#NEXUS [written Sat Jun 09 17:18:05 JST 2012 by Mesquite version 2.75 (build 564) at Fujitsu/10.27.24.213] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=37; TAXLABELS seq01 seq02 seq03 seq04 seq05 seq06 seq07 seq08 seq09 seq10 seq11 seq12 seq13 seq14 seq15 seq16 seq17 seq18 seq19 seq20 seq21 seq22 seqK1 seqK2 seqR1 seqR2 seqR3 seqY seqH seqM1 seqM2 seqD1 seqD2 seqD3 seqD4 seqD5 OUTGR ; END; BEGIN CHARACTERS; TITLE dna; DIMENSIONS NCHAR=537; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX seq01 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATACAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq02 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAGAAGGC---ATATTTTTACATACAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq03 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq04 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGCTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAA------TTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq05 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACTTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq06 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAACTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACTTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq07 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATTATCTGTAATTAGGTGGCACCAACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAAGTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq08 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATTATCTGTAATTAGGTGGCACCAACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq09 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTATCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCAACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq10 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq11 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCCGGGGCTTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq12 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTA------GGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAGCGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCGTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq13 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACTTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq14 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAACGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTATGAATTTGGATTTTTACTACAGGTCCGCA seq15 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAACGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTATGAATTTGGATTTTTACTACAGGTCCGCA seq16 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATATGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAACGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTATGAATTTGGATTTTTACTACAGGTCCGCA seq17 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATATGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAACGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGACAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTAAGAAGCAAAAGTTGTGTTATGAATTTGGATTTTTACTACAGGTCCGCA seq18 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTTAGACAA---------------------------------GACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAACTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACATGGCAAGAGCAAAAAAGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATGAACGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTGTGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGGTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq19 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATACAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGT---------TTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq20 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATATGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGAAGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATACAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq21 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGGATT--------------------------------------------GTGTATATTTAAAAGCAATTTGTTGAACAAAACGTTCAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACGGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCCACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTACGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seq22 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTTAAAAGCAATATGCTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACCGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqK1 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATAGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGTGACCAAGACAGAATTGTAAGTACTGGGAGGAAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACATTCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACGTGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTGCACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqK2 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGTGACCAAGACAGAATTGTAAGTACTGGGAGGAAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACATTCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACGTGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqR1 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTGTGTATATTCAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGGCCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATGTTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGACGTCATTGAAAAGAGCCGTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqR2 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTGTGTATATTCAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGGCCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---TTGTTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGACGTCATTGAAAAGAGCCGTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqR3 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTCCTGGTCCTTTATCACCTCAATTAACTCTAGGCTATGGTGTATTGTGTATATTCAAAAGCAATATGTTGAACAAAACGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGGCCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATGTTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCGTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqY TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACAAATGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATATGTGGCAAGAGCAAAAAGGGCAAATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATCTCATTGAAAAGAGCCTTATGGCAACGCAAGAAATACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTCTGTTACGAGTTTGGATTTTTACTACAGGTCCGCA seqH TATGATGAAATAAAGGCAGCCGTCAAGTAAGCAAGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------CTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACAAAGGTCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAGGGGCAAATATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATCTCATTGAAAAGAGCCTTATGGCAACGCAAGAAATACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTCTGTTACGAGTTTGGATTTTTACTACAGGTCCGCA seqM1 TATGATGAAATAAAGGCAGCCGTCAAGTAAGTCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCAAAAGCAATATGTTGAACAAAATGTTTAGATCAATATCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTTGCTGAGTGCTGCTAGGAGCAGGGGATTACAGGCCTCCACCTGCAGCTAGCTAAATAATTAGCAAGAGCCGAAAGGC---ATACTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACTCAAGAACTACACATTTCTGTGACTTCTCCAAGGACTTAGCAGTTAATTCTTATCATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqM2 TATGATGAAATAAAGGCAGCCGTCAAGTAAGTCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCAAAAGCAATATGTTGAACAAAATGTTTAGATCAATATCTCATTACAGTTCTCACATTGGGGACCAAGACAGAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTTGCTGAGTGCTGCTAGGAGCAGGGGATTACAGGCCTCCACCTGCAGCTAGCTAAATAATTAGCAAGAGCCGAAAGGC---ATACTTTTACATGCAAAAATGTTAGATGGCAGAACCTCATAAATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACTCAAGAACTACACATTTCTGTGACTTCTCCAAGGACTTAGCAGTTAATTCTTATCATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqD1 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTATATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACA--------------------------------------GAATTGTAGGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGACCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTAAAATGGCAGAACCTCATATATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTGTCCAATTACTTAACAGTTAATTCTTATCATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqD2 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACA--------------------------------------GAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGACCTCCACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTAAAATGGCAGAACCTCATATATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTGTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqD3 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAACATGTTTAGACA--------------------------------------GAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCGACCTGCAGCTTGCTAAATACGTGGCAAGAGCAAAAAGGC---ATATTTTTACATGCAAAAATGTAAAATGGCAGAACCTCATATATGATCTGTAATTAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTATGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAGTTCTTATTATGAAGCAAAAGTTGTGTTACAAATTTGGATTTTTACTACAGGTCCGCA seqD4 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACA--------------------------------------GAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCACGGCATTACTGG-----ACCTGTAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---GTATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATATATGATCTGTAATGAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTCTGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA seqD5 TATGATGAAATAAAGGCAGCCGTCAAGTAAGCCTGGTTCTTTATCGCCTCAATCAACTCTAGGCTATGGTGTATT--------------------------------------------GTGTATATTCGAAAGCAATATGTTGAACAAAATGTTTAGACA--------------------------------------GAATTGTAAGTACTGGGAGGGAGGGATCACAGACCTAGCTGAGTGCTGCTAGGAGCACGGCATTACTGG-----ACCTGCAGCTAGCTAAATACGTGGCAAGAGCAAAAAGGC---GTATTTTTACATGCAAAAATGTTAAATGGCAGAACCTCATATATGATCTGTAATGAGGTGGCACTGACTTGCTCTTCTTCTGAAGCAATGATGTCATTGAAAAGAGCCTTCTGGCAACGCAAGAACTACACATTGCTGTGACTTCTCCAATTACTTAACAGTTAATTCTTATTATGAAGCAAAAGTTGTGTTACGAATTTGGATTTTTACTACAGGTCCGCA OUTGR TATGATGAAATAAAGGCAGCTGTCAAGTAAGTCTGTTTCTTTATCGCCTCAATCAACTCTAGCCTATTGTGTATT--------------------------------------------GTGTATATGCAAAAGCAATATGTTGAACGAAATGTTTAGACAGATGTCTCATTACAGTTCTCACATCGGGGACTAAGACAGAAT-GTAAGTACT----GGGAGGGATGAAAGACCTAGCTAAGTGCTGCTAGGAGCAGGGGATTACTGGCCTCCACCTGGAG------------------------------------------ACATGCAAAAATGTTAAATGGCAGGATCTCATATACAATCTGTAATTAGGTGGCAATGACTTGCTCTTCTTCTAAAGCAACAATGTCATTGAAAAGAGCCTTATGGCAACACGAGAGCGATATATGGCTGTGACTTCTCCAATTACGTA-CAGTTATTTCTTATTATGGAGCAAAAGTTGTGTT-CGAATTTGAATTTTTACTACAGGTCTGCG ; END; BEGIN CHARACTERS; TITLE indels; DIMENSIONS NCHAR=13; FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6 7 8 9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z"; MATRIX seq01 1000000010000 seq02 1000000010000 seq03 1000000010000 seq04 1000000010100 seq05 1000000010000 seq06 1000000010000 seq07 10001?0010000 seq08 10001?0010000 seq09 10001?0010000 seq10 10001?0010000 seq11 10001?0010000 seq12 10001?0010000 seq13 1000000010000 seq14 1000000010000 seq15 1000000010000 seq16 1000000010000 seq17 1000000010000 seq18 1010000010000 seq19 1000000011000 seq20 1000000010000 seq21 1000000010000 seq22 1000000010000 seqK1 1000000010000 seqK2 1000000010000 seqR1 0000000010000 seqR2 0000000010000 seqR3 0000000010000 seqY 1000000000000 seqH 1000000000000 seqM1 1000000010000 seqM2 1000000010000 seqD1 11?0000010000 seqD2 11?0000010000 seqD3 11?0000010000 seqD4 11?0001010000 seqD5 11?0001010000 OUTGR 10010101?0011 ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED (CHARACTERS = dna) = unord: 1 - 537; TYPESET * UNTITLED (CHARACTERS = indels) = unord: 1 - 13; END; BEGIN TREES; Title 'Trees from "NR.trees"'; LINK Taxa = Taxa; TRANSLATE 1 seq01, 2 seq02, 3 seq03, 4 seq04, 5 seq05, 6 seq06, 7 seq07, 8 seq08, 9 seq09, 10 seq10, 11 seq11, 12 seq12, 13 seq13, 14 seq14, 15 seq15, 16 seq16, 17 seq17, 18 seq18, 19 seq19, 20 seq20, 21 seq21, 22 seq22, 23 seqK1, 24 seqK2, 25 seqR1, 26 seqR2, 27 seqR3, 28 seqY, 29 seqH, 30 seqM1, 31 seqM2, 32 seqD1, 33 seqD2, 34 seqD3, 35 seqD4, 36 seqD5, 37 OUTGR; TREE PAUP_1 = (37,((30,31),(((23,24),(28,29),((35,36),(34,(32,33)))),((27,(25,26)),(18,22,(14,15,(16,17)),(13,(10,11,12,(9,(7,8)))),((5,6),(3,4,21,(1,2,19,20))))))))[% ] [% ] [% setBetweenBits = selected ]; END; BEGIN CODONS; CODESET * UNTITLED (CHARACTERS = dna) = universal: 1 - 537; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED (CHARACTERS = dna) = 'Jukes-Cantor': 1 - 537; ProbModelSet * UNTITLED (CHARACTERS = indels) = 'Mk1 (est.)': 1 - 13; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1339229885498; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 677160937710675485; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 1740631331569514014; mqVersion 275; checksumv 0 3 4018656020 null getNumChars 537 numChars 537 getNumTaxa 37 numTaxa 37 short true bits 15 states 15 sumSquaresStatesOnly 406960.0 sumSquares 406960.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 2 errorReportedDuringRun; mqVersion; setID 1 4306413396305027318; mqVersion 275; checksumv 1 3 323178859 null getNumChars 13 numChars 13 getNumTaxa 37 numTaxa 37 short false bits 3 states 3 sumSquaresStatesOnly 736.0 sumSquares 736.0 longCompressibleToShort true usingShortMatrix false NumFiles 1 NumMatrices 2 errorReportedDuringRun; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 254; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1024 650; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #677160937710675485 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #677160937710675485; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; 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.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 770 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #677160937710675485 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 2041.1339229859353.5444901976772784735; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.reroot; 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; 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 #4306413396305027318 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.NoColor.NoColor; 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 on; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames on; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; 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.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell; endTell; showDataWindow #1740631331569514014 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; setLocation -8 -8; 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; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; showCharacters #1740631331569514014 #mesquite.lists.CharacterList.CharacterList; tell It; setData 0; getWindow; tell It; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.stochchar.CharListProbModels.CharListProbModels; newAssistant #mesquite.lists.CharListCodonPos.CharListCodonPos; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; showCharacters #4306413396305027318 #mesquite.lists.CharacterList.CharacterList; tell It; setData 1; getWindow; tell It; newAssistant #mesquite.lists.DefaultCharOrder.DefaultCharOrder; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.lists.CharListPartition.CharListPartition; newAssistant #mesquite.stochchar.CharListProbModels.CharListProbModels; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 770 583; setLocation -8 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;