CLUSTAL X (1.81) multiple sequence alignment input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TAGTCATTTGAACCGACACTAATGGACACATTAGTGCCGGCTCATATGCA chr6B_96 -------------------------------------------------- chr6A_96 -------------------------------------------------- chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 T------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 CGTCGTCTTATAATATTGAAGCCGAGTCTACTTCGTACTACTCTTATTAA chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -SSSSSS--SS-SSSSSSSSSSS-SSSSS-S-SSSSS-SS---S---SS- forward_53 ---------------------------------GTGCCGGCTCATATGCA reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AACCGGTACTAATGTGTCTTAGATTTGACCTGTTTTCTACTAGTGTAGGT chr6B_96 ---------------------------------------------TAGTT chr6A_96 ---------------------------------------------TAGGT chr6B_98 -----------------------------------------------GGT chrUn_98 -----------------------------------------------GGT chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 GCGCTGTGCCCTTAAATTGAGCCCCCGGCGTATCCCTTCATCAATCAAAC chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs SSS-S--S-SSS-SSS-SSSSSSSSS-S-S-S-SSSS-SS-SSSS----- forward_53 AAC----------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 ATGATTCTTTAGATGACAATGTTCTTGATTCACGTACACGACTTTGGAGG chr6B_96 ATGATTCTTTAGATGACAATGTTCTTGATTCACGTACACGACTTTTAAGG chr6A_96 ATGATTCTTTAGATGACAATGTTCTTGATTCACGTACACGACTTTGGAGG chr6B_98 ATGATTCTTTAGATGGCAATGTTTTTGCTTCAGGTACACTACTTTGGAGG chrUn_98 ATGATTCTTTCAATGACAATGTTTTTGCTTGAGGAAAACTACTTTGGATG chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 T------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TCCCTAAAGCTGCAGGTCAGTGATGGAGACGCTTCGAGCTCGGGTAAAAA chr6B_96 TCCCTAAAGCTGCAGTTCAGTGATGGAGACGCGTCGAGCTCGGGTGAAGA chr6A_96 TCCCTAAAGCTGCAGGTCAGTGATGGATACACGTCGAGCTCGGGTGAAGA chr6B_98 TCCCTAAAGCTGCAGGTCATCGATGGAGACGCGTCGAGCTTGGGTGAAGA chrUn_98 TCCCAAAAGCGGTAGGTCGGCGATGTAGACGTGTCGAGCTTGGGTGAAGA chr2B_159 --------GCTGCAGGTCAGCGATGTAGACGTGTCGAGCTCGGGTGAAGA chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------------------S------------S--S- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GGTGATC-GTATCATTTTCCTTGGTTTAGAGGGACATGTACTTGTTTTTG chr6B_96 GGTGATC-GTATCATTTTCCTTGGTTTAGAGGGACATGCGCTTGTTTTTG chr6A_96 GGTGATC-GTATCATTTTCCTTGGTTTAGAGGGACATGCGCTTGTTTTTG chr6B_98 GGTGATCTGTATCATTTTCCTTGGTGGAGTGGGACATGCACTTGTTTTTG chrUn_98 GTTGATCTGTATCATTTTTCTTGGTGGAGAGGGACATGCGCTTGTTTTTG chr2B_159 GCTGATCTGTATCATTTTTCTTGATGGAGAGGGACATGCGCTTGTTTTTG chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------------------------S----------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CGTAGGATTATGCTATCTTTTTCAGTCCTGTAAGATCGGTGTTTGCGTGG chr6B_96 CGTAGGATTATGCTATCTTTTTCAGTCCTGCAATGTCGGTGTTTGCGTGG chr6A_96 CATAGGATTATGCTATCT-TTTCAGTCCTGTAATGTCGGTGTTTGCGTGG chr6B_98 CGTAGGATTATCCTATCTTTTTCAGTCTTGTAATGTCGGTGT-------G chrUn_98 CATAGGATTATCCTATCCTTTT-AGTCATGCAATGTAGGTGTTTAC---- chr2B_159 CGTGGGATTATCTTATCCTTTC-AGTCCTGTAATGTCGGTGTTTACGTGG chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ---------------------------------SS--------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CTTGTAACTGAATCTTTATTTTATTAATGAGACACATATTACCATGAAAA chr6B_96 ATTGTAACTGAATCTTTATTTTATTAATGAGACACATATTACCATGAAAA chr6A_96 CTTGTAACTAAATCTTTATTTTATTAATGAGACACATATTACCATGAAAA chr6B_98 CTTGTAACTGAATATTTATTTTATTAATGAGACACATATTACCATGAAAA chrUn_98 ---GTAACCGAACCTTTATTTTATTAATGAGACACATATTATCATGAGAA chr2B_159 CTTGTAACTAAACCTTTATTTTATTAATGAGACACTACCATG---GAAAA chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AA-A----ATGCATGAGAGATCTGTATGCCTATCTTTTTTTT---GGTTT chr6B_96 AA-A----ATACATGGAAGATCTGTATGCCTATCTTTTTTTGTTGGTTTT chr6A_96 AA-A-----TGCATGGGAGATCTGTATGCCTATCTTTTTTTT---GGTTT chr6B_98 AAGAGAATATGCATGGGAGATCTGTACGCGTATCTTTTTTTGTTGGTTTT chrUn_98 AA-AGCATATGCATGGGAGATCTGTACGCCTATCTTTCTTTGTTGGTTTT chr2B_159 AA-ATCATATGCATGAGAGATCTGTACGCCTATCTTTTTTTGTTGGTTTT chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TTT-TATCTTTATATAGTCTTGGGTTTCGGCTAGGTTTTCTCGTGCCTCC chr6B_96 TTT-TCTTTATATATAGTCTTGGGTTTTGGCTAGGGTTTCTCGTGCCTCC chr6A_96 TTT-TATCTTTATATAGTCTTGGGTTTCGGCTAGGGTTTCTCGTGCCTCC chr6B_98 TTTATCTTTATATATAGTCTTGGGTTTTGGCTAGGGTTTCTCGTGCCTCC chrUn_98 TTTATCTTTATATATAATCTTGGGTTTTGGCTAGCGTTTCTCGTGTATCC chr2B_159 TTTATCTTTATATGTAATCTTGGGTTTTGGCTAGGGTTTCTCGTGCCACC chr6B_446 -------------------------------------------------- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -----------------------------------S-------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TTCGTTTTTTTC--ACTC--TTAAGTTTTGTTACAGTTTTTGTCCTACTC chr6B_96 TTC-TTTTTTTCATACTC--TTAAGTTTTGTTATGGTTTGTGTCCTACTT chr6A_96 TTCGTTTTTTTCATACTC--TTATGTTTTGTTACGGTTTTTGTCCTACTC chr6B_98 TTCGTTTTTTTCATACTC--TTAAGTTTTGTTACCATTTTTGTCCTACTC chrUn_98 TTCGTTTTTT-CATACGCTTCTAGTTTTTGTTAGGATCCGTGTCCTACTC chr2B_159 TTCGTTT-TT-CATACTCTTTTAAGTTTTGTTAGGGTTTGTGTCCTACTC chr6B_446 ----TTT-TT-CATACTCTTTTGAGTTTTGTTACGGTTTGTGTCTTGCTC chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ----------------------------------S--------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GGAGAGGCGAAGGGGCGATAGCTCTCTGAAGATGGAATAAGGTTCTTCCT chr6B_96 GGAGTTGCGAAGGGGCGACAGCTCTTTCAAGATGGAATAAGGTTCTTCCC chr6A_96 GGAGAGGCGAAGGGACGATAGCTCTCTGAAGATGGAATAAGGTTCTTCTC chr6B_98 GGAGAGGCGAAGGGGCGATAGCTCTCTGAAGATGGAATAAGGTTCTTCCC chrUn_98 GGAGAGGCGAAGGGGCGATGGCTCTCTGAAGATGGAATAAGGTTCTTCCC chr2B_159 GGAGAGGCAAAGGGGCGATGGCTCTCTGAAGATGGAATAAGGTTCTCCCC chr6B_446 GGAGAGGCGAAGGACCGATGGCTCTCTGAAGATGGAATAAGGTTCTTCTC chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------S forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GCCTTGTCCCTATCTTGGTGATGTTTCTAGCATTAGCAGACGACATGTGG chr6B_96 GCCTTGTCCGTGTCTTGGTGATGTTTCTAGCATTACCAGACGACATGTGG chr6A_96 GCCTTGGCCCTGTCTTGGTGATGTTTCTAGCATTATCAGATGACATGTGG chr6B_98 GCCTTGTCCCTGTCTTGGTGATGTTTCTAGCATTATCAGACGACATGTGG chrUn_98 GCCTTGTCCACGTCTCAGTGATGTTTCTAGCATTGTCGGATGACATGTGG chr2B_159 GCCTTGTCCCCGTCTCGGTGATGTTTCTAGCATTGACGGATGACATGTGG chr6B_446 GCATTGTCCCCGTCCTGGTGATGTTTCTAGCCTCGTCGGACGATGTGTGA chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -----------S-----------------------S-------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AGGTTTGTCTCCAGCGGATCTTGCGGGATTTGGCCGGCGTTTGTCTTATT chr6B_96 AGGTTTGTCTCTACCGGATCTTGCGGGTTTCGGCCGGCGTTTGTCTTATT chr6A_96 AGGTTTGTCTCCAGCGGATCTTGCGGGATTCGGCTGACGTTTGTCTTATT chr6B_98 AGGTTTGTCTCCAGCGGATCTTGCGGGATTCGGCCGGCGTTTGTCTTATT chrUn_98 AGGTTTGTCTCCAGCGGATCTTGCGGGATTCGACCGGCGTTTGACTT--- chr2B_159 AGGTTTGTTTCCAGCGGATCTTGCGAGATTCGGCCGGCGTTTGTCTT--- chr6B_446 TGGTTTTTCTCCGGCAGTTCTCGCGGGAATCGGCCGGCGTTTCTCTA--- chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ------------------------------S------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TGGTGGATCCACGTGGATATTGTCATCATATGTTCGTGTTTATATGTCTA chr6B_96 TGGTGGATCCATGTGGATCTTCTCATCGTATGTCCGTGTTTGTATGTCTA chr6A_96 TGGTGGATCCACGTGGATCTTGTCATCGTATGTCTGTGTTTGTATGTCTA chr6B_98 TGGTGGATCCATGTGGATCTTGTCATCGTATGTCCGTGTTTGTATGTCTA chrUn_98 TGGTAGATCCACGTGGATATTGTCTTTGTTCGCCCGTGTTTGTTTGTCTA chr2B_159 TGGTGGATCCACGTGGATCTTGTCTTTGTTCGTCCGTGTTTATATGTCTA chr6B_446 CGGTATATCCACGTGGATCTTGTCATCGTTCGCTTGTGTTTGTGTGTCTA chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ---------------------------S---------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CAGGTTGGATCCTTTCGATCCACTCTTTTGTTCATCGGCGGCGGTTGCTG chr6B_96 CAGGTTGGATCCTTT----------------------------------- chr6A_96 TAGGTTGGATCCTTTCGATTTACTCTTTTATTTATTGGCGGCGGTTGCTG chr6B_98 CAGGTTGGATCCTTTCGACCTACTCTTCTGTTCATGGGCGGCGGTTGCTG chrUn_98 CAGGTTAGATTCTTTCAATCTACTCTTTTCTTCATCGACGGCGGTTGCTG chr2B_159 CAAGTTAGATTCTTTCGATCTACTCTTCTCTTCATCGGCGACGATTGTTG chr6B_446 TAATTTGGTTCCTTTCGATCTACGTTTCTCTTTATCGGAGAGGGATGCTG chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------S----------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TTCTAATGTATATATAGGATCTTATAATGTCGATTTTCCGACTGTTTATT chr6B_96 -------------------------------------------------- chr6A_96 TTCTAATGTATATATGGGATCTTAGAATGTCGATTTTCTAACTGTTTATT chr6B_98 TTCTAATGTATATATGGGGTCTTAGAATGTTGATTTTCCGACTGTTTATT chrUn_98 TTCTAATGTATATATGGGGTCTGAGGATGTCGATTTTCCGACTGTTTATT chr2B_159 TTCTAATGTATATATGGGGTTTGAGGATGTCGATTTTCCGACTGTTTATT chr6B_446 TTCTAGTGTATGAGGCCA----TAGAAGGAAGATTTTCCGACTGTTTATT chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ---------------S--------S------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 ACAATAAGATTTGCG----------------------------------- chr6B_96 -------------------------------------------------- chr6A_96 ACAATAAGATTTGCG----------------------------------- chr6B_98 ACAATAAGATTTGCG----------------------------------- chrUn_98 ACAATAAAATTTGCC----------------------------------- chr2B_159 ACAATAGAATTTGCC----------------------------------- chr6B_446 ACAATAAGGTTTTCCCAGTGCCTTGCAATCCACCTAAGTATTGAATTTAA chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 -------------------------------------------------- chr6B_96 -------------------------------------------------- chr6A_96 -------------------------------------------------- chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 CATGGTCCCTCTTACCTCCTCTTTTCACAAGAGAGGTAAGAGTATAAAAT chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 -------------------------------------------------- chr6B_96 -------------------------------------------------- chr6A_96 -------------------------------------------------- chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 AGATCTGAGCCATTGATCTCATTAATTAATAGCCTGATTAACTCTTACCT chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 -------------------------------------------------- chr6B_96 -------------------------------------------------- chr6A_96 -------------------------------------------------- chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 TCTTACCTCACATGTAAAAGGAGGAGGTAAGAGGGACCATGCTAAAATTT chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 ----------------CGGCACCATGCAGTCCACCTAAGTCTGCATGTGA chr6B_96 -------------------------------------------------- chr6A_96 ----------------CGGCGCCATGCAGTCCACCTAAGTCTGCATGTGA chr6B_98 ----------------CGGCGCAATGCAGTCCACCTAAGTCTGCATGTGA chrUn_98 ----------------GGGCGCCATGCAGTCCACCTAAGACTGCATGTGA chr2B_159 ----------------CGGCGCCATGCAGTCCACCTAAGTCTGCATGTGA chr6B_446 GCCTTGAATTTGAGATGCGTGCCTCCCAGTGCACCTCAGTCTGCATGTGA chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------S----------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GCTCGCGACCGAACGA---------------------------------- chr6B_96 -------------------------------------------------- chr6A_96 GCTCGCGATCGAACGA---------------------------------- chr6B_98 GCTCGCGATCGAACGA---------------------------------- chrUn_98 GCTCGTGATCGAACGAACACCCCATGGTCTCCTTGCTTAACGACATGCGT chr2B_159 GCTCGTGATCGAACGAACACCCCATGGTCTCCTTGCTTAACGACATGCGT chr6B_446 GCTCGTGATCGAACGAACACCCGATGGTCTCCTGGCTTAACAACCTGTGT chr6B_880 -------------------------------------------------- chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------S----------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 -----------ACGGATGAGTCGGTTGATCGTAAGACTTTTCCATATTTG chr6B_96 -------------------------------------------------- chr6A_96 -----------ACGGATGAGTCGGTTGATCGTAAGCCTTTTCCATATTTG chr6B_98 -----------ACGGATGAGTCGGTTGATCGTAAGACTTTTCCATATTTG chrUn_98 TCACGCGGCCAACGGATCAGTCGGTTGACTGTAA---------------G chr2B_159 TCACGCGGCCAACGGATCAGTCGGTTGACCGTAA---------------G chr6B_446 TTACGCGGGCAACGGATCAGTCGGTTGATCGCAAGACTTTTCCATTTTGG chr6B_880 ---------------------------------------TTCCACTTTTG chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CCACATAGTCTCCTGGCTTTGAAAGGAGCACC-GATGGA----------T chr6B_96 -------------------------------------------------- chr6A_96 CCACATAGTCTCCTGGCTTTAAAAGAAGCACCCGATGGA----------T chr6B_98 CCACATAGTCTCCTGGCTTTAAAAGGAGCACC-GACGGATAACA------ chrUn_98 CCACATAGTCTCCTGGCTTTAAAAGGAGCACCCGATGGA----------C chr2B_159 CCACATAGTCTCCTGGCTTTAAAAGGAGCACCCGATGGA----------T chr6B_446 CCACATGTGTTT-------------------------------------- chr6B_880 CCACATAGTCTCCTGGCTTTAAAAGGAGCACCCGATGGATAATCCTATCT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------S----------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AACA-----------GGGACGTGAACGAAGCAGGAGCC------------ chr6B_96 -------------------------------------------------- chr6A_96 AACA-----------GGGACGTGGACGAAGCAGGAGCC------------ chr6B_98 ---A-----------GGGACGTGGACGAAGCAGGAGCC------------ chrUn_98 AATCCTAAGCTAACCG---------------------------------- chr2B_159 AATCCTAAGCTAACCGGGACGTGGA------------------------- chr6B_446 ------------------ACGTGGACGAAGCAAGATGTGGGACGAGGCAG chr6B_880 AACA-----------GGGACGTGGACGAAGCAGGAGCC------------ chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -----------------------S-------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 --------ACGCAGTAC-----GTCTTAAACTCGAGCCAACGCCACGCAG chr6B_96 -------------------------------------------------- chr6A_96 --------ACGCAGTAC-----GTCTTAAACTCGAGCCAACGCCACGCAG chr6B_98 --------ACGCAGTAC-----GTCTTAAACTCGAGCCAACGCCACGCAC chrUn_98 -------------------------------------------------- chr2B_159 ------------------------------------------CGAAGCAG chr6B_446 CAAAACGTACGCAATCC-----GTCTTAT--------------------- chr6B_880 --------ACGCAGTACAGTACGTCTTAAACTCGAGCCAACGCCACGCAG chr6B_971 --------------------------------CGAGCCAAAGCGACGCAG chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------CGGATACACGCACGTCGTCTTATGATATTGAACCCGAGTCTAC chr6B_1_TraesCS6B01G003700 TAAGTCTCGGATACACGCACGTCGTCTTATGATATTGAACCCGAGTCTAC chr6B_96 -------------------------------------------------- chr6A_96 TACGTCTCGGACACACGCACATCGTCTTATGATATTGAAACCGAGTCTAC chr6B_98 TACGTCTCGGACACA-GCACATCGTCTTATGATATTGAATCCGAGTCTAC chrUn_98 --------GGACACACGCACATCGTCTTATAATATTGAACCCGAGTCCAC chr2B_159 GCCGTCTCGGACACACGCACACCGTCTTAGAATATTGAACCCGAGTCCAC chr6B_446 -------------------------------------------------- chr6B_880 TACGTCTCGGACATACGCACATCATCTTATGATATTGAACCCGAGTCTAC chr6B_971 TCCGTCTCGGACACACGCACATCGTCTTATAATATTGAACCCGAGTCTAC chr6B_1015 ---------------------TCGTCCTATATTATTGAACCCGAGTCCAC chr6D_1026 --------------------------------TATTGAACTCGAGTCCAC chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --S--------S--------S----------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -AAGTCTCGGATACACGCACG----------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTCGTACTACTCTCATGAAGC--------CCTTAAATTGAGCCCCCGGCG chr6B_1_TraesCS6B01G003700 TTCGTACTACTCTCATGAAGC--------CCTTAAATTGAGCCCCCGGCG chr6B_96 -------------------------------------------------- chr6A_96 TTCGTACTACTCTCATGAAGC--------CCTTAAAGTTAGCCCCCGGCG chr6B_98 TTCGTACTACTCTCATGAAGC--------CCATAAAGTTAGCCCCCGGCG chrUn_98 TTCGTACTACTCCCATGAAGCGTTGTGCCCATAAAGTTAAGCCCCCGGCG chr2B_159 TTCGTACTACTCTTATAAAGCGTTGTGCCCATAAAGTTAAGCCCTGGGCG chr6B_446 -------------------------------------------------- chr6B_880 TTCGTACTACTCTCATGAAGC--------CCTTAAAGTTAGCCCCCGGCG chr6B_971 TTC-----------ATGAAGC--------CCTTAAATTGAGCCCCCGGCG chr6B_1015 TTCGTCCTACTCTCATGAAGCGCTGTGC-CTTTAAAGTTAGCCCCCGGCG chr6D_1026 TTCGTCCTACTCTCATGAAGCGCTGTGC-CCTTAAAGTTAGCCCCCGGCG chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTGCAAGAAACCGCCAG chr6B_1_TraesCS6B01G003700 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTGCAAGAAACCGCCAG chr6B_96 -------------------------------------------------- chr6A_96 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTGCAAGAAACCGCCAG chr6B_98 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTACAAGAAACCGCCAG chrUn_98 TGTCGCCGCCCGCATGCG----------CTGTCG---------CCGCCAG chr2B_159 TGTCCCTCCAACAATCAAACGCCCCCGCCTGTCG---------CCGCCAG chr6B_446 -------------------------------------------------- chr6B_880 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTTCATGAAACCGCCAG chr6B_971 TATCCCTTCATCAATCAAACGCCTCCGCTGCATGTGCAAGAAACCGCCAG chr6B_1015 TGTCCCTCCAACAATCAAACGCC---------C----------CCGCCAG chr6D_1026 TGTCCCTCCAACAATCAAGCGCCGCCGCCTGTC----------CCGCCAG chrUn_1129 -------------------------------------------CCGCCAG chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CATGAACTGCCTGAGAAACACGCGCTTAG------TTTTCTCCAGGCTCC chr6B_1_TraesCS6B01G003700 CATGAACTGCCTGAGAAACACGCGCTTAG------TTTTCTCCAGGCTCC chr6B_96 -------------------------------------------------- chr6A_96 CATGAACTGCCTGAGGAACACGCGCTTAG------TTTTCTCCAGGCTCC chr6B_98 CATGAACTGCCTGAGGAACGGGCGCTTAG------TTTTCTCCAGGCTCC chrUn_98 CATGAACTGGCTCAGGAACTCGCGCTTGCGCTTAATTTTCTCCAGGCTCC chr2B_159 CATGAACTGGCTCAGGAACTCGCGCTTAAT-----TTTTCTCCAGGCTCC chr6B_446 -------------------------------------------------- chr6B_880 CATGAACTGCCTGAGGAACGCGCGCTTAG------TTTTCTCCAGGCTCC chr6B_971 CATGAACTGCCTAAGAAACGCGCGCTTAG------TTTTCTCCAGGCTCC chr6B_1015 CATGAACTGGCTCAGGAAG------TTGCGCTTAATTTTCTCCAGGCTCC chr6D_1026 CATGAACTGGCTCAGGAACTC------GCGCTTAATTTTCTCCAGGCTCC chrUn_1129 CATGAGCTGGCTCAGGAACTC------GCGCTTAATTTTCTCCAGGCTCC chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chr6B_1_TraesCS6B01G003700 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chr6B_96 -------------------------------------------------- chr6A_96 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chr6B_98 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chrUn_98 AGATCGTCCGACGCTACTGCAACCCTGCCCGGACACTACGAGTTCCTCGA chr2B_159 AGATCGTCCGACGCTACTGCATCCCTGCCCAGACACTACGAGTTCCTCGA chr6B_446 -------------------------------------------------- chr6B_880 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chr6B_971 AGATCGTCCGACGCCACTTCAACCCCGCCCAGCCACTGCCAGGACCTCGA chr6B_1015 AGATCGTCCGACGCTACTGCAACCCTGCCCAGACACTACAAGGTCCTCGA chr6D_1026 AGATCGTCCGACGCTACTGCAACCCTGCCCAGACACTACCAGGTCCTCGA chrUn_1129 AGATTGTCCGACGCTACTGCAACCCTGCCCAGACACCACCAGGTCCTCGA chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TCGCATTCCATTGTCAT-GGGCTCAATCCGACGGCTCTTTCTCCGCCAAG chr6B_1_TraesCS6B01G003700 TCGCATTCCATTGTCAT-GGGCTCAATCCGACGGCTCTTTCTCCGCCAAG chr6B_96 -------------------------------------------------- chr6A_96 TCGCATTCCATTGTCAT-GGGCTCAATCCGACGGCTCTTTCTCTGCCAAG chr6B_98 TCGCATTCCATTGTCAT-GGGCTCAATCCGACGGCTCTTTTTCCGCCAAG chrUn_98 TCGCATGCCAATGTCAT-GGGCTCAATCCGACGGCTCTTTTCCTGCCACG chr2B_159 TCGCATTCCAATGTGAT-GGGCTCAATCCGACGGCTCTTTTCCTGCCCCG chr6B_446 -------------------------------------------------- chr6B_880 TCGCATTCCATTGTCAT-GGG-TCAATCCGACGGCTCTTTTTCCGCCAAG chr6B_971 TCACATTCCATTGTCAT-GGGCTCAATCCGACCGCTCTTTCTCCGCCAAG chr6B_1015 TCGCGTTCCAATGTCATGGGC-TCAATCCGACGGCTCTTTTTCCACCAAG chr6D_1026 TCGCGTTCCAATGTCATGGGC-TCAATCCGACGGCTCTTTTTCCGCCA-- chrUn_1129 TCGCGTTCCAATGTCATGGGC-TCAATCCGACGGCTCTTTTTCCGCCA-- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CCAAGCCGGCCGCG---------GCCTCCCATGTGGGTCACGCGCCGTCA chr6B_1_TraesCS6B01G003700 CCAAGCCGGCCGCG---------GCCTCCCATGTGGGTCACGCGCCGTCA chr6B_96 -------------------------------------------------- chr6A_96 CCAAGCCGGCCACG---------GCCTCCCATATGGGTCACGCGCCGTCA chr6B_98 CCAAGCCGGCGGCG---------GCCTCCCATATGGGCCACGCGCCGTCA chrUn_98 CCAAGCCTGCCA------------CCTCCCATATGGCCCATGCGTGGTCA chr2B_159 CCAAGCCTGCCA------------CCTCCCATATGGCCCACGCGTGGTCA chr6B_446 -------------------------------------------------- chr6B_880 CCAAGCCGGCGGCG---------GCCTCCCATATGGGCCACGCGCCGTCA chr6B_971 CCAAGCCGGCCGCG---------GCCTCCCATATGTGCCACGCGCCGTCA chr6B_1015 CCAAGCCT---GCC---------GGCTCCCATATGGCCCATGCGCGGTCA chr6D_1026 ----------CGCC---------GCCTCCCATATGGCCCATGCGCGGTCA chrUn_1129 ----------CGCCAAGCCTGCCGGCTACCATATGGCACATGCGATGTCA chr6B_1426 -------------------------------------------------- SNPs --------------------------------S----------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CTGCCGAGATTCGTGTCACGGAGCCGACCGCGGTGGTACCAAAACCCGTG chr6B_1_TraesCS6B01G003700 CTGCCGAGATTCGTGTCACGGAGCCGACCGCGGTGGTACCAAAACCCGTG chr6B_96 -------------------------------------------------- chr6A_96 CTGCCGGGATTCGTGTCACGGAGCCGACCGCGGTGGTACCAAAACCCGTG chr6B_98 CTGCCGAGATTCGTGTCACGGAGCCGACCTCGATGGTACCCGAACCTGTG chrUn_98 CTGCCGGCAGTCGTCTCACGGAGCCGACCGCGGTGGTACCCGAACCCGTG chr2B_159 CTGCCGGCAGTCGTCTCACGGAGCCGACCGCGGTGGTACACGAACCTGTG chr6B_446 -------------------------------------------------- chr6B_880 CTGCCGAGATTCGTGTCATGGAGCCGACCGCGATGGTACCTGAACCTGTG chr6B_971 CTGCCGGGATTCGTGTCACGGATCCGACCGCGGTGGTACCAAAACCCGTG chr6B_1015 CTGCCGGCAGTCGTCTCACGGAGCCGACCGCGGTGGTACCCGAACCCGTG chr6D_1026 CTGCCGGCAGTCGTCTCACGGAGCCGACCGCGGTGGTACCCGAACCCGTG chrUn_1129 CTGCCGGCAGTCGTCTCACGGAGCCGACCGCGGTGGTACCCAAACCAATG chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GAAGGTGGCCGCCGCGGTGGTTGTCGCCCCCTACGCAGCCAAGTTCATTC chr6B_1_TraesCS6B01G003700 GAAGGTGGCCGCCGCGGTGGTTGTCGCCCCCTACGCAGCCAAGTTCATTC chr6B_96 -------------------------------------------------- chr6A_96 GAAGGTGGCTGCCGCGGTGGTTGTCGCCCCCTACGCAGCCAAGTTCATTC chr6B_98 GAAGGTGGCCGCCGCGGTGGTTGTCCTGCCCTACGCTGCCAAGTTCAGTA chrUn_98 GAAGGTGGCCGCCGCGATGGTTGTCCTGCCCTACGCTGCCAAGTTCAGTA chr2B_159 GAAGGTGGCCGCCGCGGTGGTTGTCCTGCCCTACGCTGCCAAGTTCAGTA chr6B_446 -------------------------------------------------- chr6B_880 GAAGGTGGCCGCGGCGGTGGTTGTCCTGCCCTACGCCGCCAAGTTCAGTA chr6B_971 GAAGGTGGCCGCCGCGGTGGTTGTCGCCCCCTACGCAGCCAAGTTCATTC chr6B_1015 GAAGGTGGCCGCCGCGGTGGTTGTCCTGCCCTACGCTGCCAAGTTCAGTA chr6D_1026 GAAGGTGGCCGCTGCGGTGGTTGTCCTGCCCTACGCTGCCAAGTTCAGTA chrUn_1129 GAAGGTGGCCGCCGCGGTGGTTGTCCTGCCCTACACTGCCAAGTTCAGTA chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTTACACCGCGATAAGCAAAGAAGAGACCGTTCCCTACACCAATCGGGCC chr6B_1_TraesCS6B01G003700 TTTACACCGCGATAAGCAAAGAAGAGACCGTTCCCTACACCAATCGGGCC chr6B_96 -------------------------------------------------- chr6A_96 TTTACACCGCGATAAGCACAGAAGAGACCGTTCCCTACACCAATCGGGCC chr6B_98 TTTTTGCTGCGATAAGCCAAAACGAGACCGTGCCCTTCAGCAACCGGGCC chrUn_98 TTTTTGCTGCGATAAGCCAAAAAGAGACCGTGCCCTACACCAACCAGGCC chr2B_159 TTTTTGCCGCGATAAGCCAAAAAGAGACTGTGCCCTACACCAACCAGGCC chr6B_446 -------------------------------------------------- chr6B_880 TTTTTGCTGCGATAAGCCAAAAAGAGACCGTGCCCTTCAGCAACCGGGCC chr6B_971 TTTACACCGCGATAAGCAAAGAAGAGACCGTTCCCTACACCAATCGGGCC chr6B_1015 TTTTTGCCGCGATAAGCCAAAAAGAGACTGTGCCCTACACCAACCGGGCC chr6D_1026 TTTTTGCCGCGATAAGCCAAAAAGAGACCGTGCCCTACACCAACCGGGCC chrUn_1129 TTTTTGCCGCGGTAAGCCAAAAAGAGACCGTGCCCTGCACCAACCGGGCC chr6B_1426 ------CCGCGATAAGCCAAAAAGAGACCGTGCCCTACACCAACCGGGCC SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CATCGTGTCCTCCTGACCTCATCGGAGGAACACGAGTTTGGCGACGAAAT chr6B_1_TraesCS6B01G003700 CATCGTGTCCTCCTGACCTCATCGGAGGAACACGAGTTTGGCGACGAAAT chr6B_96 -------------------------------------------------- chr6A_96 CATCGTGTCCTCCTGACCTCATCGGAGGAACGCGAGTTTGGCGACGAAAT chr6B_98 CATCGTGTCCTCCTGACATCGTCGGAGGAGCGCGAGTTTGGCGACAAAAA chrUn_98 CATCGTGTCCTCCTGACCTCGTCGGAGGAGCGCAAGATTGGCGAAGAAAG chr2B_159 CATCGTGTCCTCCTGACCTCGTCGGAGCAGCGCGAGTTTGGCGATGAAGA chr6B_446 -------------------------------------------------- chr6B_880 CATCGTGTCCTCCTGACCTCGTCGGAGGAGCGCGAGTTTGGCGACAAAAA chr6B_971 CATCGTGTCCTCCTGACCTCATCGGAGGAACGCAAGTTTGGAGACGAAAT chr6B_1015 CATCGTGTCCTCCCGACCTCGTCGGAGGAGCGCAAGTTTGGCGACGAAAG chr6D_1026 CATCGTGTCCTCCTGACCTCGTCGGAGGAGCGCGAGTTTGGCGATGAAGA chrUn_1129 CATCGTGTCCTCCTGACCTCGTCGGAGGAGTGCAAGTTTGGCGATGAAAG chr6B_1426 CATCGTGTCCTCCTGACCTCGTCGGAGGAGCGCAAGTTT-GCGACAAAAA SNPs -------------------------------S------------------ forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CTTCAACGATCGCAAGAAGAAGTACGGCAAAGACATCCTTGGCCCGTCTG chr6B_1_TraesCS6B01G003700 CTTCAACGATCGCAAGAAGAAGTACGGCAAAGACATCCTTGGCCCGTCTG chr6B_96 -------------------------------------------------- chr6A_96 CTTCAACGATCGCAAGAAGAAGTACGGCAAAGACATCCTTGGCCCGTCTG chr6B_98 TTTCAACGATTGGAAGAAGAAGAACGGCAAAGACATCCTTGGCCCGTCTG chrUn_98 ATTCAACGTTTGGAAGAAGAGGAACGGCAAAGACATCCTTGGCCCGTCTG chr2B_159 CTTCAACGATTGGAAGGAGAAGCGCGACAAATACATCCTTAGCCCGTCTG chr6B_446 -------------------------------------------------- chr6B_880 TTTCAACGATTGGAAGAAGAAGAACGGCAAAGACATCCTTGGCCCGTCTG chr6B_971 CTTCAACGATCGCAAGATGAAGTACGGCAAAGACATCCTTGGCCCGTCTG chr6B_1015 ATTCAACAATCGCAAGAAGAAGTACAGCAAAGACATCCTCGGCCCGTCTG chr6D_1026 CTTCAACGATTGGAAGAAGAAGCGCGGCAAAGACATCCTTGGCCCGTCTG chrUn_1129 ATTCATCGATTGGAAAAAGTGGAACGGCAAAGACATCCTTGGCCCGTCTG chr6B_1426 TTTCAACGATTGGAAGAAGAAGAACGGCAAAGACATCCTTGGCCCGTCTG SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 ACCCGAGGACTGTCCGCGTCCGCCGCGTCGCCTCTGATATCATCCATGGA chr6B_1_TraesCS6B01G003700 ACCCGAGGACTGTCCGCGTCCGCCGCGTCGCCTCTGATATCATCCATGGA chr6B_96 -------------------------------------------------- chr6A_96 ACCCGAGGACTGTCCGCGTCCGCCGCATCGCCTCTGATATCATCCATGGA chr6B_98 ACCCGAGGACTGTCCTCGTCCGCCACATCGCCTCAGACATCATCCAATGA chrUn_98 ACCCGAGGACTGTCCTTGTCCGCTGCATCACATCAGACATCATCCATGGA chr2B_159 ACCCGAGGACTGTTCTCGTCCGCCGCATCGCCTCAGACATCATCCACGGA chr6B_446 -------------------------------------------------- chr6B_880 ACCCGAGGACTGTCCTCGTCCGCCGCATCGCCTCAGATAACATCCACGGA chr6B_971 ACCCGAGGACTGTCCGCGTCCGCCGCATCGCCTCTGATATCATCCATGGA chr6B_1015 ACCCGAGCACTGTCCGCGTCCGCCGCATCGCCTCTGATATCATCCACGGA chr6D_1026 ACCTGAGGACTGTCCTCGTCCGCCGCATCGCCTCAGACATCATCCACGGA chrUn_1129 ACCCGAGGACTGTCCTTGTCCGCCGCATCGCCTCAGACATCATCCACGGA chr6B_1426 ACCCGAGGACTGTCCTCGTCTGCCGCATCGCCTCAGACATCATCCACGGA SNPs --------------------------S----------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GTCCGCCGCCTCTT-CGC-CAACAACACCATCCACGACGATGATGTTAAA chr6B_1_TraesCS6B01G003700 GTCCGCCGCCTCTT-CGC-CAACAACACCATCCACGACGATGATGTTAAA chr6B_96 -------------------------------------------------- chr6A_96 GTCCGCCGCCTCTT-CCCCAAC-AACGCCATCCACGACGATGATGTTAAA chr6B_98 GTCCGCCGCCTCTT-CCCCAAA-AACGGCATCCATGACGATGATGTTAAG chrUn_98 GTCCGCCGCCTCTT-CCC-CAACAACGGCATCCATGACGATGATGTTAAG chr2B_159 GTCCGCCGCCTCTT-CCC-CAACAACGGCATCCATGACGATGATGTTAAG chr6B_446 -------------------------------------------------- chr6B_880 GTCCGCCGCCTCTT-CCC-AAA-AACGGCATCCATGACGATGATGTTAAG chr6B_971 GTCCGCCGCCTCTT-CCC-CAACAACGCCATCCACGACGATGATGTTAAA chr6B_1015 GAACGCCGCCTCTT-CCC-CAACAACGCCATCCACGACGATGATGTTAAA chr6D_1026 GTCCGCCGCCTCTT-CCC-CAACAACGGCATCCATGACGATGATGTTAAG chrUn_1129 GTCCACCGCCTCTT-CGC-CAACAACGGCATCCATGACGATGATGTTAAG chr6B_1426 GTCCGCCGCCTCAACCCC-AAA-AACCGCATCCATGACGATGATGTTAAG SNPs --------------------------S----------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CAGGGGAAGGTTGTGCTGCGGCCACAGACGGAGCATCTCAATGACCTTAA chr6B_1_TraesCS6B01G003700 CAGGGGAAGGTTGTGCTGCGGCCACAGACGGAGCATCTCAATGACCTTAA chr6B_96 -------------------------------------------------- chr6A_96 CAGGGGAAGGTTGTGCTGCGGCCACAGACGGAGCATCTCAATGACCTTAA chr6B_98 CAGGGGAAGGTGGTGGTGCAGCCACAGGCGGTGCACCTCAATGACCTTAA chrUn_98 CAGGGGAAGGTGATGGTGCGGCCACAGACGGTGCACCTCAATGACCTTAA chr2B_159 CAGGGGAAGGTGGTCGTGCGGCCACAGACGGGGCATCTCACTGACCTTAA chr6B_446 -------------------------------------------------- chr6B_880 CAGGGGAAGGTGGTAGTGCGGCCACAGACGGGGCATCTCAATGACCTTAA chr6B_971 CAGGGGAAGGTTGTGCTGCGGCCACAGACGGAGCATCTCAATGACCTTAA chr6B_1015 CAGGGGAAGGTTGTGCTGCGGCAT-AGACGGAGCATCTCAGTGACCTTAA chr6D_1026 CAGGGGAAGGTGGTGATGCGGCCACAGACGGGGCATCTCAATGACCTTAA chrUn_1129 CAGGGGAAGGTGGTGGTGTGGCCACAGACGGGGCACCTCAATGAACTTAA chr6B_1426 CAGGGGAAGGTGGTAGTGCGGCCACAGACGGGGCATCTCAATGACCTTAA SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CTGGGAGGTGATCGTTGTCAAGGATGAAAAAATAAACGCGTTCAGCACGT chr6B_1_TraesCS6B01G003700 CTGGGAGGTGATCGTTGTCAAGGATGAAAAAATAAACGCGTTCAGCACGT chr6B_96 -------------------------------------------------- chr6A_96 CTGGGAGGTGATCGTTGTCAAGGATGAAAAAATAAACGCGTTCAGCACGT chr6B_98 CTGGGAGGTGATGGTTGTCGAAGATGACAACGTAAAGGCTTTCAGCTCGA chrUn_98 CTGGGAGGTGATGGTTGTCGAAGATGACAACGTAAAGGCTTTCAGCTCGA chr2B_159 CTGGGAGGTGATGGTTGTCGAAAATAACAAAGTAAGGGCTTTCAGCTTGA chr6B_446 -------------------------------------------------- chr6B_880 CTGGGAGGTGATGGTTGTCGAAGATGACAAAGTAAAGGCTTTCAGCTCAA chr6B_971 CTGGGAGGTGATCGTTGTCAAGGATGAAAAAGTAAACGCGTTCAGCACGT chr6B_1015 CTTGGAGGTGATCGTTGTCAAGGATGACAAAATAAACGCGTTCAGCACGT chr6D_1026 CTGGGAGGTGATGGTTGTCGAAGATGACAAAGTAAGGGCTTTCAGCTCAA chrUn_1129 CTGGGAGGTGATGGTTGTCAAAGATGACAAAGTAAAGGCTTTCAGCTCGA chr6B_1426 CTGGGAGGTGATGGTTGTCGAAGATGACAAAGTAATGGCTTTCAGCTCAA SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TGGGCGGGAAGATTGTAATCTACACTGGATACCTCGAGCATTTGAAGACC chr6B_1_TraesCS6B01G003700 TGGGCGGGAAGATTGTAATCTACACTGGATACCTCGAGCATTTGAAGACC chr6B_96 -------------------------------------------------- chr6A_96 TGGGCGGGAAGATTGTAATCTACACTGGATACCTCGAGCATTTGAAGACC chr6B_98 AGGGCGGGAAGATTGTAATCCACACTGGATACCTCAAGCATTTGAAGACC chrUn_98 AGGGTGGGAAGATTGTAATCCACACTGGATGCCTCAAGCATTTGAAGACC chr2B_159 AGGGCGGGAAGATTGTAATCCACACTGGATACCTCAAGCATTTGAAGACC chr6B_446 -------------------------------------------------- chr6B_880 AGGGCGGGAAGATTGTTATCCACACTGGATACCTCAAGCATTTGAAGACC chr6B_971 TTGGCGGGAAGATTGTAATCTACACTGGATACCTCGAGCATTTGAAGACC chr6B_1015 TCTGCGGGAAGATTGTAATCTA---------------------------- chr6D_1026 AGGGCGGGAAGATTGTAATCCACACTGGATACCTCAAGCATTTGAAGACC chrUn_1129 CTGGCGGGAAGATTGTAATCCACACTGGATACCTCAAGCATTTGAAGACC chr6B_1426 AGGGCGGGAAGATTGTAATCCACACTGGATGCCTCAAGCATTTGAAGGCC SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GATGCTGAGCTTGCCACCGTTATTGCGCATGAGGTAGGTTTTCCTTATTT chr6B_1_TraesCS6B01G003700 GATGCTGAGCTTGCCACCGTTATTGCGCATGAGGTAGGTTTTCCTTATTT chr6B_96 -------------------------------------------------- chr6A_96 GATGCTGAGCTTGCCACCGTTATTGCGCATGAGGTAGGTTTTCCTTATCA chr6B_98 GATGCCGAGATTGCCACTGTTATTGCGCATGAGGTAGGTTCTCCTTATTG chrUn_98 GATGCCGAGATTGCCACTGTTATTGCGCATGAGGTAGGTTCTCCTTATTG chr2B_159 GATGCCGAGATTGCCACCGTTATTGGCCATGAGGTAGGTCTCCCTTATTG chr6B_446 -------------------------------------------------- chr6B_880 GATGCCGAGATTGCCACTGTTATTGCGCATGAGGTAGGTTCTCCTTATTG chr6B_971 GATGCTGAGCTTGCCACCGTTATTGCGCATGAGGTAGGTTTTCCTTATTT chr6B_1015 -------------------------------------------------- chr6D_1026 GATGCCGAGATTGCCACCGTTATTGGCCATGAGGTAGGTCTCCCTTACTG chrUn_1129 GATGCCGAGATTGCCACCGTTATCGGCCATGAGGTAGGTCTCCCTTATTG chr6B_1426 GATGCCGAGATTGCCACTGTTATTGCGCATGAGGTAGGTTCTCCTTATTG SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GAGGATCGGTGCATTTAAATTTG-----------CACAGGATGTGGAGGT chr6B_1_TraesCS6B01G003700 GAGGATCGGTGCATTTAAATTTG-----------CACAGGATGTGGAGGT chr6B_96 -------------------------------------------------- chr6A_96 GAGGATCGGTGCATT------TG-----------CACAGGATGTGGAGGT chr6B_98 GAGCATTGGTGCATTT------G-----------TAGAGGATGCGGAGGT chrUn_98 GATCATCGGTGCATTT------G-----------GAGAGGATGCGGAGGT chr2B_159 CAGTATCGGTGCATTT------GCAGACGGAAG----------------- chr6B_446 -------------------------------------------------- chr6B_880 GAGCTTCGGTGCATTT------G-----------CAGAGGATGTGGAGGT chr6B_971 GAGGATGGGTGCATTT------G-----------CACAGGATGTGGAGGT chr6B_1015 -------------------------------------------------- chr6D_1026 GAGTAT-----------------CAGACGGAAG----------------- chrUn_1129 GAGTATCGGTGCATTT------GCAGACGGAAG----------------- chr6B_1426 GATCAT-----------------CGCTGCCTTTGCAGAGGATGCGGAGGT SNPs ----------------SSSSS----------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------TTTGCACAGGATGTGGAGGT----------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTATTTTTGTAGGCC chr6B_1_TraesCS6B01G003700 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTATTTTTGTAGGCC chr6B_96 -------------------------------------------------- chr6A_96 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTATTTTTGTAGGCC chr6B_98 TTTGGTTATTTTCAAGTGGGACAGTCAATGACGCATTATTTTTGTAGGCC chrUn_98 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTCTTTTTGTAGGCC chr2B_159 TTTGGTTGTTTTCAAGTGGGACAGTCATTGACGCAATTTTTTTGCAGGCC chr6B_446 -------------------------------------------------- chr6B_880 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTCTTTTTGTAGGCC chr6B_971 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTATTTTTGTAGGCC chr6B_1015 -------------------------------------------------- chr6D_1026 TTTGGTTGTTTTCAAGTGGGACAGTCATTGACGCAATTTTTTTGCAGGCC chrUn_1129 TTTGGTTGTTTTCAAGTGGGACAGTCATAGACGGAATTTTTTTGCAGGCC chr6B_1426 TTTGGTTATTTTCAAGTGGGACAGTCATTGACGCCTTCTTTTTGTAGGCC SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGTTTAATTCCGTT chr6B_1_TraesCS6B01G003700 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGTTTAATTCCGTT chr6B_96 -------------------------------------------------- chr6A_96 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGTTTAATTCCGTT chr6B_98 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTTAATTCCGTT chrUn_98 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTTAATTCCGTT chr2B_159 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTCAATTCCGTT chr6B_446 -------------------------------------------------- chr6B_880 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTTAATTCCGTT chr6B_971 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGTTTAATTCCGTT chr6B_1015 -------------------------------------------------- chr6D_1026 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTCAATTCCGTT chrUn_1129 GCACATGTTGTTGCAAGGCATAGCATGGAGTTGTTGAGGTT-ATTCCGTT chr6B_1426 GCACATGTTGTTGCAAGG-------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CTACAAACTAATGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chr6B_1_TraesCS6B01G003700 CTACAAACTAATGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chr6B_96 -------------------------------------------------- chr6A_96 CTACAAACTAATGCCCTTCTCACGAAGGTATGTTAATTCACCGTTCACAT chr6B_98 CTACAAATTAACGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chrUn_98 CTACTAATTAATGCCCTTCCCACGAAGGTATGTTAATTCACCTTTCACAT chr2B_159 CTACAAACTAATGCCCTTCTCACGAAGGTA-------------------- chr6B_446 -------------------------------------------------- chr6B_880 CTACAAATTAATGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chr6B_971 CTACAAACTAATGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chr6B_1015 -------------------------------------------------- chr6D_1026 CTACAAACTAATGCCCTTCTCACGAAGGTA-------------------- chrUn_1129 CTACAAACTAATGCCCTTCTCACGAAGGTATGTTAATTCACCTTTCACAT chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTTAGGTACATTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chr6B_1_TraesCS6B01G003700 TTTAGGTACATTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chr6B_96 -------------------------------------------------- chr6A_96 GTTAGGTACATTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chr6B_98 TTTAGGTACATTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chrUn_98 TTTAGGTACATTGATTTAATAATAAATTACATTGTTTTTGAAATTAGTAA chr2B_159 --------CATTGATTTAATAATTAATAGCATTGTTCTTGAAATTAGTAA chr6B_446 -------------------------------------------------- chr6B_880 TTTAGGTACAATGATTTAATAATAAATTACATTGTTATTGAAATTAGCAA chr6B_971 TTTAGGTACATTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chr6B_1015 -------------------------------------------------- chr6D_1026 --------CAGTGATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chrUn_1129 TTAAGGTACATTAATTTAATAATTAATTACATTGTTCTTGAAATTAGTAA chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTGCATTCTCTCTTAGAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chr6B_1_TraesCS6B01G003700 TTGCATTCTCTCTTAGAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chr6B_96 -------------------------------------------------- chr6A_96 TTGCATTCTCTCTTAAAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chr6B_98 TTGCATTCTCTCATAAAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chrUn_98 TTGCATTCTCTCTTAAAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chr2B_159 TTGCATTCTGTTTTAAAAAAATA--GCATTTTGTATGGGAATTGGAACAT chr6B_446 -------------------------------------------------- chr6B_880 TTGCATTCTCTCTTAAAAA-ACA--ACATTTTGTTTGGAAATTGAAACAT chr6B_971 TTGCATTCTCTCTTGAAAA-ATA--ACATTTTGTTTGGAAATTGAAACAT chr6B_1015 -------------------------------------------------- chr6D_1026 TTGCATTCTCTCTTAAAAA-A-ACTACATTTTGTATGGAAACTGAAACAT chrUn_1129 TTGCATTCTCCCTTAAAAA-C-A--ACATTTTGTATGGAAATTGGAACAT chr6B_1426 -------------------------------------------------- SNPs ---------------S---------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 GCTGGTTTGCCAAATACTAGCTGCTCAATGTATGCAAGGATATTTTATTG chr6B_1_TraesCS6B01G003700 GCTGGTTTGCCAAATACTAGCTGCTCAATGTATGCAAGGATATTTTATTG chr6B_96 -------------------------------------------------- chr6A_96 GCTGGTTTGCCAAATACTAGCTGCTCAATGTATGCAAGGATATTTCATTG chr6B_98 GCTGGTTTGCCAAATACTAGTTGCTCTATGTATGCAAGGATATTTTATTG chrUn_98 GCTGGTTTGCCAAATACTAGCTGCTCTATGTATGCAAGGATATTTGATTG chr2B_159 GTTGGTTTGCCAAATACCAGGTTCTCTATGTATGCAAGGATATTTTATTG chr6B_446 -----------------------CTCATTGTATATAAGGATATTTTATTG chr6B_880 GCTGGTTTGCCAAATACTAGCTGCTCTATGTATGCAAGGATATTTGATTG chr6B_971 GCTGGTTTGCCAAATACTAGCTGCTCAATGTATGCAAGGATATTTTATTG chr6B_1015 -------------------------------------------------- chr6D_1026 GCTGGTTTGCCAAATACTAGGTGCTCTATGTATGCAAGGATATTTTATTG chrUn_1129 GATGGTTTGCCAAATACTAGATGCTCTATGTATGCAAGGATATTTTATTG chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TCGAGGC---TGTATATCTTATCTCTTGTCTGTTTTACCTGTATATACAT chr6B_1_TraesCS6B01G003700 TCGAGGC---TGTATATCTTATCTCTTGTCTGTTTTACCTGTATATACAT chr6B_96 -------------------------------------------------- chr6A_96 TCGAGGC---TGTATATCTTATCTCTTGTCTGTTTTACCTGTATATACAT chr6B_98 TCGAGGC---TGTATATCTTATCTCTTGTGTGTTTTACCTGTATATACAT chrUn_98 TCGAGGC---TGTATATGTTATCTCTTGTGTGTTTTACCTGTATATACAT chr2B_159 TTGAGGC---TGCATATCTTATCTCTTGTGTGTTTTACCTGTATATACAT chr6B_446 TAGAGGC---TATATATCTTATCTCGTTGTATTCTACC---TATATACAT chr6B_880 TCGAGGC---TGTATATCTTATCTCTTGTGTGTTTTACCTGTATATACAT chr6B_971 TCGAGGC---TGTATATCTTATCTCTTGTCTGTTTTGCCTGTATATACAT chr6B_1015 -------------------------------------------------- chr6D_1026 TCGAGGCAGCTGTATATCTTATCTA----------------TATATACAT chrUn_1129 TCGAGGC---TATATATCTTATCTCTTGTGTGTTTTACCTG--TATACAT chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr6B_1_TraesCS6B01G003700 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr6B_96 -------------------------------------------------- chr6A_96 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr6B_98 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chrUn_98 TGTAGGGCTGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr2B_159 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTAATGATAATGGCCGC chr6B_446 TGTAGGGCCGAATTGGAGGCTGATCTCGTCGGATTGATGATATTGGCCGC chr6B_880 TCTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATCATAAGGGCCGC chr6B_971 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr6B_1015 -------------------------------------------------- chr6D_1026 TGTAGGGCCGAATTGGAGGCAGATCACATCGGATTGATGATAATGGCCGC chrUn_1129 TGTAGGGCCGAATTGGAGGCGGATCACATCGGATTGATGATAATGGCCGC chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CGCTGGTTTCGATCCACGCGTAGCCCCTCAATTCCGCAAGAAGATTGGAG chr6B_1_TraesCS6B01G003700 CGCTGGTTTCGATCCACGCGTAGCCCCTCAATTCCGCAAGAAGATTGGAG chr6B_96 -------------------------------------------------- chr6A_96 CGCTGGTTTCGATCCACGCGTAGCCCCTCAGTTCCGCAAGAAGATTGGAG chr6B_98 TGCTGGTTTCGATCCACGCGTAGCCCCTGAGTTCTGCAAGAAGATTGGGG chrUn_98 TGCTGGTTTCGATCCACGCGTAGCCCCTGAGTTATGCAAGAAGATTGGAG chr2B_159 TGCTGGTCTCAATCCACGCGTAGCCCCTGAGTTCCGCAAGAAGATTGGAG chr6B_446 CGCTGGTTTCGGTCCACGCGTAGCCCCTGAGTTTCGCAAGAAGATTGGAG chr6B_880 CGCTGGTTTCGATCCACGCGTAGCCCCTGAGTTCCACAAGAAGATTGGAG chr6B_971 CGCTGGTTTCGATCCACGCGTAGCCCCTCAGTTCCGCAAGAAGATTGGAG chr6B_1015 -------------------------------------------------- chr6D_1026 TGCTGGTTTCGATCCACGCGTAGCCCCTGAGTTCCGCAAGAAGATTGGAG chrUn_1129 CGCTGGTTTTGATCCATGCGTAGCCCCTGAGTTCTGCAAGAAGATTGAAG chr6B_1426 -------------------------------------------------- SNPs ------------------------------S------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 AGATCATTGGAGACACGAAATTAATGGACTACATTTGTACTCATCCTTCG chr6B_1_TraesCS6B01G003700 AGATCATTGGAGACACGAAATTAATGGACTACATTTGTACTCATCCTTCG chr6B_96 -------------------------------------------------- chr6A_96 AGATCATTGGAGACACGAAATTAATGGACTACATTTGTACTCATCCTTCG chr6B_98 AGATCATTGGAGACACGAAATTAATGGACTACATCTGTACTCATCCTTTG chrUn_98 AGATCATTGGAGACACGAAATTAATGGACTACATCGGCACTCATCCTTCG chr2B_159 AGATCATTGGAGACACGAAATTAATGGACTACATCGGTACTCATCCTTCG chr6B_446 AGATCATTGGAGACACGATATTAATGGACTACATCAGTACTCATCCTTCG chr6B_880 AGATCATTGGAGACACGAAATTAATGGGCTACATATGTACTCATCCTTCG chr6B_971 AGATCATTGGAGACACGAAATTAATGGACTACATTTGTACTCATCCTTCG chr6B_1015 -------------------------------------------------- chr6D_1026 AGATCATTGGAGACACCAAATTAATGGACTACATCGGTACTCATCCTTCG chrUn_1129 AGATCACTGGAGAAATGAAATTAATGGACTACATTGGTACTCATCCTTCA chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chr6B_1_TraesCS6B01G003700 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chr6B_96 -------------------------------------------------- chr6A_96 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chr6B_98 TTTGAGACAAGATCACAGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chrUn_98 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chr2B_159 TTTCAGACAAGGTCACGGTTGTTATCGCGAAAGGAGGTCATGGAGGAGGC chr6B_446 TCTGAGACAAGATCGCGGATGTTATCACCAAGGGAGGTCATGGAGGAGGC chr6B_880 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGTGGC chr6B_971 TTTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chr6B_1015 -------------------------------------------------- chr6D_1026 TCTGAGACAAGATCACGGATGTTATCACGAAAGGAGGTCATGGAGGAGGC chrUn_1129 CTTGAGACAAGATCACGGATGTTATCACG-------------------GC chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 ATTGGAGCTGTACAAACAAGAACGCATGCGCAGGGAGAAGTGCCAATCTC chr6B_1_TraesCS6B01G003700 ATTGGAGCTGTACAAACAAGAACGCATGCGCAGGGAGAAGTGCCAATCTC chr6B_96 -------------------------------------------------- chr6A_96 GTTGGAGCTGTACAAAAAAGAACGTATGCGCAGGGAGAAGTGCCAATCTC chr6B_98 GTTGGAGCTGTACAAACAAGAACGTATGCACAGGGAGAAGTGCCAATCTC chrUn_98 GTTGGGGCTGTACAAACAAGAACGCATGCGCAGGGAGAAGTGCCAATCTC chr2B_159 GTTTGAGCTGTACAAACAAGAACGTATGCGCATGGAGAAGTGCCAATCTC chr6B_446 GTTGGAGCTGTACAA-CAAGCATGTAAGCACTCAGAGAAGTGCCAGTAGG chr6B_880 GTTGGAGTTGTACAAACAAGAATGTATGCGCAGGGAGAAGTGCCAATCTG chr6B_971 GTTGGAGCTGTACAAACAACAACGTATGCGCAGGGAGAAGTGCCAATCTG chr6B_1015 -------------------------------------------------- chr6D_1026 ATTGGAGCTGTACAAACAAGAACGTATGCGCAGGGAGAAGTGCCAATCTC chrUn_1129 ATTGGAGCTGTACAAACAAGAACGTATGCGCAGGGAGAAGTGCCAATGTT chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TGTCTTCCCTATGGTGGAACATCCTCGGACACCGATCTTGCTAGATGATC chr6B_1_TraesCS6B01G003700 TGTCTTCCCTATGGTGGAACATCCTCGGACACCGATCTTGCTAGATGATC chr6B_96 -------------------------------------------------- chr6A_96 TGTCTTCCCTATGGTGGAACGTCCTCGGACACCGATCTTGCTAGATGATC chr6B_98 TGTCTTCCCTATGGTGGAACGTCCTCGGATACCGATCTTGCTAGATGATC chrUn_98 TGTCTTC------------------------------------------- chr2B_159 TATCTTCCCTATGGTGGAACGTCCTTGGATACCCGTCATGCTAGATGATC chr6B_446 TGGG---CCTATGGTGGAACATCCTCGGGTATTGGTCTTACTAGATGACC chr6B_880 TGTCTTCCCTATGGTGGAACATCCTCGGATACCGATCTTGCTAGATGATC chr6B_971 TGTTTTCCCTATGGTGGAACGGCCTCGGATACCGATCTTGCTAGATGATC chr6B_1015 -------------------------------------------------- chr6D_1026 TGTCTTCCCTATGGTGGAACGTCCTCGGATACCGATCTTGCTAGATGATC chrUn_1129 TGTCTTCCCTATGGTGGAAAGTCCTTGGATACCGATCTTGCTAGATGATC chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 CGTTGCGTCAATGGTGCAATGACCAAATACAAGAGAAAAGTTAGCCAGAC chr6B_1_TraesCS6B01G003700 CGTTGCGTCAATGGTGCAATGACCAAATACAAGAGAAAAGTTAGCCAGAC chr6B_96 -------------------------------------------------- chr6A_96 CGTTGCGTCAATGGTGCAATGACCAAATACAACAGAAAAGTTAGCCAGAC chr6B_98 CGTTGCGTCAATGATGCAATGACCAAATACAACAGAAAAGTTAGCCAGAC chrUn_98 -GTTGTGTCAATGGTGCAATGACCAAATACAACAGAAAAGTTAGCCAGAC chr2B_159 CATTGCGTCAATGGCGCAATGACCAACTACAACAGAAAAGTTAGCCAGAC chr6B_446 TGTTGCGTCAAAGACGCCAAGATCAAATGCAACGGGAAAGTTAGGCGAAC chr6B_880 CATTGCATCAATGGTGCAATGGCCAAATACAACAGAAAAGTTAGCCAGAC chr6B_971 CGTTGCATCCATGGCGCAATGACCAAATACAACAGAAAAGTTAGCCAGAC chr6B_1015 -------------------------------------------------- chr6D_1026 CCTTGCGTCAATGGCGCAATGACCAAATACAACAGAAAAGTTAGCCAGAC chrUn_1129 CCTTGCGTCAATTGCGCGATGAGTAAAGACAATAGAAAAGTTAGCTAGAC chr6B_1426 -------------------------------------------------- SNPs --------------------------------S----------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 TACTATAAAATG-TTTTTTAATGAATAGTTGGAAATTAT----------- chr6B_1_TraesCS6B01G003700 TACTATAAAATG-TTTTTTAATGAATAGTTGGAAATTATGATGTTAATCT chr6B_96 -------------------------------------------------- chr6A_96 TACTATAAAATG-TTTTTTAATGAATAGTTGGAAATTATGATGTTAATCT chr6B_98 TACTATAAAATG-TTTTTTACTGAATCGTTGGAAATTATGATGTTAATCT chrUn_98 TACTATAAATTT-TTTTTTAGTGAATCGTTGGAAACTATGATGTTAATCT chr2B_159 TACTATAAAATG-TTTTT-AATGAATCGTTGGAAATTATGATGTTAATCT chr6B_446 GATTAGAAACTGATTTTT-AATAAATTAATGGAAATTATGAT-------- chr6B_880 TATTATAAAATGCCTTTT-AATGAATAGTTGGAAATTATGATGTTAATCT chr6B_971 TACTATAAAATG-GTTTTTAATGAATCATTAGAAATTATGATGTTAATCT chr6B_1015 -------------------------------------------------- chr6D_1026 TACTATAAAATG-TTTTTTAATGAACCGTTGGAAATTATGATATTAATCT chrUn_1129 TAATATACAGTGATTTTT-AATGAATTGTTGGAAATTATGATGTTAATAT chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CTTTTTCTTTTACGAAAAGTAGGATAACGTCCGGCCTCCATACCAAGCGA chr6B_96 -------------------------------------------------- chr6A_96 CTTTTTCTTTTACGAAAAGTAGGATAAGGTCCCGCCTCTATACCAAGCGA chr6B_98 CTTTTTCTTTTACGAAAAGTAGGATAACGTCCGGCCTCTAGACCAAGCGA chrUn_98 CCTTTTCTTTTACGGAAAGTAGAATAACGTCCGGACTCTACATCGAGCGA chr2B_159 CTTTTTCTTTCACGAAAAGTAGGATAACGTCCGGCCTCAATACCAAGCGA chr6B_446 -------------------------------------------------- chr6B_880 ATTTTTCTTTAACGAAAAGTAGGATAACGTCCGGCCTCTATACCAAGCGA chr6B_971 CTTTTTCTTTTACAAAAAGTAGGATTACGTCTGTCCTCTATACCAAGCGA chr6B_1015 -------------------------------------------------- chr6D_1026 CTTTTTCTTTTACGAAAAGTAGGATAACGTCCGGCCTCTATACCAAGCGA chrUn_1129 -TTTTTCTTTTACGAAAAGTAGGATAACCTCCGGCCTCTATATCGAACGA chr6B_1426 -------------------------------------------------- SNPs --------------------------------------S----------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 --------------------------------------CATACCAAGCGA input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TGCACACAACCATCTTTACTGTGATGTTAATCTATCTATCTATCATTATA chr6B_96 -------------------------------------------------- chr6A_96 TGCACACAACCATCTTTATTGTGATATTAATCTATCTATCTATCATTATA chr6B_98 TGCACACAACCATCTTTATTGTGATGTTAATCTATCTATCTATGATTATA chrUn_98 TGCACACAACCATCTTTATTGTGATGTTAATTTATC-------------- chr2B_159 TGCACACAACCATCTTTATTGTGATGTTACTCTATCTATCTATCAGTATA chr6B_446 -------------------------------------------------- chr6B_880 TGCACACAACCATCTTTATTGTGATGTTAATCTATCTATCTATCATTATA chr6B_971 TGCACACAACTATATTTATTGTGATGTTAATCTATCTATCTATCATTATA chr6B_1015 -------------------------------------------------- chr6D_1026 TGCACACAACCATCTTTATTGTGACGTTAATCTATCTATCTATCATTGTA chrUn_1129 TGCACATAACCATCTTTATTGTGATGTTCATCTATCTACCTATCATTATA chr6B_1426 -------------------------------------------------- SNPs ------------------S------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 TGCACACA------------------------------------------ input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TATTTAAAACAAGAGGCAAACAATGCATT----ACATTCATCTACATAGA chr6B_96 -------------------------------------------------- chr6A_96 TATTTAAAACAAGAGGCAAACAATGCATT----ACATTCGTCTACATAGA chr6B_98 TTTTTTAAACAAGAGGCAAACAATGCATT----ACGTTCATCTACATAGA chrUn_98 ---TTAAAACAAGAGGCAAACAAGGCATT----ACATTCGTCTACATAGA chr2B_159 TATTTAAAACAAGAGGCAAACAAGGCATT----ACATTCAT------AGA chr6B_446 -------------------------------------------------- chr6B_880 TATTTGAAACAAGAGGCAAACAATGCATT----ACATTCATCTACATAGA chr6B_971 CGTTTTAAACAAGAAGGC-------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 TATTTAAAACAAGAGGCAAACAAGGCATT----ACATTCATCTACATAGA chrUn_1129 TTTTTATAGCAACAGGCAAACACAACATTAATTACATTCATCTACATAGA chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TTAAATTATATTGGCCATAAATTT-----ATTGATGTCCGAGA-TTTTTT chr6B_96 -------------------------------------------------- chr6A_96 TTAAATTATATTGGCCATAAATTT-----ATTGATGTCCGAGA-TTTTTT chr6B_98 TTAAATTATATTGGCCATAAATTTTAGATATTGATATCTGAGA--TTTTT chrUn_98 TTAAATTATATTGGGCATAAATTTTAGATATTGATGTTTGAGA-TTTTTT chr2B_159 TTAAATTATATTGGCTGTAAATTTTAGATATTGATGTCTGAGA-TTTTAT chr6B_446 -------------------------------------------------- chr6B_880 TTAAACTATGTTGGTCATAAATTTTAGATATTGATGTCCGAGATTTTTTT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 TTAAATTATATTGGCCGTAAATTTTAGATATTGATGTCTGAGA-TTTTTT chrUn_1129 TTAAATTATATTGGCCGTAAATTT-------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TAACATGATACAAACGTAGATGCTCATACA------------GTCACCCC chr6B_96 -------------------------------------------------- chr6A_96 TAACACGATACAGATGTAGATGCTCATACA------------GTCACCCC chr6B_98 TAACACAGTACAGACGTAGATGCTCATACG------------CTCATCCC chrUn_98 TAACATAGTACAGACGTAGATGCTCATACA------------CTCACCCT chr2B_159 TAACACGGTACAGACGTAGATGCTCATACATATGCATGTACACTCACCTC chr6B_446 -------------------------------------------------- chr6B_880 TAACACGGTACAGACGTAGATGCTCATACA------------CTCACCCA chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 TAACACAGTACATACGTAGATGCTCATACATATGCATATACACTCACCCC chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ------------S------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TATAAATGCACGCATGCACACCTTACCCCTATGAACACCTTTGAGTGACT chr6B_96 -------------------------------------------------- chr6A_96 TATAAATGCACGCATGCACACCTTACCCCTATGAACACCTTTGAATGACT chr6B_98 TATGAATGCACGCATACACAACTTACCTCTATGAGCACCTTCGAGTGACT chrUn_98 TATGAATGCACGCATGCATACTTTACCACTATGAACACATTCGAGTGACT chr2B_159 TATGAATACACGCATGCACACCTTACCCCTATGA---------------- chr6B_446 -------------------------------------------------- chr6B_880 TATGAATGTATGCATGCACACCTTAACCCTATGAACACCTTCGAGTGACT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 TATAAATACACGCATGCACACCTTACCCCTATGAACAACTACAAGTGACT chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GAGTTGTGGCCCCGAAAGGAGCTTTAACAAAGTATTACATACATATATAT chr6B_96 -------------------------------------------------- chr6A_96 GAGTTGTGGCCCCGAAAGGAGCTTTAACAAAGTATTACATACATATATAT chr6B_98 GAGTTGTGGCTCCGGAAGGAGCTTCAACAAAGTATTACATACATATATAT chrUn_98 GAGTTGTGGCTTTGAAAGGAGCTTCAACAAAGTATTACATACATATATAT chr2B_159 --GTTGTGGCTTCGAAAGGAGC-TCAACAAAGTATTACATACATATATAT chr6B_446 -------------------------------------------------- chr6B_880 GAGTTGTGGCTCCGAAAGGAGATTCAACAAAGTATTACATTCATATATAT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 GAGTTGTGGCTCCGAAAGGAGCTTCAACAAAGTATTACATACAT------ chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TGCATACAAGAACAAATGGTGTAATCGATGCTTAGTAGTCTACGTACAAA chr6B_96 -------------------------------------------------- chr6A_96 TGCAGACCAGAACAAATGGTGTGATCGATGCTTAGTAGTCTACGTCCAAA chr6B_98 TGCAGACAAAAACAAATGGTGTGATAGATTCTGAGCAATCTAAGTACAAA chrUn_98 TGCAGACAAGAACAAATGGTGTGATCGATGCTGAGTAGTCTACGTACAAA chr2B_159 TGCAGACAAGAACAAATTGTGTGATCGATGCTACGTCCT----------- chr6B_446 -------------------------------------------------- chr6B_880 TGCAGACAAGAACAAATGGTGTGATCGATGCTTAGTAGTCTATGGACAAA chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ----S-----------------S--------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TTGAATCTTTTTTGTGTTTTTACATAAGAGCCCCTACACTTTCAGGTAAT chr6B_96 -------------------------------------------------- chr6A_96 TTGAGTCTTTCTTGTGTTTTTACATAAGAGCCCCTACACTTTTAGGTAAT chr6B_98 TTGAT--TTTTTTGTGTTTTTACATAAGACCCCCTACACTTTCAGTTAAT chrUn_98 TTGAATCATTTTTGTGTTTTTACAT------------------------- chr2B_159 ---AAACTTTTTTGTGTTTTTACATAAACCCCCCTAAACTTTCAGGTAAT chr6B_446 -------------------------------------------------- chr6B_880 TTGAATCTTTTTTGTGTTTTTACATAAGACCCCCTACACTTTCAGGTAAT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 ----T--TTTTTTGTGTTTTTACATAAAACCCCCTACACTTTTAGGTAAT chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CAGCCCGCGAATCACTTTTAAGTGATAAATTGAATCTTTTTTGCATTTTT chr6B_96 -------------------------------------------------- chr6A_96 CAGCCTGCGAATCACTTTTAAGTGATAAATTGAATCTTTTTTGCATTTTT chr6B_98 TAATCCACAATTCACTTTTAAGTGATAAATTGAATCTTTTTTGTGTTTTT chrUn_98 -------------------------------------------------- chr2B_159 CAACCCACAGTTCACTTTTAA----------------------------- chr6B_446 -------------------------------------------------- chr6B_880 CAGCCTGCAAATCACTTTTAAGTGATAAATTGAACCTTTTTTGCGTTTTT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 GAACCCGCAGTTCACTTTTAAGTGATAAATTGAATCTTTTTTGCGTTTT- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 ACAGAAAACACCATGTCTTCTATACTAA-TTACCCCGTAGTGTACGTACA chr6B_96 -------------------------------------------------- chr6A_96 ACAGAAAACACCATGTCTTCTATACTAA-TTACCCCGTAGTGTACGTACA chr6B_98 ACAGACAACACCTTGTCTTCTAAACTAACTTAACCCATAGTCTATGTACA chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 ACAGAAAACACCATGTCTTCCATACTAA-TTACCCCATAGTGTACGCACA chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 ACAGAAAACACCATGTCTTCTATACTAA-TTAACCCGTAGTCTACG---- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 ACAATTCTTTTTTGAAATATCCACATCTTTTAAACCATAACCCCAATTTA chr6B_96 -------------------------------------------------- chr6A_96 ACAATTCTTTTTTGAAATATCCACATCTTTTAAACCGTAACCCCAATTTA chr6B_98 ACAATTTTTTTTTGAAATATCCATATCTTTTAAACCATAACCCCAATTTT chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 ACAATTCTTTTTTGAAATATCCATATCTTTTAAACCATAACCCCAATTTA chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 ------TTTTTTTTAAATACCCATATCTTTTAAACCATAACCCCAATTTC chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GAC-TGTTATATATGATATTTTATTTGAAAAATGTGTAGATTTCGAATAT chr6B_96 -------------------------------------------------- chr6A_96 GAC-TGTTATATATGATATTTTATTTGAAAAATGTGCAGATTTCGAATAT chr6B_98 AACATGTTATATATGAAATTTGATTTGAAAAATGTGTAGAATTCGAAGAT chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 GAC-TGTTATATATGAAATTTGATTTGAAAAATGTGTAGAATTTGAATAT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 AACATGTTATACATGAAATTTGATTTGAAAAATTTCTAGGATTCGAATAT chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AGTGTTATTCTTACCTCTTAACCATTTTTAAAATGCTATGTAGAGTGAAA chr6B_96 -------------------------------------------------- chr6A_96 AGTGTTATTCTTACCTCTTAACCATTTTTAAAATGCTATGTAGAGTGAAA chr6B_98 AATGTTATTCTTACCTCTTAACCATTTTTAAAATGCTATTTAGAGTGAAC chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 AGTGTAATTCTTACCTCTTAACCATTTTTAAAATGCTATGTAGAGTGAAA chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 AATGTTACTCTTACCTCTTAACCATTTTTAAAATGTTATTCAGCGTGAAA chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 CCTTAAAAAATAACGCACAAACAAATTGGAGACAAAAAA-ATGTAGCAAG chr6B_96 -------------------------------------------------- chr6A_96 CCTTAAAAAATAACGCACAAACAAATTGGAGACAAAAAA-ACATAGCAAG chr6B_98 CCTTAAAAAATAGCGCGCACACAAATTGGAGACAAAAAAGATGTAGAAAG chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 CCTTAAAAAATAACTCACAAACAAATTGGAGACAAAAAA--TGTAGCAAG chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 CCTTAAAAAATAGCGCACAAACAAATTGGAGACAAAAAA--TGTAGCAA- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 AGAAAAACCTCATCTTGTTCCACAAGAGAGACGGTGGTAGAAACTAGGGT chr6B_96 -------------------------------------------------- chr6A_96 AGAAAAACCTCATCTTCTTCCACAAGAGAGACGGTGGTAGAAACTAGGGT chr6B_98 AGAAAAACCTCATCTTGTGCCACAAGAGAGA------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 AGAAAAACCTCATCTTGTGCCACAAGAGAGATGGTGGTAGAAACTAGGGT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 TCCACCGGGTCTAGCCCGGAGGTTGTATGGGAAGGAGGGAGGAGGGTGAG chr6B_96 -------------------------------------------------- chr6A_96 TCCACCGGGTCTAGCCCGGAGGTTGTATGGGAAGGAGGGAGGAGGGCGAG chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 TCTACCGGGTCTAGCCCGGAGGTTGTATGGGAAGGAGGGAGGAGGGCGAG chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs ----------------------------------------------S--- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GCCGTGGGCGTGGCGGCCGGCGGCTGGGCGCCATCCTGCACGGTGGAGGA chr6B_96 -------------------------------------------------- chr6A_96 GCCGTGGGCGTGGCGGCCGGCGGCTGCGCGCCGTCCTGCGCGGTGGAGGA chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 GCCGTGGGCGCGGCGGCCGGCGGCTGGGTGGCGTCCTGCGCGGTGGAGGC chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs --------------------------------S------S---------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GGTGGTGGTGATGACAGGAGGCGGCTAGGGCTTAGGATTTCCGACTCCTC chr6B_96 -------------------------------------------------- chr6A_96 GGTGGCGGTGATGACAGGAGGCGGCTAGGGCTTAGGATTTCCGACTCCTC chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 GGCAGCGGTGATGACAGGAGGCGGCTAGGGCTTAGGGTTTCCGGGTCCTC chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -----S-------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------------------------------------------- chr6B_1_TraesCS6B01G003700 GGGGAGCCGAGCAATAGAATTGTCTTATTGCTTGATTTCCAAAAGAGTCT chr6B_96 -------------------------------------------------- chr6A_96 GGGGAGCCGATCAATAGAATTGTCTTATTGCTTGATTTCCAAAAGAGTCT chr6B_98 -------------------------------------------------- chrUn_98 -------------------------------------------------- chr2B_159 -------------------------------------------------- chr6B_446 -------------------------------------------------- chr6B_880 GGGGAGCCAGGCAATA-AATTGCCTTATTGCTTGATTTCCAAAAGAGTCT chr6B_971 -------------------------------------------------- chr6B_1015 -------------------------------------------------- chr6D_1026 -------------------------------------------------- chrUn_1129 -------------------------------------------------- chr6B_1426 -------------------------------------------------- SNPs -------------------------------------------------- forward_53 -------------------------------------------------- reverse_2220 -------------------------------------------------- forward_1321 -------------------------------------------------- reverse_3039 -------------------------------------------------- input_sequence_46479 -------------- chr6B_1_TraesCS6B01G003700 TTATAGCTATTTAT chr6B_96 -------------- chr6A_96 TTACAGCTGTTTAT chr6B_98 -------------- chrUn_98 -------------- chr2B_159 -------------- chr6B_446 -------------- chr6B_880 TATTGCTATTTAT- chr6B_971 -------------- chr6B_1015 -------------- chr6D_1026 -------------- chrUn_1129 -------------- chr6B_1426 -------------- SNPs --------S----- forward_53 -------------- reverse_2220 -------------- forward_1321 -------------- reverse_3039 --------------