#NEXUS [written Thu Mar 06 10:34:26 CST 2014 by Mesquite version 2.75 (build 564) at 144-236.mccollum.uni.edu/134.161.144.236] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=13; TAXLABELS Orthogeomys_hispidus_LSUMZ36767 Orthogeomys_lanius_CNMA46463 Orthogeomys_lanius_CNMA46483 Geomys_breviceps_LSUMZ29336 Thomomys_bulbivorus_TSD535 Orthogeomys_dariensis_LSUMZ25434 Orthogeomys_heterodus_LSUMZ29261 Orthogeomys_grandis_LSUMZ34392 Orthogeomys_hispidus_LSUMZ36090 Orthogeomys_hispidus_CNMA41025 Orthogeomys_hispidus_LSUMZ36761 Orthogeomys_grandis_CMNH112150 Orthogeomys_hispidus_CMNH112140 ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "cyb1140dta.nex"'; DIMENSIONS NCHAR=1140; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Orthogeomys_hispidus_LSUMZ36767 ATGGCAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAACATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTTCTCATCAGTTGCACATATTTGCCGTGACGTAAACTACGGTTGATTAATCCGATATATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTACTACTATTTTTAACTATAGCCACTGCATTCGTAGGATATGTACTACCATGAGGACAAATATCATTTTGAGGGGCTACAGTAATTACTAATCTACTATCAGCCATCCCCTATATCGGACCAGACCTAGTAGAATGAATCTGAGGTGGATTTTCTGTAGATAAAGCAACATTAACACGATTCTTCGCATTTCACTTCATTCTCCCTTTTATTATTACCGCCCTAGTATTAGTTCATTTACTATTTCTACATGAAACAGGATCAAACAACCCACTAGGAATTCCATCAGACTGCGGAAAAGTACCATTCCACCCTTACTACACAACCAAAGACTTTCTAGGAGTAATTATACTCCTAATATTATTCCTAACTATAGTTATATTTTTACCAGATAAACTAGGAGACCCAGACAACTATATGCCTGCAAACCCCCTCAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTACGCAATTCTACGATCCATTCCTAACAAACTAGGAGGAGTACTAGCCCTAGTATGCTCAATTCTAGTCCTAGCGTTACTTCCCTATCTACACACATCAAAACAACGTAGCCTTTCATTTCGACCCCTAAGCCAAACCCTATTTTGAATATTGGTATCCGACTTAATCCTACTAACATGAATCGGCGGACAACCAGTAGAACCACCATTTATTATCATTGGGCAAATTGCCTCCATCCTATATTTTTTAATCATCCTACTACTCATACCAGCTGCAGGTCTAATTGAAAACAAAATACTTAAATGAAGA Orthogeomys_lanius_CNMA46463 ATGACAATTATACGAAAATCACACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAACTTCGGCTCCCTATTAGGACTATGCTTAATCCTACAAATCTCAACAGGCCTATTTCTAGCAATACATTACACATCTGATACACTTACAGCCTTCTCATCAGTAGCTCACATCTGCCGCGACGTAAACTACGGCTGATTAATCCGACATATACATGCCAACGGCGCCTCCTTATTCTTCATTTGTATTTATATCCACATCGGACGAGGAATCTACTACGGATCCTATCTTTACACAGAAACATGAAACATCGGCATTTTACTGTTATTTCTAACTATAGCCACTGCATTCGTAGGATATGTACTACCATGAGGGCAAATATCATTTTGAGGAGCTACTGTAATTACCAATCTATTATCAGCCATCCCCTATATCGGACCAGACCTAGTAGAATGAATCTGAGGCGGATTTTCTGTAGATAAAGCAACACTAACACGATTCTTCGCATTTCACTTTATTCTCCCTTTTATTATTACTGCCCTAGTGTTAGTCCACCTGCTATTTCTACATGAAACAGGATCAAACAACCCACTAGGAATTCCCTCCGACTGTGGAAAAGTACCATTCCACCCTTACTATACAACCAAAGACTTTCTAGGAGCAATTATACTCCTAATATTATTCCTAACTATAGTCATATTTTTACCAGACAAACTAGGAGACCCAAATAACTATATACCAGCAAACCCTCTCAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTATGCAATTCTACGGTCTATTCCTAACAAACTAGGAGGAGTACTAGCCCTAGTATGCTCAATCCTAGTCCTAGCATTGCTCCCTTACCTACACACATCAAAACAACGTAGCCTCTCATTCCGACCACTAAGCCAAACCCTATTTTGAATACTAGTGTCTGACCTAATCCTACTAACATGAATCGGCGGACAACCAGTAGAACCCCCATTTATCATCATTGGGCAAATTGCCTCAATCCTATATTTTGCCATCATCCTGCTACTCATACCTGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_lanius_CNMA46483 ATGACAATTATACGAAAATCACACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAACTTCGGCTCCCTATTAGGACTATGCTTAATCCTACAAATCTCAACAGGCCTATTTCTAGCAATACATTACACATCTGATACACTTACAGCCTTCTCATCAGTAGCTCACATCTGCCGCGACGTAAACTACGGCTGATTAATCCGACATATACATGCCAACGGCGCCTCCTTATTCTTCATTTGTATTTATATCCACATCGGACGAGGAATCTACTACGGATCCTATCTTTACACAGAAACATGAAACATCGGCATTTTACTGTTATTTCTAACTATAGCCACTGCATTCGTAGGATATGTACTACCATGAGGGCAAATATCATTTTGAGGAGCTACTGTAATTACCAATCTATTATCAGCCATCCCCTATATCGGACCAGACCTAGTAGAATGAATCTGAGGCGGATTTTCTGTAGATAAAGCGACACTAACACGATTCTTCGCATTTCACTTTATTCTCCCTTTTATTATTACTGCCCTAGTGTTAGTCCACCTGCTATTTCTACATGAAACAGGATCAAACAACCCACTAGGAATTCCCTCCGACTGTGGAAAAGTACCATTCCACCCTTACTATACAACCAAAGACTTTCTAGGAGCAATTATACTCCTAATATTATTCCTAACTATAGTCATATTTTTACCAGACAAACTAGGAGACCCAAATAACTATATACCAGCAAACCCTCTCAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTATGCAATTCTACGGTCTATTCCTAACAAACTAGGAGGAGTACTAGCCCTAGTATGCTCAATCCTAGTCCTAGCATTGCTCCCTTACCTACACACATCAAAACAACGTAGCCTCTCATTCCGACCACTAAGCCAAACCCTATTTTGAATACTAGTGTCTGACCTAATCCTACTAACATGAATCGGCGGACAACCAGTAGAACCTCCATTTATCATCATTGGGCAAATTGCCTCCATCCTATATTTTGCCATCATCCTGCTACTCATACCTGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Geomys_breviceps_LSUMZ29336 ATGGCAGTTATACGAAAATCACACCCCTTAATAAAAATTGTCAACCACGCATTCATCGACCTACCAACTCCCCCTAATATTTCTGGCTGATGAAATTTTGGCTCCCTATTGGGTCTGTGCTTAATTCTTCAAATCCTAACAGGCTTATTTCTAGCAATACACTACACATCGGACACTCTCACAGCTTTCTCATCAGTAGCACATATTTGTCGAGACGTAAACTATGGCTGACTCATCCGATATATGCACGCCAACGGAGCTTCTCTATTCTTCATCTGTCTATATATCCACATCGGACGAGGTATTTACTACGGATCTTATCTATACACAGAAACATGAAATATCGGCATCCTACTGCTATTCCTAACCATAGCCACTGCTTTCGTAGGCTACGTATTACCATGGGGACAGATATCATTTTGAGGAGCTACCGTTATTACCAACCTACTCTCAGCTATTCCCTACATCGGACAAGACCTAGTAGAATGAATCTGAGGTGGGTTCTCTGTAGACAAAGCTACACTAACACGCTTTTTCGCATTTCACTTCATCTTGCCATTTATTATTGCAGCTCTAGCAATAGTCCATCTTCTATTTCTACACGAAACAGGATCCAATAACCCACTAGGAATCCCATCAGACAGCGGAAAAGTGCCGTTTCACCCCTATTACACAACCAAAGACTTTCTAGGAGTCATTATACTACTCATACTATTTATAACCTTAGTATTATTTTTTCCAGACAAACTAGGAGACCCTGACAACTATATACCCGCAAACCCACTCAACACCCCACCACATATCAAACCAGAGTGATATTTCCTATTCGCATATGCTATCCTACGGTCAATTCCCAACAAACTAGGAGGAGTAGTAGCCCTAGCACTATCTATCCTAGTCCTAGCCCTACTCCCCTACCTCCACACATCAAAACAACGAAGCCTAGCATTCCGACCATTAAGTCAAATTCTATTCTGAATGCTAGTATCGGATATATTACTACTAACTTGAATTGGAGGGCAACCAGTAGAGCCACCATTCATTATCATTGGACAAGTAGCATCCATCCTATATTTCTTAATTCTTTTGTTGTTAATACCAGTAGCGGGGTTAATTGAAAATAAACTACTTAAATGAAAA Thomomys_bulbivorus_TSD535 ATGAAAATTATACGCAAGTCCCATCCGTTATTTAAAATCGTAAATCATGCCTTTATTGACTTACCTACCCCACCTAATATTTCAGGTTGATGAAATTTTGGCTCTCTCTTAGGTATATGCTTGATCCTACAAATCTCAACTGGCCTATTCTTAGCCATACACTATACATCTGACACCCTAACAGCTTTCTCATCAGTGGCCCATATCTGCCGAGATGTGAATTACGGCTGATTAATCCGATATATACATGCAAATGGAGCATCACTATTCTTCATCTGCTTATATATACACATTGGTCGTGGTATCTACTATGGCTCCTACCTTTATAAGGAAACATGAAATATTGGCATCTTGCTCCTATTCTTATCAATAGCTACAGCATTCGTTGGTTACGTACTACCATGAGGACAAATGTCATTTTGACGGCCGACCGTTATTACCAACCTTCTATCAGCAATTCCTTATATCGGTCAAGACCTAGTAGAATGAATTTGAGGTGGGTTTTCAGTAGACAAGGCTACCCTTTCACGTTTCTTTGCATTCCACTTCATCCTACCTTTTATCATCACAGCCCTAGCCACAGTCCACCTACTATTTCTTCATGAAACAGGGTCAAATAATCCACTAGGCATCCCGTCAGACTGCGCTAAAATCCCATTCCACCCATACTACTCAACCAAGGACTTCTTGGGAGCACTGTTGTTAATCATATTTTTCATGACATTAGTACTATATTTCCCAGACAAACTAGGAGACCCAGACAATTATATACCTGCTAACCCACTAAACACCCCACCACATATCAAACCTGAATGATACTTCTTATTCGCATATGCTATCCTACGATCTATTCCAAATAAACTAGGTGGAGTCGTAGCACTAGTCCTATCTATTCTAGTTTTAGCCTTCCTACCCTACCTACACACATCAAACCAGCGAAGCCTAATATTTCGCCCACTTAGTCAATCCCTATTCTGAACCCTAGTGGCAGATCTACTCTTACTCACATGAATTGGAGGACAACCCGTTGAATCCCCATTTATTATTATTGGCCAAGTAGCCTCAATCCTATATTTTACTATCATTCTAATTCTCATACCACTAGCAGGCTTAATCGAAAATAAAATAATAAAATGAAGA Orthogeomys_dariensis_LSUMZ25434 ATGACAATAATACGAAAATCCCATCCGCTTATAAAAATTGTCAACCATGCTTTCATCGACCTACCAACACCACCCAACATTTCCGGATGATGAAACTTTGGCTCCCTACTAGGACTATGCTTAATCTTACAAATCTCAACAGGCCTATTTTTAGCAATACACTATACGTCAGACACACTTACAGCTTTCTCGTCAGTAACACACATTTGCCGCGACGTAAACCACGGATGATTAATCCGATATCTACATGCCAATGGTGCCTCCCTATTCTTCATTTGCCTTTACATTCACATCGGACGAGGAATTTACTACGGATCTTATCTTTATACAGAAACATGGAATATAGGCATTTTACTGCTATTCTTAACTATAGCCACTGCATTCATAGGATATGTGCTGCCATGAGGACAAATATCATTTTGAGGAGCTACAGTAATCACCAACCTTTTATCAGCTATTCCCTACATCGGACCAGACCTAGTAGAATGAATCTGAGGGGGATTTTCAGTAGACAAAGCAACACTAACACGATTCTTCGCACTTCACTTCATTCTACCATTCATTATCACT-CCCTAGTACTAGTTCACCTACTGTTTCTTCATGAAACAGGATCAAACAACCCACTAGGAATCCCCTCAGACTGCGGAAAAGTACCATTTCATCCTTACTACACAACCAAAGATTTTCTAGGAGTAATTATGATCCTAATATTATTCCTAACCACAGTGCTATTTTTACCAGACATACTAGGAGACCCAGACAATTACACACCCGCAAACCCTCTCAACACCCCACCACATATTAAACCAGAATGATACTTCTTATTTGCCTATGCAATCCTACGATCCATTCCCAATAAACTAGGAGGAGTACTAGCCCTAGTATGCTCAATTCTAGTCTTAGCCTTACTTCCCTATCTACACACATCCAAACAACGTAGCCTTTCATTCCGACCATTAAGTCAAACATTATTTTGAATACTAGTAGCTGATCTAATCCTATTAACATGAATCGGAGGACAACCAGTAGAGCCACCATTTATCATCATTGGACAACTAGCCTCCATTATATATTTTACTATCATCTTATTACTAATACCAGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_heterodus_LSUMZ29261 ACGACAATGATACGAAAATCCCATCCACTAATAAAAATTGTTAACCATGCTTTCATCGACTTACCAACACCACCCAACATCTCAGGATGATGAAACTTTGGTTCCCTGCTAGGACTATGCTTAATTTTACAAATTTCAACAGGCCTATTTTTAGCAATACACTACACGTCAGACACACTTACAGCTTTCTCATCAGTAGCACACATTTGCCGCGACGTAAACTACGGCTGATTAATCCGATATATACATGCCAACGGTGCCTCCCTATTCTTCATTTGCCTCTACATTCACATCGGACGAGGCATTTACTATGGGTCCTACCTCTATAAAGAAACATGAAATATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCATAGGATATGTACTGCCATGAGGACAAATATCATTCTGAGGAGCTACAGTAATTACCAACCTTCTATCAGCTATTCCCTACATCGGACCAGACTTAGTAGAATGAATCTGAGGGGGCTTTTCAGTAGATAAAGCAACACTAACACGATTCTTCGCACTCCACTTCATCCTACCATTTATTATTACCGCCTTAGTTCTAGTTCATCTACTATTTCTACACGAAACAGGATCAAATAACCCACTAGGAATCCCCTCAGACTGCGGAAAAGTACCATTTCACCCTTACTACACAACCAAAGATTTTCTAGGAGTAATTATAATCCTAATATTATTCTTAACTACAGTCCTATTTCTGCCAGACAAACTAGGAGACCCAGACAACTACACACCCGCAAACCCTCTCAATACCCCACCACATATTAAACCAGAATGGTACTTCTTATTTGCCTATGCAATTCTACGATCAATTCCTAATAAACTAGGAGGAGTACTAGCCTTAGTATCCTCAATTCTAGTCTTAGCATTACTCCCTTATTTACACACATCTAAACAACGCAGCCTTTCATTCCGACCACTAAGCCAAACACTATTTTGAATATTAGTATCCGACCTAATCCTACTAACATGAATCGGAGGACAACCAGTAGAACCACCATTTATCATCATTGGACAGTTAGCCTCCATTATATACTTTACCATCATCTTATTACTCATACCAGTAGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_grandis_LSUMZ34392 ATGACAATCCTACGAAAATCACACCCTTTAATAAAAATTGTCAACCATGCTTTCATCGACCTACCAACACCCCCTAACATCTCCAGTTGATGAAATTTTGGTTCCCTATTAGGACTATGTCTAACCCTTCAAATCTTAACAGGCTTATTCTTAGCAATACACTACACATCAGACACCCTCACAGCTTTCTCATCAGTAACACATATTTGCCGAGATGTAAACTACGGATGATTAATTCGATACATACATGCCAATGGCGCTTCCCTATTCTTCATCTGCCTCTACATCCATATCGGACGAGGTATCTACTATGGATCTTATTTATACTCAGAAACATGAAACATTGGAATCCTGCTACTATTCCTAACTATAGCAACTGCATTTGTGGGTTACGTACTACCATGAGGACAAATATCATTTTGAGGTGCCACAGTGATTACTAACCTACTATCAGCTATCCCCTACATCGGACAAGATATTGTAGAATGAATCTGAGGCGGGTTCTCCGTAGACAAGGCAACTCTAACACGATTCTTCGCATTTCATTTTATTCTACCGTTCATTATTACAGCTCTAGCCATAGTTCATTTATTATTCCTACATGAAACAGGATCAAATAATCCGTTAGGAATTCCGTCTGACTGTGACAAAGTACCATTCCACCCGTATTATACTACAAAAGACTTTCTAGGAGCAGTTGTACTTATTATATCATTCTTAACCCTAGTATTATTTTTTCCAGACAAACTAGGAGACCCAGACAACTACATACCCGCAAACCCACTCAACACACCACCACATATTAAACCAGAGTGGTATTTCTTATTCGCATACGCAATCTTACGATCTATTCCTAACAAACTAGGAGGAGTAGTAGCCTTAGTAATATCAATCCTAGTCTTAGCCCTGCTCCCCTACCTCCACACATCCAAACAACGAAGTATATCATTTCGACCCCTAAGCCAAACATTATTCTGAATCCTAATCTCCGACCTAATCCTCCTAACATGAATTGGAGGACAACCAGTAGAACCACCATTCATCATCATTGGACAAGTAGCCTCTGTCCTATACTTCTCCATCATCCTAATTCTCATACCCGTAGCAGGATTAATTGAAAATAAAATACTCAAATGAAGA Orthogeomys_hispidus_LSUMZ36090 ATGGCAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTCACAGCCTTCTCATCAGTAGCACACATTTGCCGTGACGTAAACTATGGCTGATTAATCCGATATATACATGCTAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATCTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGTATTTTATTGCTATTTTTAACTATAGCCACTGCATTCGTGGGATATGTACTACCATGAGGACAAATATCATTTTGAGGGGCTACAGTAATTACTAATCTACTATCAGCTATCCCCTATATCGGACCAGACCTAGTAGAATGAATCTGAGGTGGATTTTCTGTAGATAAAGCAACATTAACACGATTCTTCGCATTTCACTTCATTCTTCCTTTTATTATTACCGCCCTAGTATTAGTTCATTTACTATTTCTACATGAAACAGGATCAAATAACCCACTAGGAATTCCATCAGACTGCGGAAAAGTACCATTCCACCCTTACTACACAACCAAAGACTTTCTAGGAGTAATTATACTCCTAATATTATTCCTAACTATAGTTATATTTTTACCAGATAAACTAGGAGATCCAGACAACTATATGCCTGCAAACCCTCTCAACACCCCACCACATATTAAACCAGAGTGATATTTCCTATTTGCCTACGCAATTCTACGATCAATTCCTAACAAACTAGGAGGAGTACTAGCCCTAATATGCTCAATCCTAGTCCTAGCGCTACTTCCCTATCTTCATACATCAAAACAACGTAGCCTTTCATTTCGACCCCTTAGCCAAACCCTATTTTGAATATTAGTATCCGACTTAATCCTACTGACATGAATTGGAGGACAACCAGTAGAACCACCATTTATTATCATTGGACAAATTGCCTCCATCCTATATTTTGTAATCATTCTACTACTCATACCAGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_hispidus_CNMA41025 ATGACAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTTCTCATCTGTAGCACACATTTGCCGTGACGTAAACTACGGCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCGTAGGATACGTACTACCATGAGGACAAATATCATTTTGAGGGGCTACAGTAATTACTAACCTACTATCAGCCATCCCCTATATTGGACCAGACCTAGTAGAATGAATCTGAGGTGGATTTTCTGTAGATAAAGCAACATTAACACGATTCTTCGCATTTCACTTCATCCTACCTTTTATTATTACCGCCCTAGTATTAGTTCATTTACTATTTCTACATGAAACAGGATCAAATAACCCACTAGGAATTCCATCAGACTGCGGAAAAGTACCATTCCACCCTTACTACACAACCAAAGACTTTCTAGGAGTAATTATACTCCTAATATTATTCCTAACTATAGTTATATTTTTACCAGATAAACTAGGAGATCCAGACAACTATATGCCTGCAAACCCCCTCAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTACGCAATTCTACGATCCATTCCTAATAAACTAGGAGGAGTATTGGCCCTAATATGCTCAATTCTAGTCCTAGCATTACTTCCCTATCTACATACCTCAAAACAACGTAGCCTTTCATTTCGACCCCTAAGCCAAACCCTATTTTGAATATTAGTATCCGACTTAATCCTACTAACATGGATCGGCGGACAACCAGTAGAACCACCATTTATTATCATTGGTCAAATTGCCTCCATCCTATATTTTGTAATCATCCTACTACTCATACCAGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_hispidus_LSUMZ36761 ATGACAATTATACGAAAATCTCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCTAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTTCTCATCTGTAGCACACATTTGCCGTGACGTAAACTACGGCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTATCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTTTTAACTATAGCCACTGCATTCGTAGGATATGTACTACCATGAGGACAAATATCATTTTGAGGGGCTACAGTAATTACTAATCTACTATCAGCCATCCCCTATATTGGACCAGACCTAGTAGAATGAATCTGAGGTGGATTTTCTGTAGATAAAGCAACATTAACACGATTCTTCGCATTTCACTTCATCCTCCCTTTTATTATTACCGCCCTAGTATTAGTTCATTTACTATTTCTACATGAAACAGGATCAAATAACCCACTAGGAATTCCATCAGACTGCGGAAAAGTACCATTCCACCCTTACTACACAACCAAAGACTTTCTAGGAGTAATTATACTCCTAATATTATTCCTAACTATAGTTATATTTTTACCAGATAAACTAGGAGATCCAGACAACTATATGCCTGCAAACCCCCTCAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTACGCAATTCTACGATCCATTCCTAATAAACTAGGAGGAGTACTAGCCCTAATATGCTCAATTCTAGTCCTAGCATTACTTCCCTATCTACATACCTCAAAACAACGTAGCCTTTCATTTCGACCTCTAAGCCAAACCCTATTTTGAATACTAGTATCCGACTTAATCCTACTAACATGAATCGGCGGACAACCAGTAGAACCACCATTTATTATCATTGGTCAAATTGCCTCCATCCTATATTTTGTAATCATCCTACTACTCATGCCAGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA Orthogeomys_grandis_CMNH112150 ATGACAATCCTACGAAAATCACATCCTTTAATAAAAATTGTCAACCACGCTTTCATCGATCTACCAACACCCCCTAACATCTCCAGTTGATGAAATTTCGGTTCCCTATTAGGACTATGTTTAATCCTTCAAATCTTAACAGGCTTATTTTTAGCAATACACTACACATCAGACACTCTCACGGCTTTCTCATCAGTAACACATATTTGCCGAGACGTAAACTATGGATGATTAATCCGATACATACATGCCAACGGCGCTTCCCTATTCTTCATCTGCCTATATATCCATATCGGACGAGGCATCTACTACGGATCCTACCTATATTCAGAAACATGAAATATTGGAATCTTACTATTACTCCTAACTATGGCAACTGCATTTATAGGCTACGTACTACCATGAGGACAAATATCATTTTGAGGTGCCACAGTAATTACTAATTTATTATCAGCTATCCCCTACATCGGACAAGACCTTGTAGAGTGAATCTGAGGAGGATTCTCTGTAGATAAGGCAACTCTAACACGATTCTTCGCACTCCATTTTATTCTACCATTCATTATTACAGCCCTAGCCATAGTTCATTTATTATTCCTACATGAAACAGGATCAAATAATCCGCTAGGAATCCCATCTAACTGTGGCAAAGTACCATTCCACCCATACTATACTACAAAAGACTTTCTAGGAGCAGTTGTACTTATCATACTATTCTTAACCCTAGTACTATTTTTTCCAGATAAACTAGGAGACCCAGACAACTACACACCCGCAAATCCACTCAACACACCACCACACATTAAGCCAGAGTGATATTTCTTATTCGCATACGCAATCTTACGATCTATTCCGAACAAACTAGGAGGAGTAGTAGCCCTAGTAATATCAATCTTAATTTTAGCCCTGCTCCCCTATCTCCACACATCTAAACAACGAAGTATGTCATTTCGACCTCTAAGCCAAACATTATTCTGAATCCTAATTTCTGACCTAATCCTCCTAACATGAATTGGAGGACAACCAGTAGAACCACCATTCATCATCATCGGACAAGTAGCCTCTGTCCTATACTTCTCTATCATCCTAATCCTCATACCTATTGCAGGATTAATCGAAAATAAAATACTTAAATGAAGA Orthogeomys_hispidus_CMNH112140 ATGACAATTATACGAAAATCCCACCCACTAATAAAAATTGTCAACCATGCTTTCATTGACCTACCAACACCACCCAATATCTCAGGTTGATGAAATTTCGGCTCCCTATTAGGACTATGCTTAATTCTACAAATCTCTACAGGCCTATTTCTAGCAATACACTACACATCTGACACACTTACAGCCTTCTCATCTGTAGCACACATTTGTCGTGACGTAAACTACGGCTGATTAATCCGATACATACATGCCAACGGCGCCTCCCTATTCTTCATTTGCCTTTATATTCACATCGGACGAGGAATTTACTATGGATCCTACCTTTATACAGAAACATGAAACATCGGCATTTTATTACTATTCTTAACTATAGCCACTGCATTCGTAGGATATGTACTACCATGAGGACAAATATCATTTTGAGGGGCTACAGTAATTACTAATCTACTATCAGCCATCCCCTATATTGGACCAGACCTAGTAGAATGAATCTGAGGTGGATTTTCTGTAGATAAAGCAACATTAACACGATTCTTCGCATTTCACTTCATCCTCCCTTTTATTATTACCGCCCTAGTATTAGTTCATTTACTATTTCTACATGAAACAGGATCAAATAACCCACTAGGAATTCCATCAGACTGCGGAAAAGTACCATTCCACCCTTACTACACAACCAAAGACTTTCTAGGAGTAATTATACTCCTAATATTATTCCTAACTATAGTTATATTTTTACCAGATAAACTAGGAGATCCAGACAACTATATACCTGCAAACCCCCTAAACACCCCACCACATATTAAACCAGAATGATACTTCCTATTTGCCTACGCAATTCTACGATCCATTCCTAATAAACTAGGAGGAGTACTAGCCCTAATATGCTCAATTCTAGTCCTAGCGTTACTTCCCTATCTACATACCTCAAAACAACGTAGCCTTTCATTTCGACCTCTAAGCCAAACCCTATTTTGAATATTGGTATCCGACTTAATCCTACTAACATGAATCGGCGGACAACCAGTAGAACCACCATTTATTATCATTGGTCAAATTGCCTCTATCCTATATTTTGTAATCATCCTACTACTCATACCAGCTGCAGGTCTAATTGAGAACAAAATACTTAAATGAAGA ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 1140; END; BEGIN TREES; Title 'Trees from "ml.nex"'; LINK Taxa = Taxa; TRANSLATE 1 Orthogeomys_hispidus_LSUMZ36767, 2 Orthogeomys_lanius_CNMA46463, 3 Orthogeomys_lanius_CNMA46483, 4 Geomys_breviceps_LSUMZ29336, 5 Thomomys_bulbivorus_TSD535, 6 Orthogeomys_dariensis_LSUMZ25434, 7 Orthogeomys_heterodus_LSUMZ29261, 8 Orthogeomys_grandis_LSUMZ34392, 9 Orthogeomys_hispidus_LSUMZ36090, 10 Orthogeomys_hispidus_CNMA41025, 11 Orthogeomys_hispidus_LSUMZ36761, 12 Orthogeomys_grandis_CMNH112150, 13 Orthogeomys_hispidus_CMNH112140; TREE tree_1 = ((((((10:1.0,11:1.0,13:1.0):1.0,9:1.0,1:1.0):1.0,(2:1.0,3:1.0):1.0):1.0,(6:1.0,7:1.0):1.0):1.0,(8:1.0,12:1.0):1.0,4:1.0):0.5,5:1.0); END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 1140; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 1140; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1394123666874; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 1466884124280475504; tell It; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 6348857029801718232; mqVersion 275; checksumv 0 3 307159803 null getNumChars 1140 numChars 1140 getNumTaxa 13 numTaxa 13 short true bits 15 states 15 sumSquaresStatesOnly 330452.0 sumSquares 330452.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 700 464; setLocation 361 52; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #1466884124280475504 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #1466884124280475504; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; getTable; tell It; rowNamesWidth 252; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 361 52; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam; endTell; endTell; showWindow; getEmployee #mesquite.lists.ColorTaxon.ColorTaxon; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #1466884124280475504 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1278.1394123237736.8999782846434462613; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 361 52; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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 #6348857029801718232 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 361 52; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges off; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.align.AlignToDropped.AlignToDropped; tell It; gapCosts 8 3 2 2; subCosts 10 5 10 10 10 5 5 10 10 10 5 10; endTell; getEmployee #mesquite.molec.ColorByAA.ColorByAA; tell It; emphasizeDegeneracy off; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;