#NEXUS [written Sun Oct 05 20:46:30 ART 2014 by Mesquite version 2.74 (build 550) at Andres-PC/192.168.100.101] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=36; TAXLABELS Ceratocystis_albifundus_AF043605 Ceratocystis_albifundus_AF275500 Ceratocystis_fimbriata_AF222484 Ceratocystis_populicola_AF275512 Ceratocystis_adiposa_AF043606 Ambrosiella_xylebori_AF275508 Ambrosiella_xylebori_EU984294 Ceratocystis_adiposa_AF222481 Ambrosiella_hartigii_EU984288 Ambrosiella_hartigii_AF275506 BAFC4492 Ceratocystis_moniliformis_AF222487 Ceratocystis_paradoxa_AF275498 Ceratocystis_radicicola_AF275513 Thielaviopsis_ovoidea_AF275502 Thielaviopsis_thielavioides_AF275504 Thielaviopsis_thielavioides_AF275507 Thielaviopsis_populi_AF275501 Thielaviopsis_basicola_AF222459 Ceratocystis_coerulescens_AY214001 Ceratocystis_pinicola_AF275511 Ceratocystis_eucalypti_AF222482 Thielaviopsis_australis_AF222450 Thielaviopsis_neocaledoniae_AF222471 Ceratocystis_virescens_U47824 Ceratocystis_laricicola_AF043600 Ceratocystis_polonica_AF043601 Ceratocystis_pinicola_AF043602 Ceratocystis_virescens_AF043603 Ambrosiella_ferruginea_AF275505 Ambrosiella_ferruginea_EU984285 Ceratocystis_moniliformis_AF043597 Ceratocystis_paradoxa_AF043607 Ceratocystis_fagacearum_AF222483 Ceratocystis_fagacearum_AF043598 Petriella_setifera_AF043596 ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "28S_Ceratocystis_matrix.nexus"'; DIMENSIONS NCHAR=587; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Ceratocystis_albifundus_AF043605 caataa-cggaggaaaagaaaccaacaggagtt-ccctgataacggcgagtgaa-cggcaacagctcaaatttgaaatctggctatcttaccgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggataccaagcctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctggcagtttcgttagccctcgggctgatt-tactctgtccagtacaggccagcatcagtttgctgtcggggagaaaggctctgggaacgtagctccccccttctgggggggagtgttatagccctctgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgct?????????? Ceratocystis_albifundus_AF275500 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggc-acagctcaaatttgaaatctggctatcttaccgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggataccaagcctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctggcagtttcgttagccctcgggctgatt-tactctgtccagtacaggccagcatcagtttgctgtcggggagaaaggctctgggaacgtagctccccccttctgggggggagtgttatagccctctgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtattgg Ceratocystis_fimbriata_AF222484 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctacatc-ccgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggataccaagcctctgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctggcagtttcgttagccctcgggctgatt-tactctgtccagtacaggccagcatcagtttgctgtcggggagaaaggctctgggaacgtagctccccccttct-ggggggagtgttatagccctctgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Ceratocystis_populicola_AF275512 caataagcggaggaaaagaa--ccacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctacatt-ccgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggacaccaaacctctgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctggcagtttcgttagccctcgggctgatt-tactctgtccagtacaggccagcatcagtttgctgtcggggagaaaggctctgggaacgtagctccccccttct-ggggggagtgttatagccctctgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaagg? Ceratocystis_adiposa_AF043606 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagcgaa-cggcaacagctcaaatttgaaatctggctac-tt--cgtagt-ccgagttgtaatttgtagaggatgcttttggtgaagtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaactgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacag-acgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtggctcttc----------gggagtgttatagccctttgcataatacc-ttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ambrosiella_xylebori_AF275508 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaaccgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtggctccctc---------gggagtgttatagatctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggc??????? Ambrosiella_xylebori_EU984294 ?????????????aaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaaccgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtggctccctc---------gggagtgttatagatctttgcataatacccttcggcagactgagga??????????????????????????????? Ceratocystis_adiposa_AF222481 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--cgtagt-ccgagttgtaatttgtagaggatgcttttggtgaagtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaactgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtggctccttc---------gggagtgttatagccctttgcataatacccttcggcagactgagg???????????????????????????????? Ambrosiella_hartigii_EU984288 ?????????????aaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaactgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgcctgtactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtggctccctc---------gggagtgttatagacctttgcataatacccttcggcagactgagga??????????????????????????????? Ambrosiella_hartigii_AF275506 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccagagagggtgagagccccgtacagttagcaactgatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgcctgtactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggctta-ggaatgtggctccctc---------cggagtgttatagacctttgcataatacccttcggcagactgagg???????????????????????????????? BAFC4492 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtaaggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagataccgaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagtttcggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggtttagggaatgtggctccttc---------gggagtgttatagccctttacataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_moniliformis_AF222487 caataagcggaggaaaagaaaccaacagggattgccttagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggttac-tt--cgtagc-ccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggtttagggaatgtggctcctcc---------gggagtgttatagccctttacataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_paradoxa_AF275498 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggatgccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttgctagttttcggactggtt-tactctgt-tagtacaggccagcatcagtttgttgttggggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataatacctttcgacagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Ceratocystis_radicicola_AF275513 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccatagagggtgagagccccgtacggttggatgccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttgctagttttcggactggtt-tactctgt-tagtacaggccagcatcagtttgttgttagggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataatacctttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Thielaviopsis_ovoidea_AF275502 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctttcagttttgttagttctcggactgatt-tactctgt-tagtacaggccagcatcagtttgttgtcggggagaaaggcttagggaatgtggctccttc---------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Thielaviopsis_thielavioides_AF275504 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctttcagttttgttagttctcggactgatt-tactctgt-tagtacaggccagcatcagtttgttgtcggggagaaaggcttagggaatgtggctccttc---------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Thielaviopsis_thielavioides_AF275507 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctttcagttttgttagttctcggactgatt-tactctgt-tagtacaggccagcatcagtttgttgtcggggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Thielaviopsis_populi_AF275501 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctttcagttttgttagttttcggactgatt-tactctgt-tagtacaggccagcatcagtttgttgtcggggagaaaggctcagggaatgtggcttcttc---------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgctggcgtaatgg Thielaviopsis_basicola_AF222459 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagcgaagcggcaacagctcaaatttgaaatctggctat-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctttcagttttgttagttttcggactgatt-tactctgt-tagtacaggccagcatcagtttgttgtcagggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataatacctttcggcagactgagg???????????????????????????????? Ceratocystis_coerulescens_AY214001 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgcagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggacaccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_pinicola_AF275511 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgcagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggacaccaagcctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_eucalypti_AF222482 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--cgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccggagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataataccattcggcagactgagg???????????????????????????????? Thielaviopsis_australis_AF222450 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccggagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataataccattcggcagactgagg???????????????????????????????? Thielaviopsis_neocaledoniae_AF222471 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaagcggcaacagctcaaatttgaaatctggctac-tt--cgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccggagagggtgagagccccgtacggttggataccaagcctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctctttc---------gagagtgttatagccctttgcataataccattcggcagactgagg???????????????????????????????? Ceratocystis_virescens_U47824 caataagcggaggaaaagaaaccaacagggattgccttagtagcggcgagcgaa???gcaacagctcaaatttgaaatctggctac-tt--tgtagt-tcgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgctcgttctcggacttgtt-tactctgtccagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatg? Ceratocystis_laricicola_AF043600 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagcgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgcagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggacaccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_polonica_AF043601 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagcgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgcagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggacaccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_pinicola_AF043602 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagcgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgcagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggacaccaagcctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagattaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgcttgttttcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctccctc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_virescens_AF043603 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagcgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-tcgagttgtaatttgtagaggatgcttttggtgaggtgccttccgag-ttccctggaacgggacgccagagagggtgagagccccgtacggttggataccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaataccggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctgtcagttttgctcgttctcggacttgtt-tactctgt-cagtacaggccaacatcagtttgttgtttgggagaaaggcttagggaatgtggctctttc---------gggagtgttatagccctttgcataataccattcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ambrosiella_ferruginea_AF275505 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctgactac-tt--tgtagt-ccgaattgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagatactaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctttacttctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggctcagggaatgtgactccttc---------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ambrosiella_ferruginea_EU984285 ?????????????aaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctgactac-tt--tgtagt-ccgaattgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagatactaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctttacttctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggcttagggaatgtgactccttc---------gggagtgttatagccctttgcataatacccttcggcagactgagga??????????????????????????????? Ceratocystis_moniliformis_AF043597 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagtgaa-cggcaacagctcaaatttgaaatctggttac-tt--cgtagc-ccgagttgtaatttgtagaggatgcttttggt-aggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagataccaatcctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtttctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgtcggggagaaaggtttagggaatgtggctcctcc---------gggagtgttatagccctttacataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Ceratocystis_paradoxa_AF043607 caataa-cggaggaaaagaaaccaaca-ggattgccttagtaacggcgagtgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatgcttttggtgaggtgccttccgagtttccctggaacgggacgccatagagggtgagagccccgtacggttggacgccaaacctttgtatagctccttcaacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttgctagttttcggactggtt-tactctgt-tagtacaggccagcatcagtttgttgtcggggagaaaggcttagggaatgtggctccttc---------gggagtgttatagccctttgcataatacctttcggcagactgaggaccgcgtttcggcaaggatgttggcgtaatg? Ceratocystis_fagacearum_AF222483 caataagcggaggaaaagaaaccaacagggattgccctagtaacggcgagtgaagcggcaacagctcaaatttgaaatctggctacttt--tgtagtcccgagttgtaatttgtagaggatgcttttggtgaggtgctttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgttggggagaaaggcttagggaatgtggctcctttcgt------gggagtgttatagccctttgcataatacccttcggcagactgaggaccgcgcttcggcaaggatgttggcgt????? Ceratocystis_fagacearum_AF043598 caataa-cggaggaaaagaaaccaaca-ggattgcc-tagtaacggcgagtgaa-cggcaacagctcaaatttgaaatctggctac-tt--tgtagt-ccgagttgtaatttgtagaggatcgttttggt-aggtcgtttctgag-ttccctggaacgggacgccaaagagggtgagagccccgtacagttagataccaaacctttgtatagctccttcgacgagtcgagtagtttgggaatgctgctctaaatgggaggtatatctcttctaaagctaaatataggctagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcctatgaccagacttgtctctatcagttttggtagttttcggactgctt-tactctgt-tagtacaggccaacatcagtttgttgttggggagaaaggcttagggaatgtggctcctttcgt------gggagtgttatagccctttgcataatacc-ttcggcagactgaggaccgcgcttcggcaaggatgttggcgtaatgg Petriella_setifera_AF043596 caataa-cggaggaaaagaaaccaacagggattgcttcagtaacggcgagtgaa-cggcaacagctcaaatttgaaatctggctgcctg--tgcagt-ccgaattgtaatttgaagaggatgcttttggcaaggtgccttccgagtttccctggaatgggacgccatagagggtgagagccccgtatggtcggtcgccgagcctctgtaaagctccttcgacgagtcgagtagtttgggaatgctgctcaaaatgggaggtaaaccccttctaaagctaaatattggccagagaccgatagcgcacaagtagagtgatcgaaagatgaaaagcactttgaaaagagagttaaacagcacgtgaaattgttgaaagggaagcgcttgcgaccagacttgtgctcgtcgaatcagccgtcgctcgtcggggcgcatttcggcgggcttcaggccggcatcagttcgctgtaggggagaaaggcggtagg-atggggtttttc-----------ggagtgttatagcctaccgtataatacccttcggtggactgaggaccgcgcatctgcaaggatgctggcgtaat?? ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 587; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 587; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 587; END; BEGIN TREES; Title Imported_trees; LINK Taxa = Taxa; TRANSLATE 1 Ceratocystis_albifundus_AF043605, 2 Ceratocystis_albifundus_AF275500, 3 Ceratocystis_fimbriata_AF222484, 4 Ceratocystis_populicola_AF275512, 5 Ceratocystis_adiposa_AF043606, 6 Ambrosiella_xylebori_AF275508, 7 Ambrosiella_xylebori_EU984294, 8 Ceratocystis_adiposa_AF222481, 9 Ambrosiella_hartigii_EU984288, 10 Ambrosiella_hartigii_AF275506, 11 BAFC4492, 12 Ceratocystis_moniliformis_AF222487, 13 Ceratocystis_paradoxa_AF275498, 14 Ceratocystis_radicicola_AF275513, 15 Thielaviopsis_ovoidea_AF275502, 16 Thielaviopsis_thielavioides_AF275504, 17 Thielaviopsis_thielavioides_AF275507, 18 Thielaviopsis_populi_AF275501, 19 Thielaviopsis_basicola_AF222459, 20 Ceratocystis_coerulescens_AY214001, 21 Ceratocystis_pinicola_AF275511, 22 Ceratocystis_eucalypti_AF222482, 23 Thielaviopsis_australis_AF222450, 24 Thielaviopsis_neocaledoniae_AF222471, 25 Ceratocystis_virescens_U47824, 26 Ceratocystis_laricicola_AF043600, 27 Ceratocystis_polonica_AF043601, 28 Ceratocystis_pinicola_AF043602, 29 Ceratocystis_virescens_AF043603, 30 Ambrosiella_ferruginea_AF275505, 31 Ambrosiella_ferruginea_EU984285, 32 Ceratocystis_moniliformis_AF043597, 33 Ceratocystis_paradoxa_AF043607, 34 Ceratocystis_fagacearum_AF222483, 35 Ceratocystis_fagacearum_AF043598, 36 Petriella_setifera_AF043596; TREE Imported_tree_0 = (36:0.24223,((((((((8:0.0,5:0.00822)0.9700:0.004187,((10:0.002059,9:0.0)0.8800:0.00226,(7:0.0,6:0.0)0.8400:0.003852)0.8500:0.006241)0.9300:0.011761,(30:0.001984,31:0.0)0.9900:0.013742)0.1800:0.001002,(34:0.0,35:0.008555)0.9100:0.004046)0.1000:0.0,(11:0.008414,(12:0.0,32:0.001995)0.9800:0.010495)0.7900:0.006219)0.9900:0.02226,(33:0.008224,(13:0.004185,(14:0.0,((28:0.003908,(26:0.0,27:0.0)0.4900:0.0)0.2300:0.0,(21:0.001934,(20:0.0,((25:0.0,29:0.001948)0.7800:0.005993,(23:0.0,(22:0.0,24:0.00408)0.6700:0.002028)0.8900:0.002167)0.6800:0.007992)0.0200:0.0)0.0800:0.001933)1.0000:0.03298)0.3100:0.008388)0.1900:0.00179)0.2700:0.006491)0.3700:0.006482,(15:0.0,(16:0.0,(18:0.00597,(17:1.0E-6,19:0.008407)0.4000:0.001965)0.0500:0.0)0.3500:0.001962)0.6400:0.006422)0.7600:0.02638,(4:0.004148,(3:0.001949,(1:0.007856,2:0.0)0.7800:0.003863)0.3900:0.001831)0.6500:0.01305)0.0000:0.141519); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1412552790429; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 3090932440016189405; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 1475243306676199519; mqVersion 274; checksumv 0 2 2951769088 null getNumChars 587 numChars 587 getNumTaxa 36 numTaxa 36 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 442853.0 sumSquares -2.1843250826281323E22 NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 292; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1366 650; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #3090932440016189405 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #3090932440016189405; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1074 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #3090932440016189405 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 967.1412552740243.4557686980786511232; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1074 583; setLocation -8 -8; 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.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; setCornerMode Right_Angle 50; 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 on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; 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 on; toggleHorizontal 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 #1475243306676199519 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 319; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1074 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; 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; 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;