#NEXUS [written Sat Sep 13 13:45:05 MDT 2014 by Mesquite version 2.75 (build 564) at donnatvcbook676.unm.edu/129.24.145.221] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=26; TAXLABELS Humicola_fuscoatra_CBS_118.14 Thielavia_terrestris_NRRL_8126 Remersonia_sp._CBS_620.91 'Remersonia thermophila ATCC 22073 (type)' Mycothermus_thermophilus_Isolate_A Mycothermus_thermophilus_F1 Mycothermus_thermophilus_CBS_619.91 Mycothermus_thermophilus_S403 Mycothermus_thermophilus_CBS_621.91 Mycothermus_thermophilus_CBS_623.91 Mycothermus_thermophilus_CBS_627.91 Mycothermus_thermophilus_CBS_622.91 Mycothermus_thermophilus_CBS_626.91 Mycothermus_thermophilus_YM54 Mycothermus_thermophilus_B1 Mycothermus_thermophilus_YM22 Mycothermus_thermophilus_IMI_243118 Mycothermus_thermophilus_CBS_671.88 Mycothermus_thermophilus_R7 Mycothermus_thermophilus_S519 'Mycothermus thermophilus CBS 625.91 (type)' Myceliophthora_thermophila_ATCC_42464 Chaetomium_thermophilum_CBS_143.50 Neurospora_discreta_FGSC_8579 Neurospora_crassa_74A 'Sordaria macrospora K-hell' ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=501; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Humicola_fuscoatra_CBS_118.14 -----TA??-----CCGTTGCTTCGGCG----------GGC--GGCCC--GGGCCCC---------------GCG-CCCGGAG??CC?CCCCCC----GTGGG---CGCCCGCCGGAG-G----TA--AAACAAACCCTTGAAT-TGCATGGCCTCTCTGAGTCTTCTGTA??GAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCC-CGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAAACCAGTGGCGG-GCTCGCT-GTCACCCCGAGCGTAGTAGTT-------AC-ATCTCGCTCTGGGAGTGC?GCGGGTTCCGGCCGTTAAACGCCT---TA-- Thielavia_terrestris_NRRL_8126 ---CTTACCTAA--CCGTTGCTTCGGCG----------GGC--GGCGCCAGGGCCCCCACGGGCCCGCCAGCGCG-CCCCCCGGCCCCCCTCGC----GGGGG---CGCCCGCCGGAG-G----CTCCAAACCA-TTCTCGCATGCACAAGGCCTCTCTGAGTCTTCTGTACTGAATGAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCCGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGCATTCCGGCGGGCATGCCTGTCCGAGCGTCATTTCGACC-ATCAAGCCCC-GGGCTTGTGTTGGGGACCTGCGGCTGCCCGCAGGCCCCGAAAACCAGTGGCGGTGCCCGCT-GTCACCCCGAGCGTAGTAGCA-------ACCACCTCGCTCAGGGCGTGCTCCGGGTCCCGGCCGTTAAACGGAA---AGCA Remersonia_sp._CBS_620.91 AACCGTACCTTT-ACCGTTGCTTCGGCG----------GGA--GGCGCCCCGTGCCCCTGTGGCGCGCCGG-GCG-TCCCCT-GGCCCCCTCGC-----GGGG---CGCCCGCCGGAG-GAATACCCAAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGTCTTCTGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCCCGGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATCCAGTGGCGG-GCTCGCT-GACACACCGAGCGTAGTAGATTT-----ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTAGCCGTAAAACGACC--TTGTC 'Remersonia thermophila ATCC 22073 (type)' AACCCTACCTTTTACCGTTGCTTCGGCG----------GGA--GGCGCCCCCT------------CGCGGG-GCG-TCCC-T-GGCCCTCCCACCGCGGGGGG---CGCCCGCCGGAG-GAATACCCAAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGTCTTTTGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCC-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATCCAGTGGCGG-GCTCGCT-GACACACCGAGCGTAGTAGCTTT-----ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTAGCCGTAAAACGACC--TTGTC Mycothermus_thermophilus_Isolate_A ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_F1 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_CBS_619.91 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_S403 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGTGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATGTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_CBS_621.91 AACCG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATGTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_CBS_623.91 AACCG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCCCGGCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCTTTTG-- Mycothermus_thermophilus_CBS_627.91 AACCG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_CBS_622.91 AACCG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTAGTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_CBS_626.91 AACCG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACGTGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_YM54 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACGTGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_B1 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_YM22 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GGATACCCCAAACC--CTTTTGCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_IMI_243118 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GGATACCCCAAACC--CTTTTGCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_CBS_671.88 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTTTGCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_R7 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTTTGCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCCATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC-TTTG-- Mycothermus_thermophilus_S519 ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTT-GCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACCCTTTG-- 'Mycothermus thermophilus CBS 625.91 (type)' ---CG-ACCCTT--CTGTTGCTTCGGCG----------GGA--GGCGCCTCGGCGCC--------CCTCGG-CCGATCCCCC--GCCCCCGCGGCGTGGGGGGAGGCTCCCGCCGGAG-GAATACCCCAAACC--CTTTTGCA-GCACATGGCCTCTCTGAGT-TTATGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCTGCGGCTGCC-GCAGGCCCTGAAATGCAGTGGCGG-GCTCGCAAGACACACCGAGCGTAGTAGCTT------ACAACCTCGCTTTGGGAGTGCTGCGGGTGCTGGCCGTAAAGCGACC--TTG-- Myceliophthora_thermophila_ATCC_42464 --GCT-ACCTAG-ACCGTTGCTTCGGCG----------GGC--GGCGCC-----CTC-------------GCGCGCCCCCCCTGGGGCCCGCACC---GCGGG---CGCCCGCCGGAG----TACACCAAACT---CTTGATATGT-TATGGCCACTCTGAGTCTCCTGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCATCCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCATCAAGCCCA-CGGCTTGTGTTGGGGACCTGCGGCTGCCCGCAG-CCCTGAAAACCAGTGGCGG-GCTCGCTAGTCACACCGGGCGTAGTAGCAT------ACGACCTCGCTC-AGGCGTGCTGCGGGTTCCAGCCGTAAAACGACC---TTCA Chaetomium_thermophilum_CBS_143.50 ---CT-ACCCTT-CACGTTGCTTCGGCG----------GGTCGGGCGCTGTGCCGCCC-------CTCCGG-GCGACCCGGGGCTCCCCAAAGGCCCCGGGCCCGCCGCCCGCCGGAG-G--TACGC-AAACT--CTTGTTCA-TTGTACGGCCTCTCTGAGT--GAAGTACTGAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCCGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCCCT-GGGCTTGTGTTGGGGACCCGCGGCTGCTCGCGGGCCCTGAAAAGCAGTGGCGG-GCTCGCTAGTCACACCGAGCGTAGTAGAACTTCTATTCGATCTCGCTCAGGGCGTGCGGCGGGTGCCAGCCGTAAAACCCCAG------ Neurospora_discreta_FGSC_8579 ---CTTACCCGT-ACGGTTGCCTCGGCGCTGGCGGTCCGGAAAGGCCTTCGGGCCCT----------CCCG---GATCCTTGGGTCTCCCGCTCGCGGGAGGC---TGCCCGCCGGAGTGCCGAAACTAAACT---CTTGATA-TTTTATG-TTTCTCTGAGT--AAACTTTTAAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCTCGCCAGTATTCTGGCGAGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCTCT---GCTTGCGTTGGGGATCCGCGGCTGCCCGCGGTCCCTCAAAAACAGTGGCGG-GCTCGCTAGTCACACCGAGCGTAGTAATT--------CTACATCGCTATGGTCGTGCGGCGGGTGCTTGCCGTAAAACCCCC------- Neurospora_crassa_74A ---CTTACCCGT-ACGGTTGCCTCGGCGCTGGCGGTCCGGAAAGGCCCTCGGGCCCT----------CCCG---GATCCTCGGGTCTCCCGCTCGCGGGAGGC---TGCCCGCCGGAGTGCCGAAACTAAACT---CTTGATA-TCTTATG-TCTCTCTGAGT--AAACTTTTAAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCTCGCCAGTATTCTGGCGAGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCTCT---GCTTGCGTTGGGGATCCGCGGCTGTCCGCGGTCCCTCAAAATCAGTGGCGG-GCTCGCTAGTCACACCGAGCGTAGTAACT--------CTACATCGCTATGGTCGTGCGGCGGGTTCTTGCCGTAAAACCCCC------- 'Sordaria macrospora K-hell' ---CTTACCCGT-ACGGTTGCCTCGGCGCTGGCGGTCCGGAA-GGCCCTCGGGCCC-----------CCCG---GATCCTCGGGTCTCCCGCTCGCGGGAGGC---TGCCCGCCGGAGTGCCGAAACCAAACT---CTTGATA-TTTTATG-TCTCTCTGAGT--AAACTTTTAAATAAGTCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCTCGCCAGTATTCTGGCGAGCATGCCTGTTCGAGCGTCATTTCAACC-ATCAAGCTCT---GCTTGCGTTGGGGATCCGCGTCTGAC-GCGGTCCCTCAAAAACAGTGGCGG-GCTCGCTAGTCACACCGAGCGTAGTAACT--------CTACATCGCTATGGTCGTGCGGCGGGTTCTTGCCGTAAAACCCC-------- ; END; BEGIN TREES; Title 'Trees from "Nexus Sordariomycetes ITS Parsimony Tree"'; LINK Taxa = Taxa; TRANSLATE 1 Humicola_fuscoatra_CBS_118.14, 2 Thielavia_terrestris_NRRL_8126, 3 Remersonia_sp._CBS_620.91, 4 'Remersonia thermophila ATCC 22073 (type)', 5 Mycothermus_thermophilus_Isolate_A, 6 Mycothermus_thermophilus_F1, 7 Mycothermus_thermophilus_CBS_619.91, 8 Mycothermus_thermophilus_S403, 9 Mycothermus_thermophilus_CBS_621.91, 10 Mycothermus_thermophilus_CBS_623.91, 11 Mycothermus_thermophilus_CBS_627.91, 12 Mycothermus_thermophilus_CBS_622.91, 13 Mycothermus_thermophilus_CBS_626.91, 14 Mycothermus_thermophilus_YM54, 15 Mycothermus_thermophilus_B1, 16 Mycothermus_thermophilus_YM22, 17 Mycothermus_thermophilus_IMI_243118, 18 Mycothermus_thermophilus_CBS_671.88, 19 Mycothermus_thermophilus_R7, 20 Mycothermus_thermophilus_S519, 21 'Mycothermus thermophilus CBS 625.91 (type)', 22 Myceliophthora_thermophila_ATCC_42464, 23 Chaetomium_thermophilum_CBS_143.50, 24 Neurospora_discreta_FGSC_8579, 25 Neurospora_crassa_74A, 26 'Sordaria macrospora K-hell'; TREE tree_1 = ((23:0.09897,((((20:0.0020000000000000018,(21:0.0020000000000000018,19:0.0020000000000000018,18:0.0,(17:0.0,16:0.0):0.0020000000000000018):0.0020000000000000018,15:0.0,14:0.0020000000000000018):0.0020000000000000018,(((13:0.0020000000000000018,12:0.0020000000000000018,11:0.0):0.005989999999999995,10:0.0,9:0.0020000000000000018):0.005989999999999995,8:0.0039899999999999936,7:0.0,6:0.0,5:0.0):0.0039899999999999936):0.04375000000000001,(4:0.026109999999999994,3:0.03159999999999999):0.031440000000000023):0.041419999999999985,(22:0.06662000000000001,(2:0.07893,1:0.06578999999999999):0.03492999999999999):0.03302000000000002):0.04424):0.060215,(26:0.009979999999999989,(25:0.006649999999999989,24:0.009310000000000013):0.005319999999999991):0.060214999999999984); END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 501; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 501; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 501; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1410637505573; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 6263386994978088084; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 4236273086772846051; mqVersion 275; checksumv 0 3 3601953500 null getNumChars 501 numChars 501 getNumTaxa 26 numTaxa 26 short true bits 15 states 15 sumSquaresStatesOnly 234829.0 sumSquares 234829.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 371; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1191 542; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #6263386994978088084 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #6263386994978088084; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; getTable; tell It; rowNamesWidth 234; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 820 475; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; setActive; 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 820 475; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; showPage 3; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #6263386994978088084 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1314.1408804519793.669171001201535672; getTreeWindow; tell It; setExplanationSize 50; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 820 455; setLocation 8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; endTell; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle on; 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; setTree '((((((20:0.0020000000000000018,(21:0.0020000000000000018,19:0.0020000000000000018,18:0.0,(17:0.0,16:0.0):0.0020000000000000018):0.0020000000000000018,15:0.0,14:0.0020000000000000018):0.0020000000000000018,(((13:0.0020000000000000018,12:0.0020000000000000018,11:0.0):0.005989999999999995,10:0.0,9:0.0020000000000000018):0.005989999999999995,8:0.0039899999999999936,7:0.0,6:0.0,5:0.0):0.0039899999999999936):0.04375000000000001,(4:0.026109999999999994,3:0.03159999999999999):0.031440000000000023):0.041419999999999985,((2:0.07893,1:0.06578999999999999):0.03492999999999999,22:0.06662000000000001):0.03302000000000002):0.04424,23:0.09897):0.060215,(26:0.009979999999999989,(25:0.006649999999999989,24:0.009310000000000013):0.005319999999999991):0.060214999999999984);'; 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; 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 #4236273086772846051 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 163; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 820 475; setLocation 8 22; 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; 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;