#NEXUS [written Fri May 19 13:49:38 MST 2017 by Mesquite version 3.2 (build 801) at Shannons-iMac.local/192.168.104.136] BEGIN TAXA; TITLE Encelia_farinosa_ITS_haplotypes; DIMENSIONS NTAX=22; TAXLABELS Encelia_farinosa_hap1 Encelia_farinosa_hap13 Encelia_farinosa_hap14 Encelia_farinosa_hap16 Encelia_farinosa_hap17 Encelia_farinosa_hap18 Encelia_farinosa_hap20 Encelia_farinosa_hap21 Encelia_farinosa_hap22 Encelia_farinosa_hap27 Encelia_farinosa_hap28 Encelia_farinosa_hap29 Encelia_farinosa_hap3 Encelia_farinosa_hap30 Encelia_farinosa_hap31 Encelia_farinosa_hap32 Encelia_farinosa_hap34 Encelia_farinosa_hap35 Encelia_farinosa_hap4 Encelia_farinosa_hap5 Encelia_farinosa_hap7 Encelia_farinosa_hap8 ; END; BEGIN CHARACTERS; TITLE Encelia_farinosa_ITS_haplotype_alignment; DIMENSIONS NCHAR=704; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Encelia_farinosa_hap1 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap13 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCGCTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap14 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCGCTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap16 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap17 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap18 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTGGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap20 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCGCTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap21 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCAACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap22 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCAACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGAGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap27 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap28 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap29 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACACGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap3 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGAGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap30 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTGGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap31 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGGCCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap32 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGGCCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap34 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCGCTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap35 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATTGCAAGACAACGCGACAGGGTGTTCAAGAGCATATGCGCTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAATACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGAGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCACCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap4 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACACGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap5 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACAGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCATGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap7 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGCAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG Encelia_farinosa_hap8 CTTAAACTCAGCGGGTAGTCCCGCCTGACCTGGGGTCGCGATCGAAGCATCATCGCAAGACAACGCGACAGGGTGTTCAAGAGCATCTGCACTCAAGAATGAAAACGCACGACACGAGACGACTGTCTTATCAACCACCACTAGCCGTGCGTCCCTCCTGAGGAGACTCCTATTTAGGCCAACCGCACCGTAGGCACGGGAGACCAATCTCCGCCCCGACCCAAGACATCCCCGAAAGTGATGGTTGGGAGGGGCGACGTGATGCGTGACGCCCAGGCAGACGTGCCCTCAGCCGGATGGCTTCGGGCGCAACTTGCGTTCAAAAACTCGATGGTTCACGGGATTCTGCAATTCACACCAAGTATCGCATTTTGCTACGTTCTTCATCGATGCGTGAGCCGAGATATCCGTTGCCGAGAGTCGTTTTAGGTTTACAAAGAGGTCACGTACTACGCGCACACCGTAAACGGGGCGGGATAGCACGGGGCCTTTAAGTTGAGTTTTCCTTGGCACGTGTCGTGCCGGGGGTTTGTTAGTGTGTCAACGACATCCATGCTGCGCCACATGTGTGGGGCAAACATGAACACACGTCAACGATGCCTCACGAGGATCATAACAAAAGCTTTGTTCCCCGCAAGGCTAGCTGTTTTTACTTGTTCACGGGTCGTTCTGCTGTGCAGGTTTCGACAATGATCCTTCCGCAG ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 704; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 704; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 704; END; BEGIN TREES; Title 'Trees from BEAST analysis Coalescent constant size rate 1.72x10-9'; ID 015c0247c8cd1; LINK Taxa = Encelia_farinosa_ITS_haplotypes; TRANSLATE [0] 1 Encelia_farinosa_hap1, [1] 2 Encelia_farinosa_hap13, [2] 3 Encelia_farinosa_hap14, [3] 4 Encelia_farinosa_hap16, [4] 5 Encelia_farinosa_hap17, [5] 6 Encelia_farinosa_hap18, [6] 7 Encelia_farinosa_hap20, [7] 8 Encelia_farinosa_hap21, [8] 9 Encelia_farinosa_hap22, [9] 10 Encelia_farinosa_hap27, [10] 11 Encelia_farinosa_hap28, [11] 12 Encelia_farinosa_hap29, [12] 13 Encelia_farinosa_hap3, [13] 14 Encelia_farinosa_hap30, [14] 15 Encelia_farinosa_hap31, [15] 16 Encelia_farinosa_hap32, [16] 17 Encelia_farinosa_hap34, [17] 18 Encelia_farinosa_hap35, [18] 19 Encelia_farinosa_hap4, [19] 20 Encelia_farinosa_hap5, [20] 21 Encelia_farinosa_hap7, [21] 22 Encelia_farinosa_hap8; TREE TREE1 = ((((((1:2.48440845602E5,19:2.48440845597E5):1.59440722466E5,20:4.07881568026E5):3.77689743124E5,((8:1.98590381065E5,9:1.98590381038E5):2.13540130063E5,13:4.12130511133E5):3.73440800045E5):3.04511364594E5,21:1.090082675617E6):6.28626802174E5,((2:2.32302758126E5,3:2.32302758126E5):3.67104574454E5,22:5.99407332533E5):1.119302145423E6):1.804557359017E6,((4:4.14903613984E5,6:4.14903613896E5):1.433744594053E6,((5:8.37227902082E5,((7:3.52769214897E5,(17:1.97701672717E5,18:1.97701672708E5):1.55067542396E5):3.16289039594E5,(11:3.06593270313E5,16:3.06593270338E5):3.62464984367E5):1.68169647499E5):4.37139201102E5,(((10:2.88875243401E5,12:2.88875243365E5):1.83497871466E5,15:4.72373114806E5):1.50673140688E5,14:6.2304625554E5):6.5132084797E5):5.7428110473E5):1.674618628958E6); END; BEGIN TREES; Title 'Trees from BEAST analysis Coalescent constant size rate 8.34x10-9'; ID 015c02481e682; LINK Taxa = Encelia_farinosa_ITS_haplotypes; TRANSLATE [0] 1 Encelia_farinosa_hap1, [1] 2 Encelia_farinosa_hap13, [2] 3 Encelia_farinosa_hap14, [3] 4 Encelia_farinosa_hap16, [4] 5 Encelia_farinosa_hap17, [5] 6 Encelia_farinosa_hap18, [6] 7 Encelia_farinosa_hap20, [7] 8 Encelia_farinosa_hap21, [8] 9 Encelia_farinosa_hap22, [9] 10 Encelia_farinosa_hap27, [10] 11 Encelia_farinosa_hap28, [11] 12 Encelia_farinosa_hap29, [12] 13 Encelia_farinosa_hap3, [13] 14 Encelia_farinosa_hap30, [14] 15 Encelia_farinosa_hap31, [15] 16 Encelia_farinosa_hap32, [16] 17 Encelia_farinosa_hap34, [17] 18 Encelia_farinosa_hap35, [18] 19 Encelia_farinosa_hap4, [19] 20 Encelia_farinosa_hap5, [20] 21 Encelia_farinosa_hap7, [21] 22 Encelia_farinosa_hap8; TREE TREE1 = ((((((1:5.166520481E4,20:5.1665204805E4):3.2514224685E4,19:8.4179429522E4):7.7272181313E4,((8:4.0633910181E4,9:4.0633910161E4):4.5227795006E4,13:8.5861705139E4):7.5589905651E4):6.2780177242E4,21:2.24231788077E5):1.2932228816E5,((2:4.7790125919E4,3:4.7790125916E4):7.5640940957E4,22:1.23431066842E5):2.30123009352E5):3.72306026636E5,(((4:8.5139943416E4,6:8.5139943428E4):1.09633459521E5,(((10:5.9958212681E4,12:5.9958212696E4):3.8409641454E4,15:9.8367854148E4):2.9661468008E4,14:1.28029322192E5):6.6744080737E4):1.85491298046E5,((5:7.077405897E4,7:7.0774058973E4):1.01250842645E5,((11:6.2528540479E4,16:6.2528540493E4):5.3947360344E4,(17:4.0653722694E4,18:4.0653722694E4):7.5822178142E4):5.5549000799E4):2.08239799343E5):3.45595401907E5); END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1495226978435; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 2112300391738153810; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 4371832368785525725; mqVersion 320; checksumv 0 3 399087328 null getNumChars 704 numChars 704 getNumTaxa 22 numTaxa 22 short true bits 15 states 15 sumSquaresStatesOnly 307655.0 sumSquares 307655.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 434; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1356 641; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #2112300391738153810 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #2112300391738153810; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 922 569; setLocation 8 23; 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.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #2112300391738153810 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; setTreeBlockID 015c0247c8cd1; toggleUseWeights off; endTell; setAssignedID 979.1494687232886.1286768879840954766; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 922 569; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; showWindow; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleCentred off; toggleHorizontal on; toggleWhiteEdges on; toggleShowOnTerminals 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; toggleShowOnTerminals on; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; makeTreeWindow #2112300391738153810 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 2; setTreeBlockID 015c02481e682; toggleUseWeights off; endTell; setAssignedID 1009.1494687285412.3123992513601124912; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 922 569; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition off; toggleColorAssigned on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; togglePrintName on; showWindow; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleCentred off; toggleHorizontal on; toggleWhiteEdges on; toggleShowOnTerminals 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; toggleShowOnTerminals on; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #4371832368785525725 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 922 569; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; 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;