#NEXUS [written Thu Dec 17 14:28:33 EST 2015 by Mesquite version 3.03 (build 702) at ONOTTRA670030D/10.117.218.113] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=29; TAXLABELS Penicillium_charlesii_CBS304.48T_Charlesia_ITS_AF033400 Penicillium_charlesii_CV0646_Charlesia_ITS_JX091417 Penicillium_charlesii_CV0744_Charlesia_ITS_JX091418 Penicillium_charlesii_CV2006_Charlesia_ITS_JX091416 Penicillium_charlesii_CV1754_Charlesia_ITS_JX091414 Penicillium_charlesii_CV1819_Charlesia_ITS_JX091415 Penicillium_fellutanum_CBS229.81T_Charlesia_ITS_AF033399 Penicillium_fellutanum_NRRL35622_Charlesia_ITS_EF200082 Penicillium_fellutanum_NRRL35619_Charlesia_ITS_EF200079 Penicillium_fellutanum_CV1936_Charlesia_ITS_JX091419 Penicillium_fellutanum_ebenbitarianum_CBS415.69T_Charlesia_ITS_KC411759 Penicillium_multicolor_CBS501.73T_Charlesia_ITS_KC790402 Penicillium_coffeae_CBS119387T_Charlesia_ITS_AY742702 Penicillium_phoeniceum_CBS249.32T_Charlesia_ITS_KC411711 Penicillium_indicum_CBS115.63T_Charlesia_ITS_AY742699 Penicillium_indicum_gerundense_CBS179.81T_Charlesia_ITS_EU427291 Penicillium_boreae_CBS111717T_Stolkiae_ITS_AF481122 Penicillium_pullum_CBS331.48T_Stolkiae_ITS_AF033443 Penicillium_canariense_CBS111720T_Stolkiae_ITS_AF481121 Penicillium_stolkiae_CBS315.67T_Stolkiae_ITS_AF033444 Penicillium_donkii_CBS188.72T_Stolkiae_ITS_AF033445 Penicillium_subarcticum_CBS111719T_Stolkiae_ITS_AF481120 Penicillium_cf_canariense_KAS2475T_Stolkiae_ITS_na Penicillium_cf_canariense_KAS2476_Stolkiae_ITS_na Penicillium_cf_canariense_KAS2477B_Stolkiae_ITS_na Penicillium_georgiense_CBS132826T_Charlesia_ITS_EF422852 Penicillium_georgiense_NRRL35507_Charlesia_ITS_EF422850 Penicillium_georgiense_NRRL35508_Charlesia_ITS_EF422851 Penicillium_cf_coffeae_KAS2597T_Charlesia_ITS_na ; END; BEGIN CHARACTERS; TITLE 'Charlesia_ITS'; DIMENSIONS NCHAR=532; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Penicillium_charlesii_CBS304.48T_Charlesia_ITS_AF033400 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_charlesii_CV0646_Charlesia_ITS_JX091417 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_charlesii_CV0744_Charlesia_ITS_JX091418 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_charlesii_CV2006_Charlesia_ITS_JX091416 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC--TTTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_charlesii_CV1754_Charlesia_ITS_JX091414 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC--TTTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_charlesii_CV1819_Charlesia_ITS_JX091415 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GTC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-AACGAACTC---TTGTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCC--CAACC--TTTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_fellutanum_CBS229.81T_Charlesia_ITS_AF033399 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACCTTTTTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_fellutanum_NRRL35622_Charlesia_ITS_EF200082 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_fellutanum_NRRL35619_Charlesia_ITS_EF200079 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACC--TTTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_fellutanum_CV1936_Charlesia_ITS_JX091419 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_fellutanum_ebenbitarianum_CBS415.69T_Charlesia_ITS_KC411759 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACC---TTTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_multicolor_CBS501.73T_Charlesia_ITS_KC790402 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACT-TACCGTGTTGCTTCGGCGGGCCCGCCT---GCC--AGGCCGCCGGGGGGCAACCGCCCCCGGGCCCGCGCCCGCCGAAGACCCC-CACGAACTCT--TTCTACCTTGCAGTCTGAGCGATAAGCATAAATTA-TTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTACTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGCCCCCCC-------GGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGC-CCGTAGGCCCGGCCGGCGCCCGCCGACCCCCTCCAACC----TTTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_coffeae_CBS119387T_Charlesia_ITS_AY742702 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACCGTACCTTGTTGCTTCGGCGGGCCCGCCA---GTC--CGGCCGCCGGGGGGCACCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC--CTGAACGCTGTCTGAAGATTGCAGTCTGAGCGATAAGCACAAATTAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCCCGGCTTG-GTCTTGGGTGCCGTCCCCCC----CGGGGGGACGCGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTCCGCAGGCCCGGCCGGCGCCAGCCGACCCCCCAA--------TCTTTCTTTAGGTTGACCTCGGATCAGGTAGGGA Penicillium_phoeniceum_CBS249.32T_Charlesia_ITS_KC411711 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACCGTACCCTGTTGCTTCGGCGGGCCCGCCG---TTC--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC--CTGAACGCTGTCTGAAGATTGCAGTCTGAGCGATAAGCACAAATTAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCCCGGCTTG-GTCTTGGGTGCCGCCCCCCC-------GGGGGCGCGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTTCGTAGGCCCGGCCGGCGCCAGCCGACCCCCCAA--------TCTTTCTTTAGGTTGACCTCGGATCAGGTAGGGA Penicillium_indicum_CBS115.63T_Charlesia_ITS_AY742699 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACCGTACCTTGTTGCTTCGGCGGGCCCGCCA---GCCT-TGGCCGCCGGGGGGCACCCGCCCCCGGGCCCGCGCCCGCCGAAGACATC-ATCGAACGCTGTCTGAAGATTGCAGTCTGAGCGATAAGCACAAATTAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGTCCCCCC-------GGGGACGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTCTGTCACCCGCTCTGCAGGCCCGGCCGGCGCCAGCCGACCCCATCAACCC---TTCTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_indicum_gerundense_CBS179.81T_Charlesia_ITS_EU427291 TGAGTGCGGGCCCTCTGGGTCCAACCTCCCACCCGTGTATACCGTACCTTGTTGCTTCGGCGGGCCCGCCA---GCCT-TGGCCGCCGGGGGGCACCCGCCCCCGGGCCCGCGCCCGCCGAAGACATC-ATCGAACGCTGTCTGAAGATTGCAGTCTGAGCGATAAGCACAAATTAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCCCGGCTTGTGTGTTGGGCGCCGTCCCCCC-------GGGGACGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTCTGTCACCCGCTCTGCAGGCCCGGCCGGCGCCAGCCGACCCCATCAACCC---TTCTTTTTTCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_boreae_CBS111717T_Stolkiae_ITS_AF481122 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGGCCCGCCT---TTA--TGGCCGCCGGGGGGCATCTGCCCCCGGGTCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_pullum_CBS331.48T_Stolkiae_ITS_AF033443 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGGCCCGCCT---TTA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAAGCCCGGCCGGCGCCCGCCGGCAACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_canariense_CBS111720T_Stolkiae_ITS_AF481121 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGTCCCGCCT---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_stolkiae_CBS315.67T_Stolkiae_ITS_AF033444 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTCTTGTACCTTGTTGCTTCGGTGGGCCCGCCG---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGAGACCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCAACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_donkii_CBS188.72T_Stolkiae_ITS_AF033445 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGCGGGCCCGCCA---TCATGTGGCCGCCGGGGGGCATCTGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_subarcticum_CBS111719T_Stolkiae_ITS_AF481120 CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTCTTGTACCTTGTTGCTTCGGTGGGCCCGCCG---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGCCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_cf_canariense_KAS2475T_Stolkiae_ITS_na CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTCTTGTACCTTGTTGCTTCGGTGGGCCCGCCT---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_cf_canariense_KAS2476_Stolkiae_ITS_na CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTCTTGTACCTTGTTGCTTCGGTGGGCCCGCCT---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_cf_canariense_KAS2477B_Stolkiae_ITS_na CGAGTGAGGGCCCTCTGGGTCCAACCTCCCACCCGTGTCTCTTGTACCTTGTTGCTTCGGTGGGCCCGCCT---TCA--TGGCCGCCGGGGGGCATCCGCCCCCGGGCCCGCGCCCGCCGAAGACACC-CCTGAACGCTGTCTGAAGATTGCAGTCTGAGCAGATTAGCTAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCTGCCCTCAAGCACGGCTTGTGTGTTGGGCCCCCGCCCCCCGGTCTCGGGGGGCGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTCGTCACCCGCTCTGTAGGCCCGGCCGGCGCCCGCCGGCGACCCCAATCA-----ATCTATCCAGGTTGACCTCGGATCAGGTAGGGA Penicillium_georgiense_CBS132826T_Charlesia_ITS_EF422852 TGAGTGCAGGCCCTCTGGGTCTAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGGCCCGCCTGACGCC--AGGCCGCCGGGGGGCAC---TCCCCGGGCGCGCGCCCGCCGAAGACACC-CTGGAACTCTGTCTG-TGAGTGTTGTCTGAGTGG--GATTGTAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCACCCCTCAAGCCCGGCTTGT-CCTTGGGTTGTGTCCCTCCGTTCCGGGGGGACAGGCCTCAAATGCAATGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTTTGTAGGCCGGCCGGTCGCTTGCC-----CGTCAAGCA----CAACTTCTTATGTTGACCTCGGATCAGGTAGGGA Penicillium_georgiense_NRRL35507_Charlesia_ITS_EF422850 TGAGTGCAGGCCCTCTGGGTCTAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGGCCCGCCTGACGCC--AGGCCGCCGGGGGGCAC---TCCCCGGGCGCGCGCCCGCCGAAGACACC-CTGGAACTCTGTCTG-TGAGTGTTGTCTGAGTGG--GATTGTAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCACCCCTCAAGCCCGGCTTGT-CCTTGGGTTGTGTCCCTCCGTTCCGGGGGGACAGGCCTCAAATGCAATGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTTTGTAGGCCGGCCGGTCGCTTGCC-----CGTCAAGCA----CAACTTCTTATGTTGACCTCGGATCAGGTAGGGA Penicillium_georgiense_NRRL35508_Charlesia_ITS_EF422851 TGAGTGCAGGCCCTCTGGGTCTAACCTCCCACCCGTGTCTATTGTACCTTGTTGCTTCGGTGGGCCCGCCTGACGCC--AGGCCGCCGGGGGGCAC---TCCCCGGGCGCGCGCCCGCCGAAGACACC-CTGGAACTCTGTCTG-TGAGTGTTGTCTGAGTGG--GATTGTAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTGCACCCCTCAAGCCCGGCTTGT-CCTTGGGTTGTGTCCCTCCGTTCCGGGGGGACAGGCCTCAAATGCAATGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACCCGCTTTGTAGGCCGGCCGGTCGCTTGCC-----CGTCAAGCA----CAACTTCTTATGTTGACCTCGGATCAGGTAGGGA Penicillium_cf_coffeae_KAS2597T_Charlesia_ITS_na CGAGTGAGGGCCCTCCGGGTCCAACCTCCCACCCGTGTTTAACGAACCTGGTTGCTTCGGCGGGCCTGCCG---TCC--AGGCTGTCCGGGGGCTCACGCCCCCGGGCCCGCGCCCGCCGGAGACCCCAATCGAACGCTGTCTGAAGTATGCAGTCTGAGCTTTTAAGCAAAATCAGTTAAAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAACTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCTTGGTATTCCGGGGGGCATGCCTGTCCGAGCGTCATTTCTGCCCTCCAGCCCGGCTGGTGTTTGGGCCCCCGTCCCCCC-------GGGGACGGGCCCGAAAGGCAGCGGCGGCACCGCGTCCGGTCCTCGAGCGTATGGGGCTTTGTCACTCGCTCTGTAGGCCCGGCCGGCGCCTGCC----TCGTCAACCA----TTCTTTCTCAGGTTGACCTCGGATCAGGTAGGGA ; END; BEGIN PAUP; LOG start = yes append = yes; set autoclose = yes warnreset = no torder = right; SET CRITERION = parsimony maxtrees = 1000 increase = no storebrlens = yes outroot = monophyl; Pset gapmode = missing; HSEARCH ADDSEQ = random NREPS = 100 SWAP = TBR; Savetrees format = nexus brlens = yes maxdecimals = 0 file = Charlesia_MP_ITS_parsimony.trees; PSCORES 1 / TL = yes CI = yes RI = yes RC = yes HI = yes; Contree ALL / strict = yes treefile = Charlesia_MP_ITS_parsimonycons.tre; Bootstrap nreps = 1000 search = heuristic; Savetrees from = 1 to = 1 format = nexus brlens = yes savebootp = nodelabels maxdecimals = 0 file = Charlesia_MP_ITS_heuristicBS.tre; Log stop = yes; END; begin mrbayes; log start; Lset nst = 6 rates = invgamma; Prset statefreqpr = dirichlet ( 1 , 1 , 1 , 1 ); mcmcp nruns = 2 nchains = 4 stoprule = yes stopval = 0.01 ngen = 100000000 Filename = Charlesia_BI_ITS; mcmc; sump; sumt burninfrac = 0.25 conformat = simple; log stop; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED (CHARACTERS = 'Charlesia_ITS') = unord: 1 - 532; END; BEGIN CODONS; CODESET * UNTITLED (CHARACTERS = 'Charlesia_ITS') = universal: 1 - 532; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED (CHARACTERS = 'Charlesia_ITS') = 'Jukes-Cantor': 1 - 532; END; BEGIN TREES; Title 'Charlesia_BI_ITS'; LINK Taxa = Taxa; TRANSLATE [0] 1 Penicillium_charlesii_CBS304.48T_Charlesia_ITS_AF033400, [1] 2 Penicillium_charlesii_CV0646_Charlesia_ITS_JX091417, [2] 3 Penicillium_charlesii_CV0744_Charlesia_ITS_JX091418, [3] 4 Penicillium_charlesii_CV2006_Charlesia_ITS_JX091416, [4] 5 Penicillium_charlesii_CV1754_Charlesia_ITS_JX091414, [5] 6 Penicillium_charlesii_CV1819_Charlesia_ITS_JX091415, [6] 7 Penicillium_fellutanum_CBS229.81T_Charlesia_ITS_AF033399, [7] 8 Penicillium_fellutanum_NRRL35622_Charlesia_ITS_EF200082, [8] 9 Penicillium_fellutanum_NRRL35619_Charlesia_ITS_EF200079, [9] 10 Penicillium_fellutanum_CV1936_Charlesia_ITS_JX091419, [10] 11 Penicillium_fellutanum_ebenbitarianum_CBS415.69T_Charlesia_ITS_KC411759, [11] 12 Penicillium_multicolor_CBS501.73T_Charlesia_ITS_KC790402, [12] 13 Penicillium_coffeae_CBS119387T_Charlesia_ITS_AY742702, [13] 14 Penicillium_phoeniceum_CBS249.32T_Charlesia_ITS_KC411711, [14] 15 Penicillium_indicum_CBS115.63T_Charlesia_ITS_AY742699, [15] 16 Penicillium_indicum_gerundense_CBS179.81T_Charlesia_ITS_EU427291, [16] 17 Penicillium_boreae_CBS111717T_Stolkiae_ITS_AF481122, [17] 18 Penicillium_pullum_CBS331.48T_Stolkiae_ITS_AF033443, [18] 19 Penicillium_canariense_CBS111720T_Stolkiae_ITS_AF481121, [19] 20 Penicillium_stolkiae_CBS315.67T_Stolkiae_ITS_AF033444, [20] 21 Penicillium_donkii_CBS188.72T_Stolkiae_ITS_AF033445, [21] 22 Penicillium_subarcticum_CBS111719T_Stolkiae_ITS_AF481120, [22] 23 Penicillium_cf_canariense_KAS2475T_Stolkiae_ITS_na, [23] 24 Penicillium_cf_canariense_KAS2476_Stolkiae_ITS_na, [24] 25 Penicillium_cf_canariense_KAS2477B_Stolkiae_ITS_na, [25] 26 Penicillium_georgiense_CBS132826T_Charlesia_ITS_EF422852, [26] 27 Penicillium_georgiense_NRRL35507_Charlesia_ITS_EF422850, [27] 28 Penicillium_georgiense_NRRL35508_Charlesia_ITS_EF422851, [28] 29 Penicillium_cf_coffeae_KAS2597T_Charlesia_ITS_na; TREE Charlesia_BI_ITS1 = (1:0.002244694,2:0.002352696,3:0.00221072,4:0.002235964,5:0.002226283,6:0.002228916,((13:0.005065012,14:0.0316438)0.997:0.04096707,(15:0.002276757,16:0.002181217)0.977:0.01793921,(((17:0.0069919,18:0.01051476,(19:0.006244221,((20:0.02119807,22:0.004737586)0.583:0.00684035,23:0.002082523,24:0.00201151,25:0.002229737)0.707:0.007662871)0.516:0.006335265,21:0.006928986)1.000:0.1102671,29:0.2152161)0.604:0.03618472,(26:0.002025472,27:0.002009716,28:0.001998261)1.000:0.3518323)0.976:0.06929721)1.000:0.09007771,(7:0.002062235,8:0.002039896,9:0.002210876,10:0.002122056,11:0.002028629,12:0.002078663)0.997:0.01153946); TREE Charlesia_BI_ITS2 = (1:0.002244694,2:0.002352696,3:0.00221072,4:0.002235964,5:0.002226283,6:0.002228916,((13:0.005065012,14:0.0316438):0.04096707,(15:0.002276757,16:0.002181217):0.01793921,(((17:0.0069919,18:0.01051476,(19:0.006244221,((20:0.02119807,22:0.004737586):0.00684035,23:0.002082523,24:0.00201151,25:0.002229737):0.007662871):0.006335265,21:0.006928986):0.1102671,29:0.2152161):0.03618472,(26:0.002025472,27:0.002009716,28:0.001998261):0.3518323):0.06929721):0.09007771,(7:0.002062235,8:0.002039896,9:0.002210876,10:0.002122056,11:0.002028629,12:0.002078663):0.01153946); END; BEGIN TREES; Title 'Charlesia_MP_ITS'; LINK Taxa = Taxa; TRANSLATE [0] 1 Penicillium_charlesii_CBS304.48T_Charlesia_ITS_AF033400, [1] 2 Penicillium_charlesii_CV0646_Charlesia_ITS_JX091417, [2] 3 Penicillium_charlesii_CV0744_Charlesia_ITS_JX091418, [3] 4 Penicillium_charlesii_CV2006_Charlesia_ITS_JX091416, [4] 5 Penicillium_charlesii_CV1754_Charlesia_ITS_JX091414, [5] 6 Penicillium_charlesii_CV1819_Charlesia_ITS_JX091415, [6] 7 Penicillium_fellutanum_CBS229.81T_Charlesia_ITS_AF033399, [7] 8 Penicillium_fellutanum_NRRL35622_Charlesia_ITS_EF200082, [8] 9 Penicillium_fellutanum_NRRL35619_Charlesia_ITS_EF200079, [9] 10 Penicillium_fellutanum_CV1936_Charlesia_ITS_JX091419, [10] 11 Penicillium_fellutanum_ebenbitarianum_CBS415.69T_Charlesia_ITS_KC411759, [11] 12 Penicillium_multicolor_CBS501.73T_Charlesia_ITS_KC790402, [12] 13 Penicillium_coffeae_CBS119387T_Charlesia_ITS_AY742702, [13] 14 Penicillium_phoeniceum_CBS249.32T_Charlesia_ITS_KC411711, [14] 15 Penicillium_indicum_CBS115.63T_Charlesia_ITS_AY742699, [15] 16 Penicillium_indicum_gerundense_CBS179.81T_Charlesia_ITS_EU427291, [16] 17 Penicillium_boreae_CBS111717T_Stolkiae_ITS_AF481122, [17] 18 Penicillium_pullum_CBS331.48T_Stolkiae_ITS_AF033443, [18] 19 Penicillium_canariense_CBS111720T_Stolkiae_ITS_AF481121, [19] 20 Penicillium_stolkiae_CBS315.67T_Stolkiae_ITS_AF033444, [20] 21 Penicillium_donkii_CBS188.72T_Stolkiae_ITS_AF033445, [21] 22 Penicillium_subarcticum_CBS111719T_Stolkiae_ITS_AF481120, [22] 23 Penicillium_cf_canariense_KAS2475T_Stolkiae_ITS_na, [23] 24 Penicillium_cf_canariense_KAS2476_Stolkiae_ITS_na, [24] 25 Penicillium_cf_canariense_KAS2477B_Stolkiae_ITS_na, [25] 26 Penicillium_georgiense_CBS132826T_Charlesia_ITS_EF422852, [26] 27 Penicillium_georgiense_NRRL35507_Charlesia_ITS_EF422850, [27] 28 Penicillium_georgiense_NRRL35508_Charlesia_ITS_EF422851, [28] 29 Penicillium_cf_coffeae_KAS2597T_Charlesia_ITS_na; TREE Charlesia_MP_ITS_PAUP_1 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:2,18:3):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):0.0,21:3):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_2 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,18:3):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1,21:3):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_3 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:1,18:4):1,21:2):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_4 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:1,21:3):1,18:3):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_5 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):1,(((13:1,14:8):11,(15:0.0,16:0.0):3):7,(((((17:2,18:3):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):1,21:2):18,29:34):6,(26:0.0,27:0.0,28:0.0):44):17):17):2):0.0); TREE Charlesia_MP_ITS_PAUP_6 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:3,(19:2,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):1):1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_7 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):1,(((13:1,14:8):10,(15:0.0,16:0.0):4):7,((((17:2,18:3):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):1,21:2):16,((26:0.0,27:0.0,28:0.0):44,29:30):12):17):17):2):0.0); TREE Charlesia_MP_ITS_PAUP_8 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:2,21:2):1,(19:1,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1):1,18:3):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_9 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,((18:4,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):1):1,19:1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_10 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,((((18:4,20:4):2,22:1):1,23:0.0,24:0.0,25:0.0):2,19:1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_11 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:3,((20:6,22:0.0):2,23:0.0,24:0.0,25:0.0):2):1,19:2):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_12 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:3,((20:6,22:0.0):2,(23:0.0,24:0.0,25:0.0):0.0):2):1,19:2):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_13 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:2,(20:4,(22:1,(23:0.0,24:0.0,25:0.0):1):2):2):2,19:2):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_14 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:2,20:6):2,(19:1,(22:2,23:0.0,24:0.0,25:0.0):2):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_15 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,((18:4,((20:6,22:0.0):2,(23:0.0,24:0.0,25:0.0):0.0):1):1,19:1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_16 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,((18:2,20:6):1,(19:2,(22:2,23:0.0,24:0.0,25:0.0):1):1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_17 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:2,21:2):1,19:2):1,(18:2,(20:4,(22:1,(23:0.0,24:0.0,25:0.0):1):2):2):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_18 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:2,21:2):1,(19:1,(22:2,23:0.0,24:0.0,25:0.0):2):1):1,(18:2,20:6):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_19 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((((17:2,21:2):1,(19:1,(22:2,23:0.0,24:0.0,25:0.0):2):1):2,18:2):2,20:4):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_20 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(18:2,(20:5,(22:2,23:0.0,24:0.0,25:0.0):2):1):2,19:2):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_21 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(((18:3,20:5):2,(22:2,23:0.0,24:0.0,25:0.0):0.0):2,19:1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_22 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,(((18:3,20:5):2,22:2,23:0.0,24:0.0,25:0.0):2,19:1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_23 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,((((17:2,21:2):1,((18:3,20:5):1,(22:2,23:0.0,24:0.0,25:0.0):1):2,19:2):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_24 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((17:2,21:2):1,19:2):1,(18:2,(20:5,(22:2,23:0.0,24:0.0,25:0.0):2):1):1):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); TREE Charlesia_MP_ITS_PAUP_25 = (1:0.0,(2:0.0,3:0.0,4:0.0,5:0.0,6:0.0,((7:0.0,8:0.0,9:0.0,10:0.0,11:0.0,12:0.0):2,(((13:1,14:8):11,(15:0.0,16:0.0):3):5,(((((((17:2,21:2):2,19:1):1,(22:2,23:0.0,24:0.0,25:0.0):1):2,18:2):2,20:4):20,(26:0.0,27:0.0,28:0.0):42):11,29:29):19):17):1):0.0); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1450380513451; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 8531050833059804419; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3428758113856356731; mqVersion 303; checksumv 0 3 1458087048 null getNumChars 532 numChars 532 getNumTaxa 29 numTaxa 29 short true bits 15 states 15 sumSquaresStatesOnly 289222.0 sumSquares 289222.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 241; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 700 464; setLocation 552 425; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #3428758113856356731 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 459 392; setLocation 552 425; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; 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;