaacagtacgtgaaattgctgaaagggaagcgcttgaagtcagtcgcgtctctaggaattcagcctt---------gaacggtgtatttcctagt-tgacgggccaacatcgattttggtcggcggaaatgggcttgaggaatgtggcacctttgggtgtgttatagactcttgtcgcaaacgtcggttgggatcgaggaccgc-----agc-----ttcggc--tgg--a-tgttggcgtaatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtgtgcgagtgtttgggtgttaaacccttgcgcgtaatgaaagtgacaggtgggaggcct---taaggctgcaccatcgaccgatccggatctttagtgatggatttgagtga-agcatatatgttgggacccg-aagatggtgaactatgcctga--agggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotrema_oblongisporum_KF218970 aagcgggaaaagctcaaatttaaaa-tctgatagtctttggctgtccgagttgtaatctagagaagtgttttctgcgctggactgtatacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgatacagatc-cccagtgc-tctacgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgcttgaagtcagtcgcgtttgcttggactcaaccttact-tc--ggtttggcgcatttccttgc-agacgggccagcgtccatgtttttcgccggaaaaggggtgaaggaatgtggctctttcgggagtgttatagcctttgctcgtatacggcgtcggatatggagtggtac-----agcatgc-ttcggtggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcggaatgaaagtgatagctgggaacccctc-acgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgaatagggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotrema_coroniferum_AM259215 aagcgggatgagctcaaatttaaaa-tctggcagtctttgattgtccgagttgtaatctagagaagcgttttccgcgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagact-cccagtgc-tctgtgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcgcgtctacttggactcagccttact-tc--ggtttggtgcatttccttgt-tgacgggccagcgtccatgttgtctaccggaaaaggggtgaaggaatgtggctctttcgggagtgttatagcctttgctcgtatacggtgtgtgatatggagtggtac-----agcatgc-ttcggcggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgcaatgaaagtgatagctgggaacccttt-acgggaggcaccggcgccccgagctgaccttttgtgaagcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgcatagggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatgtgggtatagggg Clavulina_cristata_AY586648 aagcgggaagagctcaaatttaaaa-tctggtaatctttggttgcccgaattgtaatctagagaagcgttttccgtgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagact-cccagcacttttgtgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgcttgaagtcagtcgcgtttgcttggactcagccttact-tc--ggtttggtgcatttccttgc-agacgggccagcgtccatgttgtttgccggaaaaggggtgagagaatgtggctccttcgggagtgttatagcttttgctcgtatgcggggaatgatatggagtggtac-----agcacac-ttcggtggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtgg-aaacccgggcgcgtaatgaaagtgatagctgggaacccttc--tgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggcagagcatatatgttgggacccgaaagatggtgaactatgcctgaatagggcgaag-cagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotrema_brinkmannii_KF218967 aagcgggatgagctcaaatttaaaa-tctggcagtcttcgattgtccgagttgtaatctagagaagcgttttccgcgctggactgtgtacaagtttcctggatacggaacatcatagagggtgagaatcccgtccttgacacagact-cccagtgc-tctgcgatgcgctctcgacgagtcgagttgtttgggattgcagctcaaaatgggaggtaaattccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttaaaagggaaacgattgaagtcagtcgcgtccgcttggactcagccttacc-tc--ggtagggtgcatttccttgt-ggacgggccagcgtccatgttgtccgtcggaaaaggtgcgtgggaatgtggcttcttcgggagtgttatagcccatgttcgtatacggcgagtgatatggagtggtac-----agcatgc-ttcggcggtgcttg-tgctggcataatggctttaaacgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtggaaaacccgagcgcgcaatgaaagtgatagctgggaacccctttacgggaggcaccggcgccccgagctgaccttctgtgacgcatcggaggtagagcatatatgttgggacccgaaagatggtgaactatgcctgaatagggcgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Botryobasidium_subcoronatum_AY647212 aagcgggaagagctcaaatttaaaattctggcggccttcgttcgtccgagttgtagcctagagaagcgttttccgcggcggaccatgtacaagtcccttgga-acagggcgtcatagagggtgagaatcccgtccttgacatggacc-cccgtcgc-tctgYgatgcgctctcgaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtcaaacagtacgtgaaattgttaaaagggaaacgatcaaagtcagtcgcgtctgccgggactcagccttgcc-ttcgcgctcggcgcatttcccggtctgacgggccagcgtcgattttgaccggcggaaaagggtcggaggaacgtggctcctcacggagtgttatagccttcggccgcaaacgtcggttgggatcgagccctcccgcacggcacgcctctggcggtgcccg-cgctggcgtaatggctttgaccgacccgtcttgaaacacggaccaaggagtctaacatgtctgcgagtgtttgggtgtcaaacccgagcgcgtaatgaaagtgatggttgggaacccttY-gcggggggcaccgacgcccgtggctgaccttctgtgacgcacacgaggcagagcatgcatgttgggacccgaaagatggtgaactatgcctgaatagggtgaagccagaggaaactctggtggaggctcgtagcgattctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotremastrum_niveocremeum_JX310442 aagcgggaaaagctcaaatttaaaa-tctggtggt-ttaggccatccgagttgtagtctagagaagtgttttccgtgctggaccgtgtacaagtctcttgga-atagagcgtcatagagggtgagaatcccgtctttgacacggact-accagtgc-tttgtgatgcactctcaaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggtgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtaaaccagtacgtgaaattgttgaaagggaaacgattgaagtcagtcgtatctgctagaactcagccttgct-tc--tgcttggtgcattttctagt-aggtgggccaacatcaattttgatcaatagacaaaggttataggaatgtggcagtctcggctgtgttatagactataattgtacatattgattgggattgaggaatcc-----gg-gcgc-tt--gcgctgtgga-tgttggcgtaatggctttaaacgacccgtcttgaaacacggaccaaggagtgtaacatgctcgcgagtgtttgggtggtaaacccgagcgcgtaatgaaagtga-agttgggactcttc--gtggagggca-cgacgcccgagcctgatgttttcggacggcctcgcggta-agcgagtatgttgcgacccg-aagatggtgaactattcctga--gaggcgaagccagagg-aactctggtggaggctcgtagcgtttctgacttgcaaatcgatcgcaggacttgggtatagggg Ustilago_maydis_FJ644528 aagagggaagagcccaagattgaaa-gctggcgtcttt--ggcgtccgcattgtaatctcaagaagtgttttccgcttcggaccatgcctaagtcccttgga-aaagggcatcatagagggtgataatcccgtacatggcatggacg-cccgaagc-tttgtgatacactttctaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaatgccatctaaggctaaatattggggagagaccgatagcgaacaagtacagtgatggaaagatgaaaagaactttgaaaagagagttaaacagtacgtgaaattgccaaaagggaagggtaggaggtcagagatgcggtctgggattcagccttgct-tt--tgctgggtgtttttctcaga-ttgcaggccaacgtcggttttgggcgctggagaagggtggaaggaatgtggcacctctgggtgtgttatagccttctactggatacagtgaccgagaccgaggacagc-----agcgggc-cttggcaccgcttg-cgttggcataatggccctctaccacccgtcttgaaacacggaccaaggagtctaacatgtatgcgagtctttgggtggcaaacccataggcgcaatgaaagtgacaggtgggatcc-----gcaaggtgcaccatcgaccgatcctcacgtctagtcgtggatttgagtaa-agcatacctgttgggacccg-aagatggtgaactatgcctga--agggtgaagccagaggaaactctggtggaggctcgtagcggttctgacgtgcaaatcgatcgtcaaatttgggtatagggg Sistotremastrum_suecicum_EU118667 aagcgggaaaagctcaaatttgaaa-tctgacggtctttggtcgtccgagttgtagtctggagaagtgctttctgtgctggaccgtgtacaagtctcttgga-acagagcgtcatagagggtgagaatcccgtctttgacacggact-accagtgc-tatatgatgcgctctcaaagagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatacaggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagtaaaacagtacgtgaaattgttgaaagggaaacgcttgaagtcagtcgtgtctgctgggactcagcctggct-tt--tgcctggtgcacttccctgt-tgacaggccaacatcaattttgatcggcagacaaaggctgaggaaatgtggcagcctcggctgtgttatagtcctcagttgtacatgtcgattgggattgaggaatcc-----gg-acac-gcaagtgttgtgggatgttggcgtaatggctttaaacgacccgtcttgaaacacggaccaaggagtgtaacatgctcgcgagtgtttgggtggtaaacccgagcgcgtaatgaaagtgaaagttgagatcttctt-ttgaagagcatcgacgcccgagcctgatgttttcggacggcctcgcggtagagcgagtatgttgcgacccgaaagatggtgaactattcctgaggagggcgaagccagaggaaactctggtggaggctcgtagcgtttctgacgtgcaaatcgatcgcaggacttgggtatagggg 'Auricularia auricula-judae AF291289' aagcgggatgagctcaaatttgaaa-tctggcggtctaaggccgtccgagttgtaatctagagaggtgttttccgtgccggaccgtgtacaagtcccttgga-acagggcgtcatagagggtgagaatcccgtccatgacacggact-cccggtgc-tctgtgatacaccttcgaagagtcgagttgtttgggaatgcagctcaaaacgggtggtaaattccatctaaagctaaatacaggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagaactttggaaagagagttaaacagtacgtgaaattgttgaaagggaaacgcttgaagtcagtcgcgtccgcagggactcagccttgct-tc--tgcttggtgcacttctctgt-ggatgggccagcatcgattttggtcgccggaaaagggcgggaggaatgtggcagctttcgctgtgttatagcctctcgtcgtacacggtggtcgggatcgaggactgc-----agcacgc-cttggtcggggtt--cgcccacgccacggcttaggatgctggc----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Ceratobasidium_cornigerum_AY152405 aagcgggaagagctcaaatttaaaa-tctggcggtc---acccgtccgagttgtagtctagagaagcatcatttacgctggaccatgtacaagtctcttgga-acagagcgtcatagagggtgagaatcccgtccttgacatggact-cccagtgt-tctgtgttgtgctctcaacgagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggcgaaagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggagagagagttaaacagtacgtgaaattgttgaaatggaaacgcttgaagtcagtcgcgttctctgggattcagccttgct-tt--tgcttggtgcatttcctagt-ctacgggccagcatggatttcgaccgtcggagaagggctgggggaatgtggcactttcgggtgtgttatagccccccgtcgcacacgtcggttgggatcgaggacctc-----agcacgc-ttcggttgtgctta-tgctggcgtaatggctttaaacgacccgtct-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Filobasidium_capsuligenum_EF611233 -------------------------------tagactcagtctatccgagttgtaatctatagaagcagtttccgtgctggcccatgtacaagtcccttgga-acagggcgtcatagagggtgagaatcccgttcttgacatggact-accagtgc-tttgtgatctgttttcaacgagtcgagttgtttgggaatgcagctcaaaatgggtggtaaattccatctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtatgtgaaattgttgaaagggaaacgattgaagtcagtcatgtctatt-ggactcagcc--ggt-tc--tgc-cggtgtatttccttta-gatggggtcaacatcagttttgaccgctggataaaggtttgaagaatgtagcactctcgggtgaattatagcttcttgtcatatacagtggttgggactgaggaacgc-----agcatgc-cttggccgggatt--cgtccacgtacatgcttaggatg---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Cryptococcus_neoformans_FJ914904 aaccgggaagagctcaaatttgaaa-tctggcgtcctccgggcgtccgagttgtaatctacagaaacgttttccgtgctggaccgtgtctaagtcccttgga-atagggtatcaaagagggtgacaatcccgtacttgacac-gatc-accagtgc-tctgtgatacgttttctacgagtcgcgttacttgggagtgtagcgcaaaatgggtggtaaactccatctaaagctaaatattggtggaagaccgatagcgaacaagtaccgtgagggaaagatgaaaagcactttggaaagagagttaaacagtacgtgaaattgttgaaagggaaacgattgaagtcagtcgtgtctatt-gggttcagcc--agt-tc--tgc-tggtgtattcccttt--agacgggtcaacatcagttctgatcggtggataagggctggaggaatgtggcactcttgggtgtgttatagcctcctgtcgcatacactggttgggactgaggaatgc-----agctcgc-cttggccggggtt--cgcccacgttcgagcttaggatgttgaaaaatggct--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Craterellus_cornucopioides_AF105305 ---------------------------ctggcagtgattcactgtccgagttgtaaattgaagaaatgtcatccacgctggaccacgtctaaattccacagt-atggagtatcagagagggtaataatcccgtctttaacgtggact-gccagtgt-tctgtgatgcactctctcagagtcgagtagtttgggaatgctgctc-taatgggaggtaaactccttctaaagctaaatattggcgagagaccgatagcgaacaagtaccgtgagggaaagatgaaaagaactctgaaaagagagtcaaatagaacgtgaaattgctgaaagggaagcgtttggagtcagacgcgtcttcatgagctcag-------------acttggacaagttacttga-agacgggccagcactcacgaagaccattgaagaaggggtcatggaatgtagctcagtgctgagtgttatagccttgattcaaaagcaatgtgt--cctt-------------------------------------tgtgagag--atggacagcacgcaacagttc-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Cantharellus_cibarius_KF294658 aagagggaagagctcatcattggaa-tctggcagtgtttcactgtccgagttgtagatgaggagtagtccgtctggactgcatggcgtccaagtacaatagg-gtgggacatcatagagggtgacaatcccgtccttgacgccaagt-gcaagtct-attacgatgctatctcagagagtcgagcagtttgggattgctgcttaaaatgggaggtagattccttctaaagctaaatacaggcgagagaccgatagagaacaagtaccgcaagggaaagatgaaaagcactctgtgaagggagtcaaaagg--cgtgaaattgttgcgagagaagcgattcaagtcagcgtagctagcccaaa----gcgt-----------cttcgc-----tttggac-tagc--tttgccagcggtcttgtcccttaaagagacgtaatatg--tccagcctgg-----------------------cgtgcacaggc-----------------------agc-ccc-ttcgggggcgacat-ggctggtggaatggcttgaatcgacccgtcttgaaacacggaccaaggagtctaacatgtatgcgagtataagggtggcaaacccgtatgcgcaatgaaagtgatggccatgagacac---cctcgtacggccattgcccaagttccgtggtatcccacgaactggagttg-agcatacatgctaggacccg-aagatggtgaactatgcctgg--aaagcgaagccaaaggaaactctggtggaggcttgtagcgattctgacgtgcaaatcgatcgtctgatctgggtatagggg ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 833; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 833; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 833; END; BEGIN TREES; Title Imported_trees; LINK Taxa = Taxa; TRANSLATE [0] 1 Sporidiobolus_johnsonii_JN246542, [1] 2 'Rogersiomyces malaysianus LE-BIN 3507', [2] 3 'Rogersiomyces malaysianus LE-BIN 3507-10', [3] 4 Sistotrema_resinicystidium_DQ898708, [4] 5 Sistotrema_farinaceum_DQ898707, [5] 6 Clavulicium_delectabile_AY586688, [6] 7 Sistotrema_sernanderi_AF518650, [7] 8 Hydnum_repandum_KF294643, [8] 9 Sistotrema_confluens_AY647214, [9] 10 Haplotrichum_conspersum_DQ521414, [10] 11 Thanatephorus_cucumeris_AF354119, [11] 12 Paullicorticium_ansatum_AY586693, [12] 13 Sistotrema_oblongisporum_KF218970, [13] 14 Sistotrema_coroniferum_AM259215, [14] 15 Clavulina_cristata_AY586648, [15] 16 Sistotrema_brinkmannii_KF218967, [16] 17 Botryobasidium_subcoronatum_AY647212, [17] 18 Sistotremastrum_niveocremeum_JX310442, [18] 19 Ustilago_maydis_FJ644528, [19] 20 Sistotremastrum_suecicum_EU118667, [20] 21 'Auricularia auricula-judae AF291289', [21] 22 Ceratobasidium_cornigerum_AY152405, [22] 23 Filobasidium_capsuligenum_EF611233, [23] 24 Cryptococcus_neoformans_FJ914904, [24] 25 Craterellus_cornucopioides_AF105305, [25] 26 Cantharellus_cibarius_KF294658; TREE ML_tree_LSU = ((19:0.23095223822126418,(12:0.07329811237296803,(((22:0.031173645136535647,11:0.04546025739589188):0.053944412294557875,(((10:0.051262462860014166,17:0.023245372245191485):0.08811092719782586,(7:0.06109342924129349,((9:0.13975649671210202,8:0.06041731056091934):0.03974309973775204,(((5:0.011171737405469187,16:0.011817032944871611):0.016808120604548248,(((6:0.044958235049728124,15:0.026907484178531223):0.013123206026674135,(25:0.46895901197636414,26:0.8060885742440097):0.16436348247571467):0.00000212049232319203,(13:0.026755614377097326,(3:0.001191279008221531,2:0.009145271852821856):0.03182179027272614):0.013175668579378299):0.010394341794066776):0.0006774103403537024,(14:0.00000212049232319203,4:0.00000212049232319203):0.019611635708592853):0.022787056221022953):0.04312344325458396):0.06781711004024564):0.029107611585876044,(20:0.0609786648493512,18:0.07090527448343074):0.15204630170480088):0.0012707679107302407):0.04185841228710358,(21:0.09958555722911187,(23:0.11007628692391874,24:0.1426524911495233):0.09801348859387798):0.073071864573457):0.04647677486886326):0.07926434335550268):0.1424814109077957,1:0.1424814109077957)[% ] [% ] [% setBetweenBits = selected ]; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1456559931107; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 822269756600188327; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 9048669473392384523; mqVersion 304; checksumv 0 3 4154934807 null getNumChars 833 numChars 833 getNumTaxa 26 numTaxa 26 short true bits 3458764513820540943 states 15 sumSquaresStatesOnly 411824.0 sumSquares -2.3985378981840844E22 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 828 843; setLocation -187 851; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #822269756600188327 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #822269756600188327; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; getTable; tell It; rowNamesWidth 239; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 728 771; setLocation -187 851; 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 728 771; setLocation -187 851; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TreesList.TreesListWindow.ibeam; endTell; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #822269756600188327 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 950.1456559137509.6762259219457159292; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 728 771; setLocation -187 851; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle on; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; 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 off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; 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 off; 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; makeTreeWindow #822269756600188327 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSourceEditMode #mesquite.trees.StoredTrees.StoredTrees; tell It; laxMode; setTreeBlock -2147483647; toggleUseWeights off; endTell; setAssignedID 986.1456559562186.6681874673556815288; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 728 771; setLocation -187 851; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; 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 off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setTree '0;'; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; showWindow; endTell; setEditMode 'con 50 majrule [Stored Trees]'; desuppressEPCResponseNORESET; 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 off; 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 #9048669473392384523 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 728 771; setLocation -187 851; 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;