#NEXUS [Below are shown the sequence types for the 17 Bd MLST loci] [For each locus a representative strain is shown for each sequence type (ST)] [Variable positions are shown inside parenthesis using IUPAC ambiguity codes] [Heterozygous sequence types are indicated 'allele1/allele2'] [ CTSYN1 >allele_G_JEL225_ST=a ATTCATCGGATAGT(G)CTGCCTTGGGTCTACCACAAACCATTCAGTCTTGATCTTTTTTGTACAAGATTACTGACTGCATCCACTCTTCGCTTTTACTGCTCCGTAAATTCCCAGTCAAAACCTACTGCACTCACCATGACATCCTCAGCAGCTCCTATTCGCCAGCCTGACTGGCATATTCCTGCTGGAACTACTGTTCCTCGGCTATACATCAACAACTCTTTGACTCGCAAAAAGGTACGGAATTCTACATTTATATTCAGCTGCCGTCGTTTGTGAATTGGAATTGACGATGATTCAGCAGCAGTTGAATGGTTTCGGAAATTCAGTTACTGATATGGTTGGGCGTAACATGGATCTATACTTGTATAGGAGTT(G)TTTGTTCCTGAAAAAGGACGTCGAGTCACTTGGTATTCTTGCGGGCCAACCGTTTATGACAAATCCCATGTTGGTCATGCCAGGTGAGCTGGTTTGATGCTGGCAAACTGCTCTGGATTTCAACCACTCAT >allele_A/G_CW36_ST=b ATTCATCGGATAGT(R)CTGCCTTGGGTCTACCACAAACCATTCAGTCTTGATCTTTTTTGTACAAGATTACTGACTGCATCCACTCTTCGCTTTTACTGCTCCGTAAATTCCCAGTCAAAACCTACTGCACTCACCATGACATCCTCAGCAGCTCCTATTCGCCAGCCTGACTGGCATATTCCTGCTGGAACTACTGTTCCTCGGCTATACATCAACAACTCTTTGACTCGCAAAAAGGTACGGAATTCTACATTTATATTCAGCTGCCGTCGTTTGTGAATTGGAATTGACGATGATTCAGCAGCAGTTGAATGGTTTCGGAAATTCAGTTACTGATATGGTTGGGCGTAACATGGATCTATACTTGTATAGGAGTT(R)TTTGTTCCTGAAAAAGGACGTCGAGTCACTTGGTATTCTTGCGGGCCAACCGTTTATGACAAATCCCATGTTGGTCATGCCAGGTGAGCTGGTTTGATGCTGGCAAACTGCTCTGGATTTCAACCACTCAT >allele_A_CW26_ST=c ATTCATCGGATAGT(A)CTGCCTTGGGTCTACCACAAACCATTCAGTCTTGATCTTTTTTGTACAAGATTACTGACTGCATCCACTCTTCGCTTTTACTGCTCCGTAAATTCCCAGTCAAAACCTACTGCACTCACCATGACATCCTCAGCAGCTCCTATTCGCCAGCCTGACTGGCATATTCCTGCTGGAACTACTGTTCCTCGGCTATACATCAACAACTCTTTGACTCGCAAAAAGGTACGGAATTCTACATTTATATTCAGCTGCCGTCGTTTGTGAATTGGAATTGACGATGATTCAGCAGCAGTTGAATGGTTTCGGAAATTCAGTTACTGATATGGTTGGGCGTAACATGGATCTATACTTGTATAGGAGTT(A)TTTGTTCCTGAAAAAGGACGTCGAGTCACTTGGTATTCTTGCGGGCCAACCGTTTATGACAAATCCCATGTTGGTCATGCCAGGTGAGCTGGTTTGATGCTGGCAAACTGCTCTGGATTTCAACCACTCAT APRT13 >allele_T/C_CW26_ST=b CACCTCGTCCAAACCAACAAGCCCGTGCACTACCCATCCTTCCCGAACTCCGCTCAAGTGGAGTGCTTCAGCCATAATCCGGCCGATATCTTTTGAAAA(Y)ACTCCAACCACCATTTTGGAAGGGCGAGCGGGATTAGTGAGCGGCCCAAGCCTGTAGATAAAGTTTGGTTAATCAGCGCGCATCAATAAGCTTATTATGCATCGCATGAGTATAGTAAACTATTCCAAAAAACACTTGCATGTTAAATATTGTACGAACACCAAGCTCTTTTCGAGAGGCTGCCACATGTCTCATGGCTGGATGGAAACTCTGAGCAAATAAGAAGCAAAAATTACTCGAGTCGAGGATTGAGCCTACCGCTGTTGGAGAAACAGACTCCAAGTGGCAACCTAGTGCTTCAAGAACATCTGCAGATCCTGATGTTGATGAGGAAGCTCTGCTGCCGTGCTATTAAATATATTTGATGTGTAGATGTTTTAAAATGATATGAATTAGCACATGCCTCAAGCTAGATGCACACTATAACAATCAGCTTATTAAAAAGGTAAAACAAAGACACATGTTGAATGTAGGAAAGTCTAGATCGATATAGTATCGAATGCAGTACCTTGGCAACTTTTACTCCAGCTCCAGCAACAATGATGGATGCAGCGGTAGATACATTAAATGTATTTTGGCCATCACCTCCAGTGCCAACAATATCAGCTACATCAAATGGCAGCTCAACTGGGAGTGCCTTACTCTGCATGGCTTTG >allele_C_CW36_ST=c CACCTCGTCCAAACCAACAAGCCCGTGCACTACCCATCCTTCCCGAACTCCGCTCAAGTGGAGTGCTTCAGCCATAATCCGGCCGATATCTTTTGAAAA(C)ACTCCAACCACCATTTTGGAAGGGCGAGCGGGATTAGTGAGCGGCCCAAGCCTGTAGATAAAGTTTGGTTAATCAGCGCGCATCAATAAGCTTATTATGCATCGCATGAGTATAGTAAACTATTCCAAAAAACACTTGCATGTTAAATATTGTACGAACACCAAGCTCTTTTCGAGAGGCTGCCACATGTCTCATGGCTGGATGGAAACTCTGAGCAAATAAGAAGCAAAAATTACTCGAGTCGAGGATTGAGCCTACCGCTGTTGGAGAAACAGACTCCAAGTGGCAACCTAGTGCTTCAAGAACATCTGCAGATCCTGATGTTGATGAGGAAGCTCTGCTGCCGTGCTATTAAATATATTTGATGTGTAGATGTTTTAAAATGATATGAATTAGCACATGCCTCAAGCTAGATGCACACTATAACAATCAGCTTATTAAAAAGGTAAAACAAAGACACATGTTGAATGTAGGAAAGTCTAGATCGATATAGTATCGAATGCAGTACCTTGGCAACTTTTACTCCAGCTCCAGCAACAATGATGGATGCAGCGGTAGATACATTAAATGTATTTTGGCCATCACCTCCAGTGCCAACAATATCAGCTACATCAAATGGCAGCTCAACTGGGAGTGCCTTACTCTGCATGGCTTTG R6046 [polymorphic for a 2bp deletion=--] >allele_--_CW26_ST=a GGTCGGCGGTCGTACTGGCAACCTCACCGATGCCATTACCATCACCCGCAAGGATGCTATTTTTACCGTCGAGATTGCTCCCAATGTTCGATTTGCCAAGCGTTACTTGAAGTACCTCACCAAGAAGTTCCTCAAGAAGTACATGCTTCGCGATTGGCTCCGTGTTATTTCTACTGACAAGACTTCCTACGTTGTCAAGTACTTCAACATTGCCAATAACGAGGCTGATGAAGAGTAATGGCTTGTTCTATTTCAAATATATAGTTCAGTCTCCTGTTAATTATTGTATAGATTTGTGTATTTCAGAATGGTTTAGAGTGTGGAATACAATCTGATTGTGCAGAGTATTTTTTCCAAAAAATTCCGCAAAAAACAATTCCGATTTTGACATAAATATCAACTCCAATTCTACTTTGCCAGTACAA(--)GTCTTATCTATAGGATGCGCACTCTAC allele_CA/--_JEL197_ST=b GGTCGGCGGTCGTACTGGCAACCTCACCGATGCCATTACCATCACCCGCAAGGATGCTATTTTTACCGTCGAGATTGCTCCCAATGTTCGATTTGCCAAGCGTTACTTGAAGTACCTCACCAAGAAGTTCCTCAAGAAGTACATGCTTCGCGATTGGCTCCGTGTTATTTCTACTGACAAGACTTCCTACGTTGTCAAGTACTTCAACATTGCCAATAACGAGGCTGATGAAGAGTAATGGCTTGTTCTATTTCAAATATATAGTTCAGTCTCCTGTTAATTATTGTATAGATTTGTGTATTTCAGAATGGTTTAGAGTGTGGAATACAATCTGATTGTGCAGAGTATTTTTTCCAAAAAATTCCGCAAAAAACAATTCCGATTTTGACATAAATATCAACTCCAATTCTACTTTGCCAGTACAA(CA/--)GTCTTATCTATAGGATGCGCACTCTAC >allele_CA_JEL284_ST=c GGTCGGCGGTCGTACTGGCAACCTCACCGATGCCATTACCATCACCCGCAAGGATGCTATTTTTACCGTCGAGATTGCTCCCAATGTTCGATTTGCCAAGCGTTACTTGAAGTACCTCACCAAGAAGTTCCTCAAGAAGTACATGCTTCGCGATTGGCTCCGTGTTATTTCTACTGACAAGACTTCCTACGTTGTCAAGTACTTCAACATTGCCAATAACGAGGCTGATGAAGAGTAATGGCTTGTTCTATTTCAAATATATAGTTCAGTCTCCTGTTAATTATTGTATAGATTTGTGTATTTCAGAATGGTTTAGAGTGTGGAATACAATCTGATTGTGCAGAGTATTTTTTCCAAAAAATTCCGCAAAAAACAATTCCGATTTTGACATAAATATCAACTCCAATTCTACTTTGCCAGTACAA(CA)GTCTTATCTATAGGATGCGCACTCTAC BdC5 >allele_C_JP005_ST=a TCTGTTGTGTAAAAGTAGTCGACACGCCCAGCCTTGAACTCGACAACATAAAGAGGAAACTTGAACATCTGGCGTGGAACGGGTGATACGGC(C)GATACTGGAGACTCGGGAGCGTGATTCATTTGCAGATTCTTACCTGCCTCTGCCCAGGCACGCACACGATTTTCGGTATTTTCAAAATAGTCGTCAATCTCCTCAATTTGATCGCTAATAGCAAGTGTATTGATTCCGTCCTTCAAACTACGCATATTGGCCTTGCGATTCTGATCCAAAGCAGATCCACCAAGCGAATGGCGACGACGTCCAATATCGAAATCAGATCCACTACCAGAGACATCAGCAGCATCAATGTGATTAGTAATAAAACGGTTTACTACACTGGGTGCGACAGAAAAGCGTCGAATTTGTGCTGCCTGTTGCTGTCGATAGCGTTCAAGCAACTCCTCAGTGTTGATGCCATTCATATCGTTTGCTGTAGCTAGATTGCTGGAACGCATTGCCTCCCACATGAACATTTGATGGTTGGGCTGAGTTGATGAACGGCGATGAGCCATTAAATCGTGAGAGTAGTCTGTTTCAGACTGACGCCAAATTGAGCTCATATCAGGA >allele_C/T_CW26_ST=b TCTGTTGTGTAAAAGTAGTCGACACGCCCAGCCTTGAACTCGACAACATAAAGAGGAAACTTGAACATCTGGCGTGGAACGGGTGATACGGC(Y)GATACTGGAGACTCGGGAGCGTGATTCATTTGCAGATTCTTACCTGCCTCTGCCCAGGCACGCACACGATTTTCGGTATTTTCAAAATAGTCGTCAATCTCCTCAATTTGATCGCTAATAGCAAGTGTATTGATTCCGTCCTTCAAACTACGCATATTGGCCTTGCGATTCTGATCCAAAGCAGATCCACCAAGCGAATGGCGACGACGTCCAATATCGAAATCAGATCCACTACCAGAGACATCAGCAGCATCAATGTGATTAGTAATAAAACGGTTTACTACACTGGGTGCGACAGAAAAGCGTCGAATTTGTGCTGCCTGTTGCTGTCGATAGCGTTCAAGCAACTCCTCAGTGTTGATGCCATTCATATCGTTTGCTGTAGCTAGATTGCTGGAACGCATTGCCTCCCACATGAACATTTGATGGTTGGGCTGAGTTGATGAACGGCGATGAGCCATTAAATCGTGAGAGTAGTCTGTTTCAGACTGACGCCAAATTGAGCTCATATCAGGA >allele_T_JAM033_ST=c TCTGTTGTGTAAAAGTAGTCGACACGCCCAGCCTTGAACTCGACAACATAAAGAGGAAACTTGAACATCTGGCGTGGAACGGGTGATACGGC(T)GATACTGGAGACTCGGGAGCGTGATTCATTTGCAGATTCTTACCTGCCTCTGCCCAGGCACGCACACGATTTTCGGTATTTTCAAAATAGTCGTCAATCTCCTCAATTTGATCGCTAATAGCAAGTGTATTGATTCCGTCCTTCAAACTACGCATATTGGCCTTGCGATTCTGATCCAAAGCAGATCCACCAAGCGAATGGCGACGACGTCCAATATCGAAATCAGATCCACTACCAGAGACATCAGCAGCATCAATGTGATTAGTAATAAAACGGTTTACTACACTGGGTGCGACAGAAAAGCGTCGAATTTGTGCTGCCTGTTGCTGTCGATAGCGTTCAAGCAACTCCTCAGTGTTGATGCCATTCATATCGTTTGCTGTAGCTAGATTGCTGGAACGCATTGCCTCCCACATGAACATTTGATGGTTGGGCTGAGTTGATGAACGGCGATGAGCCATTAAATCGTGAGAGTAGTCTGTTTCAGACTGACGCCAAATTGAGCTCATATCAGGA BdC24 >allele_A_CW26_ST=a CTGATGCGTGGAGGGTATTACCACGAAGTTCGGCTTCACGGATAGTACGAGCCAAATTGTCACCTGGAAGAGCCTAGTAGAGATCATTGATTACAACATTCAACAATGAAGGGTTAGTATGCGCGATTTACTACGACTGAGCTGATGCATCATGTAATAGGATCAGCAAAAGTATCTGCAGATGCAATAAACCCATTAACAATGCTTAAAGATCATTAAGCAGTGATATCCGTTATATTTCAACAACTGCTGATCAGTCATACAAGTCAATGCAATCAACGAATGACAGCATCAGTTGT(ACTA)ACAACTGATGCTGAATTGATCAAGAGTAAAGACTACCGCAAAGCATTGTTTTAAACAAGACATGCTCTCCACTATCCTCATGATAATCAAGCCGTCAAAGACACCAATAGCAATGAGTCTGTGCGCAGGATAAAAAACCCTTCACCCACTGTGTATCAATGCATTCTTACTCTAAGAAGACAAGCCTTGAGCATATGAGCAGTTCCAGGAGCATCAGCAGTGTCGAAGCGAGAGCCAGCATTGACCACAATTGCCAGAGTCGAAGCAGGCCCAAAGTGGTCGTACGTGGCCACATTGACA >allele_A/T_Eur042_ST=b CTGATGCGTGGAGGGTATTACCACGAAGTTCGGCTTCACGGATAGTACGAGCCAAATTGTCACCTGGAAGAGCCTAGTAGAGATCATTGATTACAACATTCAACAATGAAGGGTTAGTATGCGCGATTTACTACGACTGAGCTGATGCATCATGTAATAGGATCAGCAAAAGTATCTGCAGATGCAATAAACCCATTAACAATGCTTAAAGATCATTAAGCAGTGATATCCGTTATATTTCAACAACTGCTGATCAGTCATACAAGTCAATGCAATCAACGAATGACAGCATCAGTTGT(WMKW)ACAACTGATGCTGAATTGATCAAGAGTAAAGACTACCGCAAAGCATTGTTTTAAACAAGACATGCTCTCCACTATCCTCATGATAATCAAGCCGTCAAAGACACCAATAGCAATGAGTCTGTGCGCAGGATAAAAAACCCTTCACCCACTGTGTATCAATGCATTCTTACTCTAAGAAGACAAGCCTTGAGCATATGAGCAGTTCCAGGAGCATCAGCAGTGTCGAAGCGAGAGCCAGCATTGACCACAATTGCCAGAGTCGAAGCAGGCCCAAAGTGGTCGTACGTGGCCACATTGACA >allele_T_LJR089_ST=c CTGATGCGTGGAGGGTATTACCACGAAGTTCGGCTTCACGGATAGTACGAGCCAAATTGTCACCTGGAAGAGCCTAGTAGAGATCATTGATTACAACATTCAACAATGAAGGGTTAGTATGCGCGATTTACTACGACTGAGCTGATGCATCATGTAATAGGATCAGCAAAAGTATCTGCAGATGCAATAAACCCATTAACAATGCTTAAAGATCATTAAGCAGTGATATCCGTTATATTTCAACAACTGCTGATCAGTCATACAAGTCAATGCAATCAACGAATGACAGCATCAGTTGT(TAGT)ACAACTGATGCTGAATTGATCAAGAGTAAAGACTACCGCAAAGCATTGTTTTAAACAAGACATGCTCTCCACTATCCTCATGATAATCAAGCCGTCAAAGACACCAATAGCAATGAGTCTGTGCGCAGGATAAAAAACCCTTCACCCACTGTGTATCAATGCATTCTTACTCTAAGAAGACAAGCCTTGAGCATATGAGCAGTTCCAGGAGCATCAGCAGTGTCGAAGCGAGAGCCAGCATTGACCACAATTGCCAGAGTCGAAGCAGGCCCAAAGTGGTCGTACGTGGCCACATTGACA [Due to incomplete disequilibrium BdC18 is divided into two loci BdC18.1 and BdC18.2] [Sequence types for BdC18.1 and BdC18.2 are given as "ST=BdC18.1,BdC18.2"] BdC18(combined) >allele_1_PM1_(C/T+AG/--)_ST=b,b AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(Y)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(AG/--)AAGTCAGAGTTTTATGACTCGAT >allele_2_JEL203_(C+--)_ST=a,c AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(C)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(--)AAGTCAGAGTTTTATGACTCGAT >allele_3_JEL270_(T+--)_ST=c,c AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(T)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(--)AAGTCAGAGTTTTATGACTCGAT >allele_4_JEL271_(C/T+--)_ST=b,c AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(Y)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(--)AAGTCAGAGTTTTATGACTCGAT >allele_5_JEL277_(T+AG)_ST=c,a AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(T)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(AG)AAGTCAGAGTTTTATGACTCGAT >allele_6_JEL289_(T+AG/--)_ST=c,b AAAATACTGCACAATGGTTTCAACTTATGATTTCCAACCTTTTGAATTTACATTTAGAGTACGATCGAGTTTCCAACACAATCTAT(T)CAGATTTCCAGAATATCAGAAAGTGCAGTTTAAAACACGTGACCCATACAACTTGGTTTTACAGCAAAGTGTGTTTTCGCCTGTTTTCCCCACGACAAACAATTTAACGAGACATCAATGGTAAATGCCACTATGACCCCTGACCGGCGAGTCGGCCTGCCATTGAATCCGACATCCTCTCTCATCCATCCATCCGTTATATTTACCAACAAGCTCATGCATGCATTTAACCTGGATTGGTTCTCAAGCCAAGGTTTAAAGTCAGATTGAGTGTATTGGAAACTCGCCAATGTGCACAACCCTTTCGAGTAACTTTCACTGGACAATAGTGTACAGTACAAGGGATTAGTATGGATTGGATATAGACAGAGAGAG(AG/--)AAGTCAGAGTTTTATGACTCGAT 8702x2 >allele_T_JEL197_ST=a GTACTGGATTTCCCTCAACCAATCAAAAACCTGCT(T)CGACTACGAGCTCTTCGTCAGCATCCCAGCAATTATTTGATGCGTTTCAATCTGCTCCTACTTCATCGAGTCAACAGCAGCAGCAGCAGGCTCAAACCTCGATGAAAAGCTCGATCCTGTCACTTTATGGAGCACCATCCCCTGTTCGAGCTGCTAATAT >allele_T/C_EurC2A_ST=b GTACTGGATTTCCCTCAACCAATCAAAAACCTGCT(Y)CGACTACGAGCTCTTCGTCAGCATCCCAGCAATTATTTGATGCGTTTCAATCTGCTCCTACTTCATCGAGTCAACAGCAGCAGCAGCAGGCTCAAACCTCGATGAAAAGCTCGATCCTGTCACTTTATGGAGCACCATCCCCTGTTCGAGCTGCTAATAT >allele_C_Eur042_ST=c GTACTGGATTTCCCTCAACCAATCAAAAACCTGCT(C)CGACTACGAGCTCTTCGTCAGCATCCCAGCAATTATTTGATGCGTTTCAATCTGCTCCTACTTCATCGAGTCAACAGCAGCAGCAGCAGGCTCAAACCTCGATGAAAAGCTCGATCCTGTCACTTTATGGAGCACCATCCCCTGTTCGAGCTGCTAATAT 8009x2 >allele_G_CW26_ST=a TTAGAATACGAGGTAGATGGTTTAAGCCTGCTAAATTTACCACAACAAAAATCTAATATGCATGATATAGTTGAACAGGTCAGATGAGTTGCAGCGTCTTTTCGATCAGCAAGTGCTCAA(G)ACACGGGAATTAGAGAG(A)GAGCTGGCTGACACCCGACTGCTTTTGCACCAGACTCAATCTGGTTAGTGCAGTGTTTA >allele_T/G_Eur042_ST=b TTAGAATACGAGGTAGATGGTTTAAGCCTGCTAAATTTACCACAACAAAAATCTAATATGCATGATATAGTTGAACAGGTCAGATGAGTTGCAGCGTCTTTTCGATCAGCAAGTGCTCAA(K)ACACGGGAATTAGAGAG(R)GAGCTGGCTGACACCCGACTGCTTTTGCACCAGACTCAATCTGGTTAGTGCAGTGTTTA >allele_T_JAM084_ST=c TTAGAATACGAGGTAGATGGTTTAAGCCTGCTAAATTTACCACAACAAAAATCTAATATGCATGATATAGTTGAACAGGTCAGATGAGTTGCAGCGTCTTTTCGATCAGCAAGTGCTCAA(T)ACACGGGAATTAGAGAG(G)GAGCTGGCTGACACCCGACTGCTTTTGCACCAGACTCAATCTGGTTAGTGCAGTGTTTA 8329x2 >allele_A_JEL197_ST=a ACTGAAAAAAAAGATTTATCTATTGAGGATGTCTAAATAAAATTTA(A)TAATGGTTGATGTATTCAGCAAATTGCTCATCTAGTTTAACTGTTACATGGAAACAAGTCATCAAATATCTAGAGTTGACAATTAGAATGCGCAATGAATAGGACCGACATACCAAAAGTGATGTTTGAGTCACACACACAACCGAGTTTCCACAAGTCC >allele_A/G_JEL429_ST=b ACTGAAAAAAAAGATTTATCTATTGAGGATGTCTAAATAAAATTTA(R)TAATGGTTGATGTATTCAGCAAATTGCTCATCTAGTTTAACTGTTACATGGAAACAAGTCATCAAATATCTAGAGTTGACAATTAGAATGCGCAATGAATAGGACCGACATACCAAAAGTGATGTTTGAGTCACACACACAACCGAGTTTCCACAAGTCC >allele_G_JEL260_ST=c ACTGAAAAAAAAGATTTATCTATTGAGGATGTCTAAATAAAATTTA(G)TAATGGTTGATGTATTCAGCAAATTGCTCATCTAGTTTAACTGTTACATGGAAACAAGTCATCAAATATCTAGAGTTGACAATTAGAATGCGCAATGAATAGGACCGACATACCAAAAGTGATGTTTGAGTCACACACACAACCGAGTTTCCACAAGTCC 8392x2 >allele_T_CW29_ST=a GGGCTATTTTATTCTGGCTTGGCTCGCTCCAAAAATGC(T)CTCTCTCTTATCATGCTGAGCATGCTATCCATGTCTGTTGTAACGATTCAGGTAAGACTCTAAAGCAGATGACTAAATAAAAGTGGATATCTCGTATCCAATAATGCCGACGGTAGCATATCAGATGACCTCTGTTCGTGCAA >allele_A/T_JAM011_ST=b GGGCTATTTTATTCTGGCTTGGCTCGCTCCAAAAATGC(W)CTCTCTCTTATCATGCTGAGCATGCTATCCATGTCTGTTGTAACGATTCAGGTAAGACTCTAAAGCAGATGACTAAATAAAAGTGGATATCTCGTATCCAATAATGCCGACGGTAGCATATCAGATGACCTCTGTTCGTGCAA >allele_A_203_ST=c GGGCTATTTTATTCTGGCTTGGCTCGCTCCAAAAATGC(A)CTCTCTCTTATCATGCTGAGCATGCTATCCATGTCTGTTGTAACGATTCAGGTAAGACTCTAAAGCAGATGACTAAATAAAAGTGGATATCTCGTATCCAATAATGCCGACGGTAGCATATCAGATGACCTCTGTTCGTGCAA mb-b13 >allele_--_JEL274_ST=a TCATCATAATGCTGAGTTGAGGATCAATCGGTATGCGTCCTAGATTCAATGCATATGGCATGTATTGATTTTAAAATGAGTAAATATATATATA(--)AATGACAACCAACAAGCTACACAGTACCTAGA >allele_AT/--_CW29_ST=b TCATCATAATGCTGAGTTGAGGATCAATCGGTATGCGTCCTAGATTCAATGCATATGGCATGTATTGATTTTAAAATGAGTAAATATATATATA(TA/--)AATGACAACCAACAAGCTACACAGTACCTAGA >allele_AT_JEL429_ST=c TCATCATAATGCTGAGTTGAGGATCAATCGGTATGCGTCCTAGATTCAATGCATATGGCATGTATTGATTTTAAAATGAGTAAATATATATATA(TA)AATGACAACCAACAAGCTACACAGTACCTAGA 9893X2 >allele_--_JEL197_ST=a TGTTATCTTAACCCCAATAGTCTCGAGTGTTTTCCTAATACAGCTCGTAGATTATATACATTTTTAAATATATATA(--)CGCTGATTAAAAAGTATATTATTGATTTTT >allele_TA/--_JEL260_ST=b TGTTATCTTAACCCCAATAGTCTCGAGTGTTTTCCTAATACAGCTCGTAGATTATATACATTTTTAAATATATATA(TA/--)CGCTGATTAAAAAGTATATTATTGATTTTT >allele_TA_JEL270_ST=c TGTTATCTTAACCCCAATAGTCTCGAGTGTTTTCCTAATACAGCTCGTAGATTATATACATTTTTAAATATATATA(TA)CGCTGATTAAAAAGTATATTATTGATTTTT b7-10c >allele_G_JEL284_ST=a CTGTACTTTCACAACCACTTTGGCGACCAACACGGGTA(G)TCCAACAAC(TACTAC)ACTACTACTACTACTACCACTACTACTCCAACAACAACTACTACTATCACCAGTGCACCAGAAACTATAACCACAGTGCCTTCCACTACTACTACCACTACGACAACCACCGCGTTTGTTTCTACCACTGAAAGCTCACCAATTGTCTCGACTTCCGTGGCCACATCTGAGGCTTCATCGACCAC >allele_G/C_JEL404_ST=b CTGTACTTTCACAACCACTTTGGCGACCAACACGGGTA(S)TCCAACAACTACTAC(TACTAC/A)ACTACTACTACTACTACCACTACTACTCCAACAACAACTACTACTATCACCAGTGCACCAGAAACTATAACCACAGTGCCTTCCACTACTACTACCACTACGACAACCACCGCGTTTGTTTCTACCACTGAAAGCTCACCAATTGTCTCGACTTCCGTGGCCACATCTGAGGCTTCATCGACCAC>allele_C_JEL260_ST=c CTGTACTTTCACAACCACTTTGGCGACCAACACGGGTA(C)TCCAACAAC(A)ACTACTACTACTACTACCACTACTACTCCAACAACAACTACTACTATCACCAGTGCACCAGAAACTATAACCACAGTGCCTTCCACTACTACTACCACTACGACAACCACCGCGTTTGTTTCTACCACTGAAAGCTCACCAATTGTCTCGACTTCCGTGGCCACATCTGAGGCTTCATCGACCAC 6873X2 >allele_A_JEL197_ST=a TTGATGGTCAGTAGAAATCGCCATCTACAAAATGATAACTATAGTT(A)TGATGATACAAATTAAACTAAATATATATATACGAACCATATCGATAAAACTGGCAATATCCCTTCTTTTTTGCAGAATTCCAACGTGTCTTTTCCCATTTGAATTTACTAGATCTAATAAATGATAAAGTTA(C)TATACTACCGACAAATTTATCCAAAAGGTAAACA(C)TCAAAGTGTAGGTTTGAAAATAAACAAGAATACT >allele_A/G_JEL225_ST=b TTGATGGTCAGTAGAAATCGCCATCTACAAAATGATAACTATAGTT(R)TGATGATACAAATTAAACTAAATATATATATACGAACCATATCGATAAAACTGGCAATATCCCTTCTTTTTTGCAGAATTCCAACGTGTCTTTTCCCATTTGAATTTACTAGATCTAATAAATGATAAAGTTA(M)TATACTACCGACAAATTTATCCAAAAGGTAAACA(Y)TCAAAGTGTAGGTTTGAAAATAAACAAGAATACT >allele_G_JEL203_ST=c TTGATGGTCAGTAGAAATCGCCATCTACAAAATGATAACTATAGTT(G)TGATGATACAAATTAAACTAAATATATATATACGAACCATATCGATAAAACTGGCAATATCCCTTCTTTTTTGCAGAATTCCAACGTGTCTTTTCCCATTTGAATTTACTAGATCTAATAAATGATAAAGTTA(A)TATACTACCGACAAATTTATCCAAAAGGTAAACA(T)TCAAAGTGTAGGTTTGAAAATAAACAAGAATACT 6677X2 >allele_A_JEL197_ST=a TTCTATGGTGAGTATTGGAGCCAATCGTCAAGGATCCTTTGAAGGTGCTGCTGCTGCTGCTCTTATTGTCCCTATGGCATTTTCTACGCTACCTAA(A)TCTACTACCAA(G)CCCATTCC >allele_A/G_JEL225_ST=b TTCTATGGTGAGTATTGGAGCCAATCGTCAAGGATCCTTTGAAGGTGCTGCTGCTGCTGCTCTTATTGTCCCTATGGCATTTTCTACGCTACCTAA(R)TCTACTACCAA(R)CCCATTCC >allele_G_JEL203_ST=c TTCTATGGTGAGTATTGGAGCCAATCGTCAAGGATCCTTTGAAGGTGCTGCTGCTGCTGCTCTTATTGTCCCTATGGCATTTTCTACGCTACCTAA(G)TCTACTACCAA(A)CCCATTCC 6164Y2 >allele_-_JEL273_ST=a CCACACATGGTAATTATATATATATTTGACTGTTTGAATGCAGCTCTTACTGACATTTT(-)GATTATTATTATAGTTTCAATCAAA >allele_T/-_PM1_ST=b CCACACATGGTAATTATATATATATTTGACTGTTTGAATGCAGCTCTTACTGACATTTT(T/-)GATTATTATTATAGTTTCAATCAAA >allele_T_JEL289_ST=c CCACACATGGTAATTATATATATATTTGACTGTTTGAATGCAGCTCTTACTGACATTTT(T)GATTATTATTATAGTTTCAATCAAA ] Begin DATA; Dimensions ntax=59 nchar=17; Format datatype=standard symbols= "a b c" MISSING=?; Matrix JEL197 bbbaabbaaaabaaaab JEL198 bbbaabbaaaabaaaab JEL213 bbbabbbbcacbacccb JEL229 bbbabbbbaaabacaab JEL230 bbbabbbbaaabacaab JEL262 bbbabbbbcccbbcccb JEL226 bbbbabbbbbbbabbbc JEL277 bbbabcabbbbbabbbb JEL203 bbacaacbcccbacccb JEL270 bbabbcccbbbbcbbbb JEL271 bbabbbcbababcbabb JEL282 bbabacabbbcbab?bb JEL225 abababbababbabbbb JEL231 bbcabbbcbbbb?bbab JEL239 bbababbbbbbbababb JEL273 bbabaacbabaaaaaaa JEL275 bbabaacbabaaaaaaa JEL253 abaaabbbaaabaaaab JEL254 bbbabbbbbbbb?bbbb JEL258 bbbabbbbbbbbabbbb JEL274 cbabaacbabaaaaaaa JEL284 bbcabbbbaaabbaaab JEL289 bbcabcbbacabaaaac PM5 bbababbbbbbbabbbb PM7 bbababbbbbbbabbbb PM1 bbaaabbbcccbacc?b JEL404 bbbbbbbbbbbbbbbbb CW26 cbababbcababaaaab CW27 cbababbcababaaaab CW29 cbababbcababaaaab CW34 cbababbcababaaaab CW36 bcababbbbbabababb JEL408 bbacabbbcccbacccb JEL409 bbacabbbcccbacccb JEL415 bbacabbbcccbacccb JEL423 bbacabbbcccbacccb JEL424 bbacabbbcccbacccb JEL425 bbacabbbcccbacccb JEL427 bbacaccabbbbabbbb JEL429 bbababbbbbbcabbbc Me00LB bbababbcbbbbabbbb Tu98LB bbababbbcbbbacbbb MM06LB bbaaabbcaaacaaacb To05LB bbababbcbbbbabbbb Ro99LB bbaaacabaaabaaaab Al99LB bbacabbccccbacccb Eur042 b?babbbcbbbbabbbb Eur043 b?babbbcbbbbabbbb EurC2A b?abbbbbbbbbcbbbb JAM018 b?aabbbbaaabaaacb JP005 b?aaabbbcacbaccac JAM011 b?abbbbbbbbbabbbb JAM050 b?bbbacbbbbabbcba JAM102 b?abbbbbcbcbcbcbc LJR299 b?cbbbbbbbcbbbcbb JAM033 b?ccaacbabaacaacb JAM083 c?acbacbacabbaacb JAM084 c?acbacbacaabaaca LRJ089 a?bccacbccacccaaa ; end; begin assumptions; usertype hetequal = 3 [heterozygote one step from each homozygote; each homozygote two from each other] a b c [a=homozygote 1, b=heterozygote, c=homozygote 2] [a] . 1 2 [b] 1 . 1 [c] 2 1 . ; usertype hetonce = 3 [heterozygote one step from each homozygote; homozygotes cannot go to heterozygotes or to other homozygotes] a b c [a=homozygote 1, b=heterozygote, c=homozygote 2] [a] . 100 100 [b] 1 . 1 [c] 100 100 . ; charset supercontig1 = 4 5 9 10 11 13 14 15 16; end; [1=CTSYN1, 2=APRT13, 3=R6046, 4=BDC5, 5=BDC24, 6=BDC18.1, 7=BDC18.2, 8=8702x2, 9=8009x2, 10=8329x2, 11=8392x2, 12=mb-b13, 13=9893x2, 14=b7-10c, 15=6873x2, 16=6677x2, 17=11-6164y2] [CTSYN1 a=G, b=G/A, c=A; APRT13 a=T, b=T/C, c=C; R6046 a=--, b=CA/--, c=CA; BdC5 a=C, b=C/T, c=T; BdC24 a=A, b=A/T, c=T; BdC18.1 a=C, b=C/T, c=T; BdC18.2 a=AG, b=AG/--, c=--; 8702x2 a=T, b=T/C, c=C; 8009x2 a=G, b=T/G, c=T; 8329x2 a=A, b=A/G, c=G; 8392x2 a=T, b=A/T, c=A; mb-b13 a=--, b=AT/--, c=AT; 9893x2 a=--, b=TA/--, c=TA; b7-10c a=G, b=G/C, c=C; 6873x2 a=A, b=A/G, c=G; 6677x2 a=A, b=A/G, c=G; 6164y2 a=-, b=T/-, c=T;]