CLUSTAL X (1.81) multiple sequence alignment input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CAAAATTCCCATTTAATGCACTTGATATAACCTCAAGATACGATGCACTA chr7A_1 CATAATTCCCATTTAATGCACGTGATATAACCTCAAGATACGATGCACTA chr4A_1 CAAATTTCCCATTTAATGCACATGATATAACCTCAAGATACGATGCACTA chr1B_3901 -------------------------------------------------- chr2D_4985 GACGACACATAG-------------------------------------- chr4D_4994 TACTA--------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------------S---------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GGAGTGTCCTTGTACCTTAGCTTGTGCTTTTGTGCTTAAATAGACAACAA chr7A_1 AGAATGTTCTTGTACCTTAGCTTGTGCTTTTGTGCTTAAATAGACAACAA chr4A_1 GGAGTGTCCTTGTACCTTAGCTTATGCTTTTGTGCTTAAATAGACAACAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 AAATAGTACCAAAGAGTTGAAAATGACCATGACAAGGAAAAAATGGAGAA chr7A_1 AAATAGTACCAGAGAGTTGAAAACGACCATGACAAGGAAAAAGTGGACAA chr4A_1 AAATGTTACCAGAGAGTTGAAAATGGCCATGACAAGGAAAAAGTGGAGAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------S------------------------------S------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 C-AAAGGTCAATGGTAACGTGTTTTCGGCGCATAAATGCGAATATGCCAC chr7A_1 C-A-AGGTCAATGGTAACATGTTTTCGGCGCGTAAATGTGAATATGCCAC chr4A_1 CAA-AGGTCAATGGTAACGTGTTTTCGGCGCGTAAATGCGAATATGCCAC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---S---------------------------S------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 AGATTGATCACATCATCGACACAACAAATAGATACATGCCAATTGGTAGC chr7A_1 GAATCGATCACATCATGGACACAACAAATAGATACATGCCA-TTGGTAAC chr4A_1 GGATCGATCACATCATCGACACAACAAATAGATACATGCCA-TTGGTAGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S---S------------------------------------S-------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GTCACATCAAAATTTCCTTTAAATGCCCACTATACAACCTTAAAATATGA chr7A_1 ATCACATCAAAGTTTCCATTAAATGCCTGCTATGCAACCTTAAAACATGA chr4A_1 ATCACATCAAAAATTCCATTAAATGCCTGCTATACAACCTTAAAATATGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S----------------S---------SS--------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TGCATCGAGAGCGCCTTTATGTCATTATCTCTTACTTTATTCTCAAATAG chr7A_1 TGCATCGAGACCGCCTTTATGTCGTTATCTCTTACTTTATTCTCAAATAG chr4A_1 TGCATCGAGAGCGCCCTTATGTCGTTATCTCTTACTTTATTCTCAAATAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------------S-------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ATGCAGGTGTTTGTAAGTTTTGGGAAACAAAAAAGT-------------- chr7A_1 ATGCAGGGGTTTGTAAGTTTTGGGAAACAAAAAAAGTGAGTGA------- chr4A_1 ATGCGGGTGTTTGTAAGTTTTGGGAAAGCATGACATCATTGAAAGCATGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------------------S--------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 CATCGAGATTTTCATTTAATCCATGCGTTACAACCTTATATAAATATATG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 GCGCATTTGTGATTGTGTGCTTAAATAGATGGAGGGGTTTGTAAGTTTGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 CAACAAAACAGTGTGAGAGGGTTGAAAGCGACCATGGCGAGAAAAAAAAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TGGTTAACAAAGATGAGCCGTAACACACTTTCGACGCATTAATTAATATG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 AATATGCCATGGATGATCGTCACATTATGCGCGGCAATAAAAGCTCATGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 ACACAAAAAGTAGATACTATTGACAATCGGAAGCGTAGCGTCAAGATTTT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 CATTAATGGACGGGATATAGCCTAAAAATACGACGCATCGAGAGCGCATT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TACATCGTTATCTCTTACTTTGTGCTCGAATAAATAGATTGTAGATGCAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 GAGTTTGTATGTGTTGGGAAACCAAAAAGTTTTTTTTTTGAGTAATTGGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ----------------GAGAGAGAGTTGAAAACAACAAGCAAAAAGTGGA chr7A_1 ------------GAGAGAGAGAGAGTTGAAAACAACAAGCAGAGAGTGGA chr4A_1 AAACCAAAAAGTGAGAGAGAGATAGTTGAAAACAACAAGCAAAAAGTGGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CAAGGGAAACCATCAGCAAGTGTTTGGGTGGTGCGGTGTGTTGCAATACC chr7A_1 CAAAGGAAACCATCACCAAGTGTTTGGGTGGTGCGGTGT--TGCAATACC chr4A_1 CAAGGAAACCAT-------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------S-----------------------SS--------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TGGACTCGACTACATTTTAACTATTTTTTTCCAATGTCCCGTGTGCATGT chr7A_1 TGGACCCAACTACATTTTGACTTTTTTTC-CCAATGTCCCGTGTGCACGT chr4A_1 ---AGCCGACTACGCTTTAACTATTTTGT-CCAAGGTCC----------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----S-----------------------S-----------------S-- forward_998 ----------------------------TTCCAATGTCCCGTGTGCAT-- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TTGAAGGAGTTGTATGTACTTTCAATTTCCTTTGGTTGACAAACATGTTC chr7A_1 TTGAAGGACATGTGTGTACTCTCAATTTCGCTTGATTGACAAACGTGTTC chr4A_1 ----------TGTCTGTGCTTTCAATTTCCCTTGCTTGACATGCGTGCTC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------SS---S----------------S---S---------S----- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TTTGTTGTGATTTTTAATTTGTTCACGGGTGCTTTGTAAATAAATGATTG chr7A_1 TTTGTTGTGATCTTCAATTTGTTCACGGTCGCTTTGTAAATAAATGGTTG chr4A_1 TTTGTTGTGATCTTCAATTTGTTCACGGGTTCCTTGTAAATAAATGATTG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------S--S----------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TTACT---------------GATGGTAGTACCACCGGTGAACGGGTGATG chr7A_1 TTACTGGCATGGCCATAAGTGACGGTAGTACCACCGGTGAACAGGTAATG chr4A_1 ATACTTACATAGCCATGAGTGACGGTAGTACCACTGGTCAACGGGTGATG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------S--------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TAGAAGCGAAGATGCCAACCGAGATAAGTA-------------------C chr7A_1 TAGAACCGAAGATGCCAACCAAGATACAG--------CTAATCATAATGC chr4A_1 TAAAACCGAAGATGCCAACCAAGATACGTACCATGGACTAATCATAATGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----S--------------S-----S----------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GCATTTGACACATGAGTACAAACATTTCATTGACT-CATCATGTTAGGGG chr7A_1 GCATTTGACACATGAATACAAATATTTCATTGACT-AATCATGTTAGATG chr4A_1 GCATCTGACCAATGAATGCAAATATTTTATTGATTAAATCATGTTAGGTG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------S------S-------------S-----------S- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TGGCAATAAAAGCTTCTAGACACTTAAAGATAGATATGGACCACTGAAAA chr7A_1 TGGCAATAAAAGCTTCTAGACACTTGAAGATAGATATGGAGCACTGAAAG chr4A_1 GGGCAATAAAAGCTTCTAGAC------------------AGCACTGAAAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------S--------------S--------S forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CATGACATGTAGATTTTCATTTAATCCATGCGTTCCAACCTTATATAAAT chr7A_1 CATGACATGGAGATTTTCATTTAATCCTTGCATTCCAACCTTATATAAAT chr4A_1 CATGACATCGAGATTTTCATTTAATCAATGCGTTACAACCTTATATAAAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------S---------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ATATGGTGCATTTGTGATTCTGTGCTTAAATAGATGGAGGG-GTTTATAA chr7A_1 ATATGGTGGATTTGTGAGTGTGTGCTTAAATAGATGGAGGG-GTTTATAA chr4A_1 ATATGTTGCATT--------TGTGCTTAAATAGATGGAGGGTGTTTATAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------S-S------------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GTTTGTCAACAAAACTGCGTGAGAGGGTTGAAAACGACCACGAGGAGAGA chr7A_1 GTTTGGCAACAAAACAGTGTGCGAGGGTTGGAAACGACCACGACGGGAAA chr4A_1 GTTTGGCAAT-----------AGAGGGTTGAAAACGAGCATGACGAGAAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----S---------S-S-------------------------S----S- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GAAAAAATGGTCAACAGAGATAAGCCGTAACGCACTTTCAACGCATTAAT chr7A_1 AAAAATGGTCA-AACAGAGACAAGCTATAACGCACTTTGGACGCATTAAT chr4A_1 AAAGAAGTGGTCCACAAAGATGAGCCGTAACGCACTTTCGACGCATTAAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S-----S--------------------------------S---------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -----------------GGAGGA------------------CAATAAAAG chr7D_1_TraesCS7D01G000200 TAGTACGAATACGCCAAGGAGGA------------------CAATAAAAG chr7A_1 TAGTACGAATACGCCAGGAAGGACCGCGACATTATGCGCGGCAATAAAAG chr4A_1 TAGTAGGAATACGTCATGGAGGGTCGTCACATTATGCGTGGCAATAAAAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------S--------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CTCATGGACACAGCAAGTAGATACC---GACAACCGGAAGCGCAAACGTC chr7D_1_TraesCS7D01G000200 CTCATGGACACAGCAAGTAGATACC---GACAACCGGAAGCGCAAACGTC chr7A_1 CTCATGGACACAACAAGTAGATACCACCGACAATCGGAAGCGTAAACATC chr4A_1 CTCAAGCACACAACAAGTAGATACTACCAACAATCGTTAAGATTACCCTA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------S--------------------S--------S----S-- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GAGATTTTCATTTAATGCACGCGATACAACCTAAAGA------------- chr7D_1_TraesCS7D01G000200 GAGATTTTCATTTAATGCACGCGATACAACCTAAAGA------------- chr7A_1 GAGATTTTCATTTAATGCACGCGATACAACCTAAAGATACATACGAGGCA chr4A_1 --------CATTTAATGCACGCGATACAACCTAAAGATACGACGCAGCGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GAGCGCATTTACATCGTTATCTCTTACTTTGTGCTCTAATAGATAGATTG chr7D_1_TraesCS7D01G000200 GAGCGCATTTACATCGTTATCTCTTACTTTGTGCTCTAATAGATAGATTG chr7A_1 TCCAG------CATCATTATCTCCTACTTTGTGCTCTAATAGATAGATTG chr4A_1 GAGCGCATTTACATCGTTATCTCTCACTTTGTGCTCAAATAGATAGATTG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TAGATGC-----AGG---------GGGGTTTGCAAGTTTTGGGAAACCAA chr7D_1_TraesCS7D01G000200 TAGATGC-----AGG---------GGGGTTTGCAAGTTTTGGGAAACCAA chr7A_1 TGGATGCAGGCAGGCAGGCAGGCAGGGGTTTGTAAGTTTTGGGAAACCAA chr4A_1 TAGATGCCATCGAGG---------GGGGTTTGTAAGTTTTGGGAAACCAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------------------S----------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AAAGTTTTTTA-TTA--TTTTTTGAGAAATTGGGAAACCAAAAAGTGAGA chr7D_1_TraesCS7D01G000200 AAAGTTTTTTA-TTA--TTTTTTGAGAAATTGGGAAACCAAAAAGTGAGA chr7A_1 AAAGTTTTATT-TTAATTTTTTTGAGAAATTGGGAAACCAAAAAGTGAGA chr4A_1 AAGATTTTATTTTTA--TTTTTTGAGAAATTGGGAAACCAAAAAGTGAGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------S-S--------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GAG-----A----GAGCTGAAAA-----GGGGAGTAGAAAAACCATCCAT chr7D_1_TraesCS7D01G000200 GAG-----A----GAGCTGAAAA-----GGGGAGTAGAAAAACCATCCAT chr7A_1 GAGGGTTGA----GAGTTGAAAA-----GGGGAGTAGAAAAACCATCCAT chr4A_1 GAG-----AGAGAGAGTTGAAAAGGGAGGGGGAGTAGAAAAACCATCCAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------S--------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CACCTCTC---------------------------------------CTC chr7D_1_TraesCS7D01G000200 CACCTCTC---------------------------------------CTC chr7A_1 CACCATTCACCACTGTCTTTCTTGCTCTGCTTCCCCTCTCCTCTCCTCTC chr4A_1 C--CATTCACCACTGTCTTTCTTGCTCTGCTTCCCCTCTCCTC------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----SS-------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGCTCTGCTCCCAGACAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGCAG chr7D_1_TraesCS7D01G000200 TGCTCTGCTCCCAGACAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGCAG chr7A_1 TGCTCTGCTCCCGGACGGTCAGTCAGAAAG--------AAAGAAAAGCAG chr4A_1 TGCTCTGCTCCCGGACAGTCAGAAAGAAAG--------AAAGAAAAGCAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------S-----SS----------SSSSSSSS------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AGTAGGAGGAGAAAGGGGAAGTCTTTAGGCAGGCAGCGATGACGACCACC chr7D_1_TraesCS7D01G000200 AGTAGGAGGAGAAAGGGGAAGTCTTTAGGCAGGCAGCGATGACGACCACC chr7A_1 AGTAGGAGGAGAAAGGAAAAGTCTTTAGCCAGC-------GATGACGACC chr4A_1 -------------------AGTCTTTAGCCAGCCAGCGATGACGACGACC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------SS----------S---S-------------S--- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCGGCAGGGTCGGAGTCGTCGTCCTCGTCGACCACGGCGGCGGCG---GC chr7D_1_TraesCS7D01G000200 GCGGCAGGGTCGGAGTCGTCGTCCTCGTCGACCACGGCGGCGGCG---GC chr7A_1 GCCGCGGGGTCGGAGTCGTCGTCCTCCTCGACCCCGGCGACGGCGGCGGC chr4A_1 GCGGCGGGGTCGGAGTCGTCGTCCTCCTCCTCGACCC---------CGGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----S--------------------S------------S---------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GGTGCTGCCGGTGGGGTTCCGGTTCCGTCCGACGGACGAGGAGCTGGTGC chr7D_1_TraesCS7D01G000200 GGTGCTGCCGGTGGGGTTCCGGTTCCGTCCGACGGACGAGGAGCTGGTGC chr7A_1 GGTGCTGCCGGTGGGGTTCCGGTTCCGTCCGACGGACGAGGAGCTGGTGC chr4A_1 GGTGCTTCCGGTGGGGTTCCGGTTCCGTCCGACGGACGAGGAGCTGGTGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GGCACTACCTCAAGGCCAAGATCGCGGGGCGGGCGCACCCGGACCTGCTG chr7D_1_TraesCS7D01G000200 GGCACTACCTCAAGGCCAAGATCGCGGGGCGGGCGCACCCGGACCTGCTG chr7A_1 GGCACTACCTCAAGGCCAAGATCGCGGGGCGGGCGCACCCGGACCTGCTG chr4A_1 GGCACTACCTCAAGGCCAAGATCGCGGGGCGGGCGCACCCGGACCTGCTG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCGATCCCGGACGTGGACCTGGCGGCGGTGGAGCCGTGGGACCTGCCCGC chr7D_1_TraesCS7D01G000200 GCGATCCCGGACGTGGACCTGGCGGCGGTGGAGCCGTGGGACCTGCCCGC chr7A_1 GCGATCCCGGACGTGGACCTGGCGGCGGTGGAGCCGTGGGACCTGCCCGC chr4A_1 GCGATCCCGGACGTGGACCTGGCGGCGGTGGAGCCCTGGGACCTCCCCGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CCGCTCCGTCATCAAGTCCGACGACCCCGAGTGGTTCTTCTTCGCCCGCC chr7D_1_TraesCS7D01G000200 CCGCTCCGTCATCAAGTCCGACGACCCCGAGTGGTTCTTCTTCGCCCGCC chr7A_1 CCGCTCCGTCATCAAGTCGGACGACCCCGAGTGGTTCTTCTTCGCCCGCC chr4A_1 CCGCTCCGTCATCAAGTCGGACGACCCCGAGTGGTTCTTCTTCGCCCGCC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------------S------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCGACCGCCCCAAGTACCCCGGCAAGTCCTCCCGCTCCTGCCGCTCCACC chr7D_1_TraesCS7D01G000200 GCGACCGCCCCAAGTACCCCGGCAAGTCCTCCCGCTCCTGCCGCTCCACC chr7A_1 GCGACCGCCCCAAGTACCCCGGCAAGTCCTCCCGCTCCTGCCGCTCCACC chr4A_1 GCGACCGCCCCAAGTACCCCGGCAAGTCCTCCCGCTCCTGCCGCTCCACC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCCGCCGGATACTGGAAGGCCACCGGCAAGGACCGCCTCATCCGGGCGCC chr7D_1_TraesCS7D01G000200 GCCGCCGGATACTGGAAGGCCACCGGCAAGGACCGCCTCATCCGGGCGCC chr7A_1 GCCGCCGGATACTGGAAGGCCACCGGCAAGGACCGCCTCATCCGGGCGCC chr4A_1 GCCGCCGGGTACTGGAAGGCCACCGGCAAGGACCGACTCATCCGCGGACC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CGGCCCCGGCGGCTGCAGGGGGAAGGGCGCCCTCATCGGCGTGAAGAAGA chr7D_1_TraesCS7D01G000200 CGGCCCCGGCGGCTGCAGGGGGAAGGGCGCCCTCATCGGCGTGAAGAAGA chr7A_1 CGGCCCCGGCGGCTGCAGGGGGAAGGGCGCCCTCATCGGCGTGAAGAAGA chr4A_1 CGGCCCGGGGGGCTGCAGGGGGAAGGGCGCCCTCATCGGCGTGAAGAAGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CCCTGGTGTTCCACCGCGGCCGCGCCCCACGCGGCGCACGCACCCCGTGG chr7D_1_TraesCS7D01G000200 CCCTGGTGTTCCACCGCGGCCGCGCCCCACGCGGCGCACGCACCCCGTGG chr7A_1 CCCTGGTGTTCCACCGCGGCCGCGCCCCACGCGGCGCACGCACCCCGTGG chr4A_1 CCCTGGTGTTCCACCGCGGCCGCGCCCCACGCGGCGCACGCACCCCGTGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATCATGCACGAGTACACCGCCACCGACCCAAACCCCCAGTCCCAGTCCCA chr7D_1_TraesCS7D01G000200 ATCATGCACGAGTACACCGCCACCGACCCAAACCCCCAGTCCCAGTCCCA chr7A_1 ATCATGCACGAGTACACCGCCACCGACCCAAACCCCCAA------TCCCA chr4A_1 ATCATGCACGAGTACACCGCCACCGACCCAAACCCCCAA------TCCCA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------------------------SSSSSSS----- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATCCCAATCTCAA------------------TCTGCAGGCCCCCAAAATG chr7D_1_TraesCS7D01G000200 ATCCCAATCTCAA------------------TCTGCAGGCCCCCAAAATG chr7A_1 GTCCCAATCCCAG------------------TCTGCAGGCCCCCAAAATG chr4A_1 GTCCCAATCCCAGTCCCAATCCCAATCCCAATCTGCAGGCCCCCAAAATG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S--------S--S------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TAA-------CCTTCCTCTTGTTGTTCTCCTCTGCTCTGCTCTGCTTCCA chr7D_1_TraesCS7D01G000200 TAA-------CCTTCCTCTTGTTGTTCTCCTCTGCTCTGCTCTGCTTCCA chr7A_1 TAACTTTTCCCCTTCCTCTTATCGTTCTGCTCTGCTTCCAC--------- chr4A_1 TAACTTTTCCCCTTCCTCTTATCGTTCTGCTCTGCTTCCAC--------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------S-S-----S-------SSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------CTGCTCTGCTCTGCTTCCA reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTGATTTGATTTGATTTGATTTCAGCTTAAATAAGTAGAGGAGTAA---- chr7D_1_TraesCS7D01G000200 TTGATTTGATTTGATTTGATTTCAGCTTAAATAAGTAGAGGAGTAA---- chr7A_1 -TGATTTGGTTTGATTTGATTTCAGCTTGAATAAGTAGAGTAGAGTAATT chr4A_1 -TGATTTGATTTGATTTGATTTCAGCTTGAATAAGTAGAGTAGAGTAATT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S---------------------------S-----------S--SSS---- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 T------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ----------TTCTTTCTTTCTGCCATGCCATGGATGTGGAATCAGATAC chr7D_1_TraesCS7D01G000200 ----------TTCTTTCTTTCTGCCATGCCATGGATGTGGAATCAGATAC chr7A_1 CTTTCTTTCTTTCTTTCTTTCTGCCATGCCATGGATGCCAATGTGTTACC chr4A_1 CTTTCTTTCTTTCTTTCTTTCTGCCATGCCATGGATGCCAATGTGTTACC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------SSS-SSSSSSSS- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CGTTAGGTTGCA-------------------------------------- chr7D_1_TraesCS7D01G000200 CGTTAGGTTGCA-------------------------------------- chr7A_1 TAGCTTGCTTATTGGCAGTAAGTAGTAGTACCTAGAACAAATCAGATAGA chr4A_1 TAGCTTGCTTATTGGCAACAAATCAGA----------------AGATAGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSS-S-SSS-------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ----------------TTGCAGTCAGGCAGTCTACTCTATTTGCATCCAG chr7D_1_TraesCS7D01G000200 ----------------TTGCAGTCAGGCAGTCTACTCTATTTGCATCCAG chr7A_1 TACCAATGTGTTAGGGTTGCAGTGAGTCAGTCAGTCAGGCAGGCAGGCAC chr4A_1 TACCAA---GTTAGGGTTGCAGTCAGTCAGTGAGTCAGGCACATA----- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------------S-----SSSSSSSSSS---SS--S forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCGTCAAATC----------------------------------AGATAG chr7D_1_TraesCS7D01G000200 GCGTCAAATC----------------------------------AGATAG chr7A_1 ATATAAGTTACTAACTGGGTTGGACTAGTCAAATCTGCAGA--TAGATAG chr4A_1 -----------TAACTAAGTGGGACTAGTCAAATCAGATACAGTAGATAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSS-S-SS-S---------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATACTCTGCCTCTTGTATTGCTCTGCTCTGCTTCAGTTTCATTTCAACTA chr7D_1_TraesCS7D01G000200 ATACTCTGCCTCTTGTATTGCTCTGCTCTGCTTCAGTTTCATTTCAACTA chr7A_1 ATACCCTGCCTCTTGTA--------------------------------- chr4A_1 ATACTCTGCCTCTTGTA--------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATCTATTTTGTTTGTTGCTTGTTTCTCACTTATTTATGCCTACTATATAG chr7D_1_TraesCS7D01G000200 ATCTATTTTGTTTGTTGCTTGTTTCTCACTTATTTATGCCTACTATATAG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GTAGTATGGATGTGAATATGAATGTGCTTCCATCTCAACTTTACATCAGT chr7D_1_TraesCS7D01G000200 GTAGTATGGATGTGAATATGAATGTGCTTCCATCTCAACTTTACATCAGT chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GTTAGCAGTACCAAACTATAATATTTGCAGTCAGCAGTTAGGATATTTAT chr7D_1_TraesCS7D01G000200 GTTAGCAGTACCAAACTATAATATTTGCAGTCAGCAGTTAGGATATTTAT chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TATCGCTTGTATTGCTCTGTCTGTCTGTCGAATTGTTTTCCTCTTTATTT chr7D_1_TraesCS7D01G000200 TATCGCTTGTATTGCTCTGTCTGTCTGTCGAATTGTTTTCCTCTTTATTT chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CTGTATATAATAGGAAGGATGGCTTGGAATCATGCATGCACACAACTTAG chr7D_1_TraesCS7D01G000200 CTGTATATAATAGGAAGGATGGCTTGGAATCATGCATGCACACAACTTAG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TCCAACAAGATCAGATCATCTGCCTCTTGTACTGCTCTGCTTCAATTTCA chr7D_1_TraesCS7D01G000200 TCCAACAAGATCAGATCATCTGCCTCTTGTACTGCTCTGCTTCAATTTCA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 --------------------TGCCTCTTGTACTGCTCTGC---------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 --------------------TGCCTCTTGTACTGCTCTGC---------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GTTCAGCTCATCTATTTTGTTTCTTCACATATAAGATATTGCATCTCATT chr7D_1_TraesCS7D01G000200 GTTCAGCTCATCTATTTTGTTTCTTCACATATAAGATATTGCATCTCATT chr7A_1 ----------------------------------------GCATCTCATT chr4A_1 ----------------------------------------GCATCTCATT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CACTTGCTTGTTTCTCAATTATTTATACA--------------------- chr7D_1_TraesCS7D01G000200 CACTTGCTTGTTTCTCAATTATTTATACA--------------------- chr7A_1 CAGTTGCTTGTTTCTCAATTATATATACGTACTACCTAGTGTGGA----- chr4A_1 CAGCTGCTTGCTTCTCAATTATTTATAC----TACCTAGTATGGATATGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --S-------------------------S--------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 ATATGATATGAATATGAATGTGCTCAATTGTTTTTCTCTGCTCTGCTTCC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 ATCTCAACTTTACATAAGTGTTAGCAGTACCAAGCTATTTGCAGCCAGCA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 GTTAGGATATTTATTATCGGTTGTCAACTTTACATAACTCTAAGGCTGTC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TGTCGAAATGTGTTCCTCTTTATTTCTTTATCTAGGGAGCAAAGGATAAC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TTAGTCCAACCACATCAGATCCTCTGCCTCTTGTACTGCTCTGCTCCAAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TTCAGTTCAACTCATCTATTTTGTTTCTTCACAATTAGAATATTGCATCT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 CATTCACTTGCTCGTTCCTCTCTTCACTTTTATAAGACGTTGCAGACATT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 TAGACAGCGTGCAAAACAGCTCAATTTCAGCTGTCTGAAACGACTTATAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------ACTATGGGTATGAATGTGCTAGCTAGCTTAA chr7D_1_TraesCS7D01G000200 -------------------ACTATGGGTATGAATGTGCTAGCTAGCTTAA chr7A_1 ---------------------------TATTAATGTGCTAGCTAGCTTAT chr4A_1 AAAAAAGAACGGAGGGAGTACTATGGATATGAATGTGATAGCTAGCTTAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------------S----------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATACGTACAATTTGCTGTC------------------------------- chr7D_1_TraesCS7D01G000200 ATACGTACAATTTGCTGTC------------------------------- chr7A_1 GCAGGAACAATTTGCAGTCAATCACCACACCACACATATATAGCTCGGTT chr4A_1 ATAGGTACAGTTTGCAGTC------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---S-----------S---------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -TTGACAGGATTTGAACACTAACTAGGATAGGAGGACAGAGCATACTTCC chr7D_1_TraesCS7D01G000200 -TTGACAGGATTTGAACACTAACTAGGATAGGAGGACAGAGCATACTTCC chr7A_1 GTTGACAGGATTTGAACACTA----GGA-----GGACATGGCATACTTGT chr4A_1 -TTGACAGGATTTGAACACTA----GGATAGGAGGACATAGCATACTTAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------------SSSS-------------S---------SS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTCCTGGCAGGATGAATATGAATATGTTGTGTTCAAAATATCTTCTTCTT chr7D_1_TraesCS7D01G000200 TTCCTGGCAGGATGAATATGAATATGTTGTGTTCAAAATATCTTCTTCTT chr7A_1 ----TGGCAGGATGAATATGAATATGTTGTGTTCAAAATATCTTCTTCTT chr4A_1 ----TGGCAGGATGAATATGAATATGTG----TCAAAATATCTTCTTCTT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSS---------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GTTTCTTCAGCGATGCTTCTTTCTTTCTT--------C---TATGAATAT chr7D_1_TraesCS7D01G000200 GTTTCTTCAGCGATGCTTCTTTCTTTCTT--------C---TATGAATAT chr7A_1 GTTTCTTCAGGGTTGCTTCTTTCTTTCTTTCTTTCTTC---TATGAATAT chr4A_1 GTTTCCTCAGGGTTGCTCCTTTCTTTCTTCTCTATGATCAATATGAATAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------S-S------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GGATATGAAATGAATGCCCTAGCTAGCTGAGCAGCACCGTTTGCAGTCAG chr7D_1_TraesCS7D01G000200 GGATATGAAATGAATGCCCTAGCTAGCTGAGCAGCACCGTTTGCAGTCAG chr7A_1 GAATGCCCTAG-------CTAGCTAGCTTAGCAGCACCGTTTG----CAG chr4A_1 GAATGTGCTAG-------CTAGCTAGCTTAGCAGTACCATTTGCAGC--- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -S--S--SS-SSSSSSSS----------S-----------------S--- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TCAGTAAGGTGTAGCTCACTCTATTCTTGGGA-------------CATAA chr7D_1_TraesCS7D01G000200 TCAGTAAGGTGTAGCTCACTCTATTCTTGGGA-------------CATAA chr7A_1 TCAGTAAGGTGTAGCTCACTCTATTTTTGGGCCAATTCTGCCTGCCATAA chr4A_1 --------------CTCACCCTGTTCTTGGGCCAATTCTGC----CATAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------S------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CAATAGGACAGGGCATACTTGCAAGATGATGAAACCATGTATAATTATAA chr7D_1_TraesCS7D01G000200 CAATAGGACAGGGCATACTTGCAAGATGATGAAACCATGTATAATTATAA chr7A_1 CAATAGGACAGGGCATACTTGCAAGATGATGAAAGCATGTATAATTGTGC chr4A_1 CAATAGGGTTGGCCATACTTGCAAGACGATGAATATCCATTGTGCAGGCA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------------------S-----------S-S- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTGAGCAGTCAGTCAGTCACTAGTTGGTGTCTGTGTCGTTCGTAGGCTCT chr7D_1_TraesCS7D01G000200 TTGAGCAGTCAGTCAGTCACTAGTTGGTGTCTGTGTCGTTCGTAGGCTCT chr7A_1 AGTCTA--TCAGTCAGTCCCTAGTTGGTGTCTGTGTCGTTCGTACGCTCT chr4A_1 -----CAGTCAGTCAGTG-------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSS-------------S-------------------------S----- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 --------------------------------------------GGCTCT forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATGTCGCTCGTCAAGTCAGTACTTGGTGCAATAGGAATGGCCTGTATATT chr7D_1_TraesCS7D01G000200 ATGTCGCTCGTCAAGTCAGTACTTGGTGCAATAGGAATGGCCTGTATATT chr7A_1 ATGTCGCTCGTCAAGTCACTACTTGGTGCAATAGGAATGGCTTGTATACT chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------------S----------------------S------S- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 ATGTCGCTCGTCAA------------------------------------ forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTGTGGTAGCTAGGGCTTAAAAAT-------------------------- chr7D_1_TraesCS7D01G000200 TTGTGGTAGCTAGGGCTTAAAAAT-------------------------- chr7A_1 TTGTGGTTTACACCTTTTCTTTACTTCTGAAATAACTTCTTCATTAAAGA chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------SSSS-SSSS--SSSS-S-------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ------CATCATTGTGCACTCAGTCAGTCAGTCAGTACCATTGTGAAGAA chr7D_1_TraesCS7D01G000200 ------CATCATTGTGCACTCAGTCAGTCAGTCAGTACCATTGTGAAGAA chr7A_1 AAAGACCATCATTGTGCACTCAGTCAGTCAGTACCATTG----------- chr4A_1 -------------------------------------TA----------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------------------SSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AGATAATGTACCTCGCCTCACTCACTTCTTGACAGAATCC---------- chr7D_1_TraesCS7D01G000200 AGATAATGTACCTCGCCTCACTCACTTCTTGACAGAATCC---------- chr7A_1 ---------------CCTCGTTCACTTCTTGACAAAATCT---------- chr4A_1 ---------------CCTCGCTCACTCCTATACAGGATTCCACTGGAAAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSS----S------------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 --TTTGTCAACTTGTCATAACACTAGGATC-------------------- chr7D_1_TraesCS7D01G000200 --TTTGTCAACTTGTCATAACACTAGGATC-------------------- chr7A_1 --TTTGTCAACTTGTCATAACACTAGGACTGTACATACA----------- chr4A_1 TGTTTGTCAACTTGTCATAAACACTATGTATATTCGAATTTTGCCATTAC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------------------S-------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ------ATAGTACATACTTGCAAGCTGATGAAATCATT-TATATATCACT chr7D_1_TraesCS7D01G000200 ------ATAGTACATACTTGCAAGCTGATGAAATCATT-TATATATCACT chr7A_1 ----------TACATATTTGCAAGCTGATGAAACCATG-TATATATCACT chr4A_1 AATAGGACAGTACATGCTTCCAAGATGATAAACTATGTATATATATAACC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------S------------------------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CGATGACTG-----------TCTTGTTAATTTGTTTCTTCAGGATAGCTT chr7D_1_TraesCS7D01G000200 CGATGACTG-----------TCTTGTTAATTTGTTTCTTCAGGATAGCTT chr7A_1 CGATGACTG-----------TCTTGTTGATTTGTTTCTTCAGGATAGCTT chr4A_1 TGATGCCTCTCCAAATGTCTTCTTGTTAATTTGTTTCTTCAGGATAGCTT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGTTCTGTACCGCCTGTTCAACAAGCAGGATGAAGAGACCCCGGCGCCCA chr7D_1_TraesCS7D01G000200 TGTTCTGTACCGCCTGTTCAACAAGCAGGATGAAGAGACCCCGGCGCCCA chr7A_1 TGTTCTGTACCGCCTGTTCAACAAGCAGGATGAAGAGACCCCGGCCCCCG chr4A_1 TGTTCTGTACCGCCTGTTCAACAAGCAGGACGAAGAGGCCCCGGCGCCCA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTTCAGGACCCCCGTCCACGTCGCCTCCAGCCAATCCGCCGCTACAGCAA chr7D_1_TraesCS7D01G000200 TTTCAGGACCCCCGTCCACGTCGCCTCCAGCCAATCCGCCGCTACAGCAA chr7A_1 TTTCAGAACCCCCGTCCACGTCGCCTCCAGCCAATCCGCCGCTACAGCAA chr4A_1 TTTCAGAACCCCCGTCCACGTCGCCTCCAGCCAATCCGCTGCTACAGCAA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------S------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCCGACGACACGGCCAGCGCCTCCATGGTGGAAGACAAGGCCTCGCCATC chr7D_1_TraesCS7D01G000200 GCCGACGACACGGCCAGCGCCTCCATGGTGGAAGACAAGGCCTCGCCATC chr7A_1 GCCGACGACACGGCCAGCGCCTCCATGGTGGAAGACAAGGCCTCGCCATC chr4A_1 GCCGACGACACGGCCAGCGCCTCCATGGTGGAAGACAAGGCCTCGCCATC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGATTCGAGCCAGCTGACCCCGACCAATGCAACCACCGACCACTCCTCCA chr7D_1_TraesCS7D01G000200 TGATTCGAGCCAGCTGACCCCGACCAATGCAACCACCGACCACTCCTCCA chr7A_1 TGATTCGAGCCAGCTGACCCCGACCAATGCAACCACCGACCACACCTCCA chr4A_1 TGATTCGACCCAGCTGACTCCGACCAATGTTACTAATGATCACTCCTCCA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CGGCCCATCTTCCTGCAGCCG------CCGGCGATGCAGAGCAGACAGCG chr7D_1_TraesCS7D01G000200 CGGCCCATCTTCCTGCAGCCG------CCGGCGATGCAGAGCAGACAGCG chr7A_1 CTGCCCATCTTCTTGCAGCCG------CCGGTGACGCAGAGCAGATAGCG chr4A_1 CGGCCCATGTTCTTGCAGCCACAGCCACCGGCGCCGCAGAGCAGTCAGCG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------S---------------------S--------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GATCAGGTGAACTGCTTGTTTTCCCTTTCCTGAGTACAG--TATTATCTT chr7D_1_TraesCS7D01G000200 GATCAGGTGAACTGCTTGTTTTCCCTTTCCTGAGTACAG--TATTATCTT chr7A_1 GATCAGGTAAATTGCTGCTTTTCTTTCCCTTTCATGCATTATATTATATT chr4A_1 GATCAGGTCAACTGCTTGTTTTCCCTTTCCTGAGTACATTATATTATCTT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------S-----------------------------S----------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 C------------AGTCTGTTCCGC---CTTTCAGTTGACTGAGAAATGT chr7D_1_TraesCS7D01G000200 C------------AGTCTGTTCCGC---CTTTCAGTTGACTGAGAAATGT chr7A_1 ATATTATATTTTCAGCCTCTTCTCCTGTCTTTCAGTTGACTGAGAAATGT chr4A_1 G------------AGCCTGTTCTCCTGTCTTTCAGTTGACTGAGAAATGT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S--------------S------SS-------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 --GTGTGT--TTTCGTATCCATAAATTAAATTGCAGGAAGCTGCTTTTAC chr7D_1_TraesCS7D01G000200 --GTGTGT--TTTCGTATCCATAAATTAAATTGCAGGAAGCTGCTTTTAC chr7A_1 --GTGTGTCTTTTCTTATCCATAAATTAAATTGCAGGATGCTGCTTATCT chr4A_1 GTGTGTGTCTTTTCTTATCCATAAATTAAATTGCAGGATGCTTTTATG-- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------S-----------------------S---------SS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGCTTCGTTGGAGCAGCTTCCAGACATACAGCTACAGGCCGAGCAGCAAA chr7D_1_TraesCS7D01G000200 TGCTTCGTTGGAGCAGCTTCCAGACATACAGCTACAGGCCGAGCAGCAAA chr7A_1 GAATATGTTGGCCCAGCTTCCTGCAATCAGC------------------- chr4A_1 -GCTTCGTTGGAGCAGCTTCCAGACATAGAGCTACAGGCCGAGCATCAGA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs S---------------------------S----------------S--S- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GACACGATGAGTTCCCTATATTCAATTCCCCGATGCGTCCTTACACGGAT chr7D_1_TraesCS7D01G000200 GACACGATGAGTTCCCTATATTCAATTCCCCGATGCGTCCTTACACGGAT chr7A_1 --------------------------TCCCCGATGCGTCCTTACACGGAT chr4A_1 GATACGATGAATTCCCTATGTTCAATTCCCCGATGCGTCCTTACACGGAG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --S-------S--------S------------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CTCCCGTTCGTCGGCAACATGGGTGATGAGCAGGAAGACTTTTCGATGTA chr7D_1_TraesCS7D01G000200 CTCCCGTTCGTCGGCAACATGGGTGATGAGCAGGAAGACTTTTCGATGTA chr7A_1 CTCCCTTTTGTCGGCAACATGGGTGATGAGCAGGAAGACTTCTCGATGTA chr4A_1 TTCCCTTTCATTGGCAACATGGGTGATGCGCAGCATGACTTCTCCATGTA chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----S-----------------------------------S-------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TCTGAACAACACCATAGGTGAGCAGGATGTGCAAGACATGTTGCTCAATC chr7D_1_TraesCS7D01G000200 TCTGAACAACACCATAGGTGAGCAGGATGTGCAAGACATGTTGCTCAATC chr7A_1 TCTGAACAACATCATAGGTGAGCAGGATGTGCAAGCCATGTTGCCCAATC chr4A_1 TCAGGACGGTACCATAA---------ATCTGGATGACATCCTGCTCACTC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -----------------------------------------------ATC reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CAGCCGGCTCTACTACAGCTCCTCTTCCGTTCTGGTCCGCTAGCTCAGGT chr7D_1_TraesCS7D01G000200 CAGCCGGCTCTACTACAGCTCCTCTTCCGTTCTGGTCCGCTAGCTCAGGT chr7A_1 CAGCCGATGACGAAACGGGCGTGTCCAATCCTA------------CAGGC chr4A_1 CAGCCTATGACGAAACGGGCGCGTCCAATCCTA------------CAGGC chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------SSSSSSSS--S-SSS-SSSSSSSSSSSSSSSSSSSSSSS----S forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 CAGCCGGCTCTACTACA--------------------------------- reverse_6259 -------------------------------------------------- forward_5135 ---------------CAGCTCCTCTTCCGTTCTGG--------------- reverse_6260 -------------------------------------------------- forward_5137 -----------------GCTCCTCTTCCGTTCTGGTC------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TCATGGACTCCTTATGATCTCCAAGA------------------------ chr7D_1_TraesCS7D01G000200 TCATGGACTCCTTATGATCTCCAAGA------------------------ chr7A_1 TCATGGACTCCTTATCCCCAAGATATGTTG-------------------- chr4A_1 TCATGGACTCCTTATCCTGAAGATCTGTTGGACTCTATGCTAGAATCGGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------SS--SSS-SSS------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ------------------------------------------TATGGGGG chr7D_1_TraesCS7D01G000200 ------------------------------------------TATGGGGG chr7A_1 -------GACATGATAAATTCAATTGGCC------------CTATGGGAG chr4A_1 CAGGAGCGACATAATAAATTCAATTGGCCAAGATATGGGCTCTATGGGGG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CAGCACCTTGGACGCAGCAGCAGC------CTACAGCTCCAGCAGATTTG chr7D_1_TraesCS7D01G000200 CAGCACCTTGGACGCAGCAGCAGC------CTACAGCTCCAGCAGATTTG chr7A_1 CAGCACCTTGGACGCAGCAGCAGCAGCAGGCCACAGCTCCAGTAGAGTTG chr4A_1 CAGCACCCTCGGCGCAGCAGCAGC------CCACAGCTCCAGTAGAGTTG chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------S----------S---S--- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATGGACCCGCAACAAGGGATCGCGGCAAGGAGGATCCGGCTTGCGTACGC chr7D_1_TraesCS7D01G000200 ATGGACCCGCAACAAGGGATCGCGGCAAGGAGGATCCGGCTTGCGTACGC chr7A_1 ATGGACCCACAACAAGGGATTGCGGCAAGGAGGATCCGGCTTGCGTACGC chr4A_1 ATGGACCTGCAACAAGGGATTGCGGCAAGGAGGATCCGGCTTGCGTACGC chr1B_3901 ----------------------------GGAGGATCCGGCTTGCGTACGC chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------S----------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGTTGAGAGGGCATCGGCGTCTCAGCCTGTATTAGCTTGTCACTCGGAAA chr7D_1_TraesCS7D01G000200 TGTTGAGAGGGCATCGGCGTCTCAGCCTGTATTAGCTTGTCACTCGGAAA chr7A_1 TGTTGAGAGGGCATCGGCGTCTCAGCCTATATTAGCTTGTCACTCGGAAA chr4A_1 TGTTGACAGGGCATCGGCGTCTCAGCCTATATTAGCTTGTGACTCGGAAA chr1B_3901 TGTTGAGAGGGCATCGGCGTCTCAGCCTATATTAGCTTGTCACTCGGAAA chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------------S--------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCGAAGAAGGTGAGGGCGAATCAGCAGGCTGTAGCACAGAGAGTTCATCC chr7D_1_TraesCS7D01G000200 GCGAAGAAGGTGAGGGCGAATCAGCAGGCTGTAGCACAGAGAGTTCATCC chr7A_1 GCGAAGAAGGTGAGGGCGAATCAGCTGGCTGTAGCACAGAAAGTTCATCC chr4A_1 GCGAAGAAGGTGAGGGCGAATCAGCAGGCTGTAGCACAGAAAGTTCATCC chr1B_3901 GCGAACAAGGTGAGGGCGAATCAGCAGGCTGTAGCACAGAAAGTTCATCC chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------------------------S--------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AGCAACCATGAGGAGGATCAT---GTCGATGATGCCGTTTTCCAAACCAT chr7D_1_TraesCS7D01G000200 AGCAACCATGAGGAGGATCAT---GTCGATGATGCCGTTTTCCAAACCAT chr7A_1 AACAACCATGAGGAGGAGGATCATGTCAATGATGCACTTTTCCAAACCAT chr4A_1 AGCAACCATGAGGAGGATGATCATGTCAATGATGCACTTTTCCAAACTAT chr1B_3901 AGCAACCATGAGGAGGAT---CATGTCAATGATGCAGTTTTCCAAACCAT chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------------------S--------S-------S-------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GGTATGTATGGTTCTTCTGACTAATTACCTTGAGTTATGC-----TCTCT chr7D_1_TraesCS7D01G000200 GGTATGTATGGTTCTTCTGACTAATTACCTTGAGTTATGC-----TCTCT chr7A_1 GGTATGTATGGTTCTTCTGACTAATTACCTTGAGTTATGC-----TTG-- chr4A_1 GGTATGTATGGTTCAGAC------TTACCTTGAGTTATGT-----TTG-- chr1B_3901 GGTATGT-----------------------TGAGTTATGTTTGATTTG-- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------------------------------SSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TGAAAAAAAGACTTAGAGCAAGTCTACTTAGTAGTAGTATTTACTTTACT chr7D_1_TraesCS7D01G000200 TGAAAAAAAGACTTAGAGCAAGTCTACTTAGTAGTAGTATTTACTTTACT chr7A_1 ---AAAAAAGACTTGGAGCAAGTCTACTTAGTAGTA---TTTAATTTACT chr4A_1 ---AAAAAAGACTGAGAGCAAGTCTACTTATTAGTA---TTTTG--TAC- chr1B_3901 ---AAAAAAGACTTTGT--AAGTCTACTTAGTA------TTTACTTTAC- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSS---------------------------------SSS----------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CATCATAATAATATGTCTGTGTTGCTCAGGCTGGAGATCTGATGCATAAC chr7D_1_TraesCS7D01G000200 CATCATAATAATATGTCTGTGTTGCTCAGGCTGGAGATCTGATGCATAAC chr7A_1 CATCATAATA-------TGTCTTGCTTAGGCTGGAGATCTGATGCATAAC chr4A_1 --TCATCATAATATGTCTGTCTTGCTCAGGCTGGAGATCTGATGCATAAC chr1B_3901 --TCATCATAATATGTCTGTCTTGCTCAGGCTGGAGATCTGATGCATAAC chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------------S----------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATGGCTCCTGCTCAAGCACTAGT-AGTTTCTCCGGTGCAAGTTGCAGACA chr7D_1_TraesCS7D01G000200 ATGGCTCCTGCTCAAGCACTAGT-AGTTTCTCCGGTGCAAGTTGCAGACA chr7A_1 ATCACTCCTGCTCAAGCGCTACT-GGTTTCTTCGGTGGAAGTTGCAGACA chr4A_1 ATGGCTCCTGCTCAAGCGCTGCT-GGTTTCTCCCGTGGAAGTTGCAGACA chr1B_3901 ATCCCTCCTGCTCAAGCGCTACAGGGTTTCTCCGGTGGAAGTTGCAGACA chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------S---S--S------------S------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AGCTTGAGCATCTATCATTCAATCTCAATGGTATGTAATA---------- chr7D_1_TraesCS7D01G000200 AGCTTGAGCATCTATCATTCAATCTCAATGGTATGTAATA---------- chr7A_1 AGCTCCAGCATCTATCATTCAATG-------------------------- chr4A_1 AGCTCCAGCATCTATCATTCAGTG-------------------------- chr1B_3901 AGCTCCAGTTTGTAACACTACACTAGTGTCAAAAACGTTCTTATATTATG chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----SS-----------------SSSSS-SSS-SSSSS-S---------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ----------------TAATAAACCTTGCTTGTTCAGTTTTGAAAAGAGG chr7D_1_TraesCS7D01G000200 ----------------TAATAAACCTTGCTTGTTCAGTTTTGAAAAGAGG chr7A_1 -----------GTACGTACGTAATAAGCCTTCTTCAGTTTTGA-AAGAGA chr4A_1 -----------GTACGTAATAAATAAGCCTTGTTCAATTTTGA-AAGAGA chr1B_3901 GGACGGAGGGAGTACGTAATAAATAAGCCTTCTTCAGTTTTGA-AAGGGG chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------------SSSSS---------------S------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AA--GGGTAGCTTAGTGCCCGTATCCTG-----------AGCTGAGCTGT chr7D_1_TraesCS7D01G000200 AA--GGGTAGCTTAGTGCCCGTATCCTG-----------AGCTGAGCTGT chr7A_1 AAGGGGATAGCTCAGTGCCCGTATCGTGAGCTGTGGCTAAGCCGAGCTGT chr4A_1 AA--GGATGGCTTAGTGCCCGTATGGCGAGCTGTGGCTAAGCTGAGGTGT chr1B_3901 AA--GGATAGCTTAGTGCCCGTATCGCGAGCTGTGGCTAAGCTGAGCTGT chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ------S------------------S------------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TTGGTAAATTTGGTGCCGTGCAGATAACAACATATTGG---AACAAGAAG chr7D_1_TraesCS7D01G000200 TTGGTAAATTTGGTGCCGTGCAGATAACAACATATTGG---AACAAGAAG chr7A_1 TTGGTAAATTTGCTGCCGTGCAGATGACAGCATATTGG---AAGAAGAAG chr4A_1 TTGGTAAATTCGGTGCCGTGCAGATAACAGCATATTGGAACAAGAAGAAG chr1B_3901 TTGGTAAATTTGGTGCCGTGCAAATAACAGCATATTGG---AAGAAGAAG chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -----------------------------S-------------S------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------CAAGAAG forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------CAAGAAG reverse_7654 -------------------------------------------------- input_sequence_15141 ATGCCAAGCTGCC----TGGTGGAGCTGTTC------------TGAAGCA chr7D_1_TraesCS7D01G000200 ATGCCAAGCTGCC----TGGTGGAGCTGTTC------------TGAAGCA chr7A_1 ATGCCAAGCCGCG----TCGTGGAGCCGGTCTGAAGCAGAGGGTGAAGCA chr4A_1 ATGGCAAGCCGCG----TCGTGGAGCCGGTCTGAAGCAGAGGGTGAAGCA chr1B_3901 ATGCCAAGCCGCGCGCGTCGTGGAGCCGGTCT------------GAAGCA chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------S--S-----S-------S-S--------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 ATGCCAAGCTGCC------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 ATGCCAAGCTGCC------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GGATTCCGGTCGAAACGGGCACGACCAGGACGGACTCGTGCGCAACAGTG chr7D_1_TraesCS7D01G000200 GGATTCCGGTCGAAACGGGCACGACCAGGACGGACTCGTGCGCAACAGTG chr7A_1 GGACTCGGGTCGAAACGGGCATGACCCGGACGGACTCCTGCGCAACAGTG chr4A_1 GGACTCGGGTCAAAACGGGCACGACCAGGACGGACTCGTGCGCAACAGTG chr1B_3901 GGACTCGGGTCGAAACGGGCACGACCAGGACGGACTCGTGCGCAACAGTG chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---S--S------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ACTGCGTGCCTGGCCCTGGAGATTCATCTTCAGAAACA------------ chr7D_1_TraesCS7D01G000200 ACTGCGTGCCTGGCCCTGGAGATTCATCTTCAGAAACA------------ chr7A_1 CCTACTTGCCTGGCCCTGGAGATTCATTTTCAGAAACA------------ chr4A_1 GCTGCGTGCCTGGCCCTGGAGATTCATCTTCAGAAACC------------ chr1B_3901 ACTGCGTGCCTGGCCCTGGAGATTCATCTTCAGAGACAGCGAGACGGCCT chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCCGT---GCGGAGATCCCTCTGGCTGGCGCTCCTGGTGATGGCC----- chr7D_1_TraesCS7D01G000200 GCCGT---GCGGAGATCCCTCTGGCTGGCGCTCCTGGTGATGGCC----- chr7A_1 GCGAGACGGCGGAGGTCCCTCTGGCTGGCGCTCCTGGTGATGGCCATCCC chr4A_1 GCCGT---GCGGAGGTCCCTGTGGGTGGCGCTCCTGGTGATGG-----CC chr1B_3901 GCCGT---GCGGAGGTCCCTCTGGCTGGCGCTCCTGGTGATGGCCCCTCT chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs --------------S----------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CCTCTGCTTGTGCTTGTCTTGGCTGGTGTCTGGAGGTCACTGAGCTACCG chr7D_1_TraesCS7D01G000200 CCTCTGCTTGTGCTTGTCTTGGCTGGTGTCTGGAGGTCACTGAGCTACCG chr7A_1 CCTCTGCTTGTGCTTGTATTGGTTGGTGTCTGGAGGTCACTGAGCTACCG chr4A_1 CCTCTGCTTGTGCTTGTGTTGGTTGGTGTCTGGAGGTGACTGAGCTACCG chr1B_3901 A-----CTTGTGCTTGTCTTGGTTGGTGTCTGGAGGTCACTGAGCTA--- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ----------------------S--------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 GCCGGT---------CTAAACTAAAC-----GGTTCCTCTTCCTCATCGT chr7D_1_TraesCS7D01G000200 GCCGGT---------CTAAACTAAAC-----GGTTCCTCTTCCTCATCGT chr7A_1 GCCGGT---------GTAAGCTAAACTAAACGGTTCCTCTTCCTCATCGT chr4A_1 GCCAGCCGGTGAGAACTAAACTAAAC-----GGTTCCTCCAAATCATCAT chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TC-------TTCGTTCGTAGGCTCTCTCACTGATATATGTTGCTGGTGTG chr7D_1_TraesCS7D01G000200 TC-------TTCGTTCGTAGGCTCTCTCACTGATATATGTTGCTGGTGTG chr7A_1 TC-------TTCGTTGGTAGGCTCTCTCTCTATATAT------------- chr4A_1 CGTTCTTCGTTCGTTGGTAGGCTCTCTCTCTCTATATAT----------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs ---------------S------------S--SSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TATATACT------------------------------------------ chr7D_1_TraesCS7D01G000200 TATATACTTACTCCCTCCGTCCGGAAATACTTGTCATCAAAATGGATAAA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 --------TACTCCCTCCGTCCGGAAAT---------------------- forward_5135 -------------------------------------------------- reverse_6260 ---------ACTCCCTCCGTCCGGAAATA--------------------- forward_5137 -------------------------------------------------- reverse_6262 -----------TCCCTCCGTCCGGAAATACT------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 AGGGGACGTATCTAGACATATTTTTGTTCTAGATACATCTGTTTTTAATC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ATTTTGATGACAAGTATTTTCGAGGACGGAGGGAGTATAACTTTAGGCTC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TACCTACCGTACCGACTTTGTAATGTCGCCATGGGTTGATATTCACATGA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CATATTGTAGAAAGCGACTTCCAAACTTGTCTATGCAAATGCAAATGAAT chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 -------------------------------------------------- chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ---------------------------------TACTCCCTCCGTCCG-G chr7D_1_TraesCS7D01G000200 GATTCAGTTAGCAATTCCATGACCATACATACATACTCCCTCCGTCCCGA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ---------------------------------TACTCCCTCCGTCCC-G chr4D_4994 -----------------------------------CTCCCTCCGTCCCGA chr7D_4997 --------------------------------ATACTCCCTCCGTCCC-A chr2D_4998 ---------------------------------TACTCCCTCCGTCCCGA chr2D_4998 ---------------------------------TACTCCCTCCGTTCCGT chr5B_4998 ---------------------------------TACTCCCTCCGTCCCAA chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------ forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 AAATA------CTTGTCATCAAAATGGATAAAAGGGGACGTATCTAGACA chr7D_1_TraesCS7D01G000200 AAAACATGTCGCAAGGGCTTTTTCGCAATTTAGTCCTTCGAACTTTCCCG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 AAAAA------CAAGGGCTTTTTCGCAATTTAGTCCTTCGAACTTTCCCG chr4D_4994 AAAACATGTCGCAGGGGTTATTTTGCAGTTTAGTCCTCAGGTTTTTCCCG chr7D_4997 AAAACATGTCGCAAGGGCTTTTTCGCAATTTAGTTCTTCGAACTTTCCCG chr2D_4998 AAAACATGTCGCAAGGGCTTTTTTGCAATTTACTCCTTCGAACTTTCCCG chr2D_4998 AATTCTTGTCGCAAGGGCGTTTTTGCATTTTAGTCCTTCGAATTTTGCCG chr5B_4998 AAAACATGTCGCAAGGGCTTTTTCGCAATTTAGTCCTTCAAACTTTCCCG chr7A_5021 ------TGTCGCAAGGGCTTTTTCGCAATTTAGTCCTTCGAACTTTCCCG chrUn_5021 ------TGTCGCAAGGGCTTTTTC-CAATTTAGTCCTTCGAATTTTCCCG chrUn_5021 ------TGTCGCAAGGGCTTTTTC-CAATTTAGTCCTTCGAATTTTCCCG SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TA------------------------------------------------ chr7D_1_TraesCS7D01G000200 ACCAAACCC--GCAGTCCACCCTGT------CTC------------CTTC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ACCAAACCCCCGCTGTCCACCCCGT------CTCCTTCCTCGCTCTCTTC chr4D_4994 ACCAAACCC--GCAGTCCAGCGTCTTCGTCGCTC------------TGTG chr7D_4997 ACCAAACCC--GCAGTCCACCCCGT------CTCCTTCCTCGCTCTCTTC chr2D_4998 ACCAAACCC--GCAGTCCACCCCGT------CTCCTTCCTCGCTCTCTTT chr2D_4998 ACCAAACCC--GCAGTCCACCCCGT------CTCCTTCCTCGCTCTCTCC chr5B_4998 ACCAAACCC--GCAGTCCACCCTGT------CTCCTTCCTCGCTCTCTTC chr7A_5021 ACCAAACTC--GCAGTCCACCCCGT------CTCCTTCCTCGCTCTCTTC chrUn_5021 ACCAAACCC--GCAGTCCATCCCAT------CTCCTTCAATG--CTCTTT chrUn_5021 ACCAAACCC--GCAGTCCATCCCAT------CTCCTTCAATG--CTCTTT SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CTCGCTCCCCCACTCTGGCGACGGCGC----------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 GTCGCTCCCCCACTCCGGCGACGGCGC----------------------- chr4D_4994 GTCGGTCTCTCTCTCCGCCGACGGCCGATTGCACGACGGGCTCCGCCTTG chr7D_4997 GTCGCTCCCCCACTTCGGCAACGGTGC----------------------- chr2D_4998 GTCGCTCCCCCACTCCGGCGACGGCGC----------------------- chr2D_4998 GTCGCTCCCCCACGCCGGCGACGGCGC----------------------- chr5B_4998 GTCGCTCCCCCACTCCGGCGACGGCGC----------------------- chr7A_5021 ATCGCTCCCCCACTCCGGCGATGGCGC----------------------- chrUn_5021 GTCGCTCCCCCACGCCGGCGACGGCGC----------------------- chrUn_5021 GTCGCTCCCCCACGCCGGCGACGGCGC----------------------- SNPs S--------------S---------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ------------------TGCCTCCGACCCTCCGCCCCACGCCCCACGCC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ------------------TGCCTCCGACCCTCCGCCCCACGCCCCACGCC chr4D_4994 CTCTTCCCCTCCCCTGAATGCCTCC--CCATGCTGCCTGACCCC------ chr7D_4997 ------------------TGCCTCCAACCCTCCGCCCCACGCCCCACGCA chr2D_4998 ------------------TGCCTCCGACCCTCCGCCCCACGCCCCACGCC chr2D_4998 ------------------TGCCTCC--CCCTCCGTCCCACGCCCCACGCC chr5B_4998 ------------------TGCCTCCGACCCTCCGCCCCACGCCCCACACC chr7A_5021 ------------------TGCCTCCGACCCTCCGCCCCACGCCCCACGCC chrUn_5021 ------------------TGCCTCCAACCCTC-------CGCCCCACGCC chrUn_5021 ------------------TGCCTCCAACCCTC-------CGCCCCACGCC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ACCTTGCTCCCC-CCA-------------------CCCACCTCTCCGCCG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ACCTTGCTCCCC-CCAGGCCACCTTGCTTCCCCCACCCACCTCTTCGCCG chr4D_4994 ------CTCCCC-CTC-------------------CCACCCTCGCCGCCC chr7D_4997 ACCTTGCTCCCC-CCA-------------------CCCACCTCTCTGCCG chr2D_4998 ACCTTGCTCCCC-CCA-------------------CCCACCTCTCCGCCG chr2D_4998 ACCATGCTCCCC-C-A-------------------CCCACCTCTCCGCCA chr5B_4998 ACCTTGCTCCCCAC-A-------------------CCCACCTCTCCGCCG chr7A_5021 ACCTTGCTCCCC-C-A-------------------CCCACCTCTCCGCCG chrUn_5021 ACCTTGCTCACC-CCCACCT-----------------------TCTGCCG chrUn_5021 ACCTTGCTCACC-CCCACCT-----------------------TCTGCCG SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CACCACGTAGCCGTCGCCTCTCCCCCCACGCC-CCCCCCCACGCCGCCGG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CACCACGTAGCCGTCGCCTCTCCCCCCACGCCGCCCCCCCACGCCGCCGG chr4D_4994 CACGCTGC--------------------CGCC-CTGCCCCTCGCCGCGTT chr7D_4997 CACCACGTAGCCGTCGCCTCTCCCTCCTCC-----CCTCCCCCCCAC--- chr2D_4998 CACCATGTAGCCGTCGCCTCTCCCCCCACA-----CCCCCACGCCGCCGG chr2D_4998 CACCACGTTGCCGCCTCGTCCCCCC----------AC-----GCCAGCAC chr5B_4998 CACCACGTAGCCGTCGCCTCTCCCC----------CCCCCATGCCGCCGC chr7A_5021 CACCACGTAGTCGTCGCCTC---------------CCCCCATGCCGCCGC chrUn_5021 CACCATGTAGCCGCCCCCCCTCCCT----------CC-----GTCGCCGC chrUn_5021 CACCATGTAGCCGCCCCCCCTCCCT----------CC-----GTCGCCGC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CTCGTTCCCCTGCCAAAACAGAGCAGGCGGCAAGGTTCGATTTTTGCCGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CTCGTTCCCCTGCCAAAACAGAGCAGGCGGCAAGGTTCGATTTTTGCCGC chr4D_4994 GGTCCACCACTTCCTCG--ACAACGACGGGGAAGCTTTGATTTT-GTATG chr7D_4997 ---------------------------------------------GTCGC chr2D_4998 CTCGTTCCCCTGCCAAAACAGAGCAGGCGGCAAGGTTTGATTTTTGCCGC chr2D_4998 CTCGTTCCCCTGCCAAAACAGAGCATGCAGCAAGGTTCGATTTTTGCCCC chr5B_4998 CTCGTTCCCCTGCCAAAACAGAGCAAGCGGCAAGGTTTGATTTTTGCTGC chr7A_5021 CTCGTTCCCCTGCCAAAACAGAGCAAGCGGCAAGGTTCGATTTT-GTCGC chrUn_5021 CTCGTTCCCCTGCCAAAACAGAGCAAGCGGCATGGTTCGATTTTTGTCGC chrUn_5021 CTCGTTCCCCTGCCAAAACAGAGCAAGCGGCATGGTTCGATTTTTGTCGC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CGCCTGGTTCACCTGCG--------------------CGTTGTGGATAA- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CGCCTGGTTCACCTGCG--------------------CGTCGTGGATAA- chr4D_4994 GATCTGCTCTTCGACCACTTCGTCGCCGGCTAAACGTCGTCGTCGACCAA chr7D_4997 TGCCTTGTTCACCTGCG--------------------CGTCGTGGATCAC chr2D_4998 CGCCTGGTTCACCTGCG--------------------CGTCGTGGATAA- chr2D_4998 TGCCTGGTTCCCCTGCG--------------------CGTCGTGGATCAC chr5B_4998 TGCCTGGTTCACCTGCG--------------------CGTCGTGGATCAC chr7A_5021 CGCCTGGTTCACCTGCG--------------------CGTCGTGGATCAC chrUn_5021 CGCCTAGTTCCCTTGCA--------------------CGTCGTGGATCAC chrUn_5021 CGCCTAGTTCCCTTGCA--------------------CGTCGTGGATCAC SNPs ----------------------------------------S--------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------CCGGCTAGTCTCCGTCGACCTCATCCCTTCCCCCCACAGCTGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------CCGGCTAGTCTCCGTCGACCTCATCCCTTCCCCCCACAGCTGC chr4D_4994 TTCCACGCCATATCGACTCCGTCGACCACGAA------------------ chr7D_4997 CTCCTCGCCGGCTAGCCTCCGTCGACCTCATCCCTTCCCCCCACAGCCCC chr2D_4998 -------CCGGCTAGTCTCCGTCGACTTCATCCCTTCCCCCCACAGCCCC chr2D_4998 CTCCTCGCCGACCAGCCTCCGTCGACCTCATCCCTTCCCCCG-CAGCCCC chr5B_4998 CTCCTCGCCGGCTAGCCTCCGTCGACCTCATACCTTCCCCCCACAGCCCC chr7A_5021 CTCCTCGCCGGCTAGCCTCCGTCGACCTCATCCCTTCCCCCCATAGCCCC chrUn_5021 CTCCTTGCCGGCTAGCCTCC---------ATCCCTTCCCCCGCCGGCCCC chrUn_5021 CTCCTTGCCGGCTAGCCTCC---------ATCCCTTCCCCCGCCGGCCCC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ACCCCGCCGCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACGCCGCAG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ACCCCGCCGCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACGCCGCAG chr4D_4994 ----------------------TTCGGTCCGGTCCACCTGCACGCAGCTT chr7D_4997 ACCCCGCCGCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACACCACAG chr2D_4998 ACCCCGCTGCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACGCCGCAG chr2D_4998 ACCCCGTCCCTTCCGCGTCATCTTCGGCCGGCGGCCTCGCCACGCCGCAG chr5B_4998 ACCCCGCCTCTCCCGCGTCATCTTCGGCCGGCAGCCCCGCCACGCCGCAG chr7A_5021 ACCCCGCCGCTCCCATGTCATCTTCGGCCGGCGGCCCTGCCACGCCGCAG chrUn_5021 ACCCCGCCCCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACGCCGCAG chrUn_5021 ACCCCGCCCCTCCCGCGTCATCTTCGGCCGGCGGCCCCGCCACGCCGCAG SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CTCCTTCG------------------------------------------ chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CTCCTTCG------------------------------------------ chr4D_4994 CGGACGGACAGATGCACGGACGACCACCCGACGACTCTTCCAGGGCCTAG chr7D_4997 CTCCTTCG------------------------------------------ chr2D_4998 CTCCTTCG------------------------------------------ chr2D_4998 CTCCTCCG------------------------------------------ chr5B_4998 CTCCTTCA------------------------------------------ chr7A_5021 CTCCTTCA------------------------------------------ chrUn_5021 CTCCTTCG------------------------------------------ chrUn_5021 CTCCTTCG------------------------------------------ SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 GCCGCACGCACAGATGTCCAGACGGCGGCGCAAAGTGCTCCGGCGATGAG chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 ACCCGGCGTGGCCGCCGGACGTGACCAGCAGGTTCGGCCCCCTCCCGTGG chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 --------------------TTTTTGTTCTAGATACATCTGTTTTTAATC chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 GTTGCTTAAGCTTAGGATTCTTTTTGTTCTGCTCAATGTAGTCTGAAATT chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATTTTGATGACAAGTATTTTCGAGGACGGAGGGAGTATAACTTTAGGCTC chr7D_1_TraesCS7D01G000200 -------------------------------------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -------------------------------------------------- chr4D_4994 GTTCTTCTCAAGCTAGTAAATTTAGGAATTTTTTTTCTGTAAATCTTTTT chr7D_4997 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr2D_4998 -------------------------------------------------- chr5B_4998 -------------------------------------------------- chr7A_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- chrUn_5021 -------------------------------------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 TACCTACCGTACCGACTTTGTAATGTCGCCATGGGTTGATATTCACATGA chr7D_1_TraesCS7D01G000200 --------------------------------------CCAGCAAGCCGA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 --------------------------------------CCAGCAAGCCGA chr4D_4994 TTCAGTGTAAAGTCATACTAGATTTGAATTGGCTTCTTCAAGAAGGTAGA chr7D_4997 --------------------------------------CCAGCAAGCCGA chr2D_4998 --------------------------------------CCAGCAAGCCGA chr2D_4998 --------------------------------------CTAGGAAGTCGA chr5B_4998 --------------------------------------CCAGCAAGCCGC chr7A_5021 --------------------------------------CCAGCAAGTCGA chrUn_5021 --------------------------------------CCAGCAAGCCGT chrUn_5021 --------------------------------------CCAGCAAGCCGT SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 CATATTGTAG---------------------------------------- chr7D_1_TraesCS7D01G000200 CGCCGCCTTCCACCCCGTGTCGCCGTCGCCAGCAGGTAGACGACGCCGTC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CGCCGCCTTCCACCCCGTGTCGCCGTCGCCAGCAGGTAGACGACGCCGTC chr4D_4994 AGACGCCGTCCACCCTGTGTCACCGTCGCCAGAAGGTAGAAGACGTCGTC chr7D_4997 CGCCGCCTTCCACCCCGTGTCGCCGTCGCTAGCAGGTAGACGACGTCGTC chr2D_4998 CGCCGCCTTCCACCCCGTGTCGCCGTCGCCAGCAGGTAGACGACGCCGTC chr2D_4998 CGCCGCCGTCCACCCCGTGTCGCCGTCGCCAGCAGGTAGAAGACGCCGTC chr5B_4998 CGCCGCCTTCCACCCCGTGTTGCCGTCGCCAGCAGGTAGACGACGCCGTG chr7A_5021 CGCCGCCTTCCACCCCATATCATCGTCGCCAGCAGGTAGACGACGCCGTC chrUn_5021 CGCCGCCTTCCGCCCCATGTCGCCGTCGCCAGCAGGTAGACGACGTCGTC chrUn_5021 CGCCGCCTTCCGCCCCATGTCGCCGTCGCCAGCAGGTAGACGACGTCGTC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CACTCCTGTTCAGCCACGGCACCATCGTCCA------------------- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CACTCCTGTTCAGCCACGGCACCATCGTCCA------------------- chr4D_4994 CACTCCTATTCAGCCACTGCACCATCGTCCA------------------- chr7D_4997 CACTCATGTTCAGCCACGGCACCATCGTCCAGCAGCTCAAGGCCGACATC chr2D_4998 CACTCCTGTTCAGCCACGGCACCATCGTCCA------------------- chr2D_4998 CACTCCTGTTCAGCCACTGCACCATCGTCCA------------------- chr5B_4998 CACTCCTGTTCAGCCACGGCACCATCGTCCA------------------- chr7A_5021 CACTCTTGTTCAGCCACGGCACCATCATCCA------------------- chrUn_5021 CACTCCTGTTCAGCCACGATGCCATTGACCA------------------- chrUn_5021 CACTCCTGTTCAGCCACGATGCCATTGACCA------------------- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 -----GCACCTCAA------------------------GGCCGTCCA--- chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 -----GCACCTCAA------------------------GGCCGTCCA--- chr4D_4994 -----GCACCTCAA------------------------GGCCGACATCGC chr7D_4997 GTCCAGCACCTCAA------------------------GGCCGTCCA--- chr2D_4998 -----GCACCTCAA------------------------GGCCGTCCA--- chr2D_4998 -----GGACCTCAA------------------------GGCCGACATCGT chr5B_4998 -----GCACCTCAAGGCCGACATCATCCAGCACCTCAAGGCCGTCCA--- chr7A_5021 -----GCACCCCAA------------------------GGCCGTCCA--- chrUn_5021 -----GCACCTCAAGGCCGACATTGTCCAACACCTCAAGGTCGTCCA--- chrUn_5021 -----GCACCTCAAGGCCGACATTGTCCAACACCTCAAGGTCGTCCA--- SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chr4D_4994 CTGGAGCTCCTG-TTCAAGATTTCAGATTCAGAGATGAGTACTGAAACTA chr7D_4997 ------CTCTTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chr2D_4998 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chr2D_4998 CTGGAGCTCCTG-TTCAAGATTTCAGATTCAGATACGAGTACTGAAACTA chr5B_4998 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chr7A_5021 ------CTCCTGTTTCAAGATTTCAGATTCAGAGGTGAGTACTAAAACTA chrUn_5021 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA chrUn_5021 ------CTCCTG-TTCAAGATTTCAGATTCAGAGGTGAGTACTGAAACTA SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ---------------------AAAGCG-ACTTCCAAACTTGTCTATGCAA chr7D_1_TraesCS7D01G000200 CTTGATGCTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CTTGATGCTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chr4D_4994 CTTGATGCTAAGATTCAGACTAAAGTT-ACTGTCAAAACTGTCAATTTTC chr7D_4997 CTTGATGTTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chr2D_4998 CTTGATGCTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chr2D_4998 CTTGATGCTAAGATTCAGACTAAAGTTCACTATCAAAACTGTCAATTTTC chr5B_4998 CTTGATGCTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chr7A_5021 CTTGATGCTAAGATTCAGACTAAAGTTCACTGTCAAAACTGTCAATTTGC chrUn_5021 CTTGATGCTAAGATTTAGACTAAAGTTCACTATCAAAACTGTCAATTTGC chrUn_5021 CTTGATGCTAAGATTTAGACTAAAGTTCACTATCAAAACTGTCAATTTGC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ATGCAAATGAATGATTCAGTTAGCA------------------------- chr7D_1_TraesCS7D01G000200 TCCTTGATGTGGGCATTTCTAGTTTGATCCAGAGATTCAGAAGATTAAGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 TCCTTGATGTGGGCATTTCTAGTTTGATCCAGAGATTCAGAAGATTAAGC chr4D_4994 TCCTTGATGTGAGCATTTATAGTTTGATCCAGAGATTCAG---------- chr7D_4997 TCCTTGATGTGGGCATTTCTAGTTTGATCCAGAGATTCAGAAGATTAAGG chr2D_4998 TCCTTGATGTGGGCATTTCTAGTTTGACCCAGAGATTCAGAAGATTAAGC chr2D_4998 TCCTTGATGTGAGCATTTCTAGTTTGATCCAGAGATTCAGA--------- chr5B_4998 TCCTTGATGTGGGCATTTCTAGTTTGATCCAGAGATTCAGAAGATTAAGC chr7A_5021 TCCTTGATGTGGGCATTTCTAGTTTGATCCAAAGTTTCAGAAGATTAAGC chrUn_5021 TCCTTGATGTGGGCACTTTTAGTTTGATCTAGAGATTCAGAAGATTAAGC chrUn_5021 TCCTTGATGTGGGCACTTTTAGTTTGATCTAGAGATTCAGAAGATTAAGC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GACTCATTCGCACATCTAGAGCCAACGTAACGCGTCAATAATTCATCGGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 GACCCATTCGCACATCTAGAGCCAACGTAACGCGTCAATAATTCATCGAC chr4D_4994 -------------------------------------------------- chr7D_4997 GACCCATTCGCACATCTAGAGCCAACGTAACGCGTCAATAATTCATCGGC chr2D_4998 GACCCATTCATACATCTAGAGCCAACGTAACGCGTCAATA-----TCGGC chr2D_4998 -------------------------------------------------- chr5B_4998 GACCCATTCGCACATCTAGAGCCAACGTGACGCGTCAATAATTCATCGGC chr7A_5021 GACCCATTCGCACATCTAGAGCCAACGTAACGCGTCAATAATTCATCGGC chrUn_5021 GACCCATTCGCACATCTAGAGCCAACGTAACGTGTCAATAATTCATCGGC chrUn_5021 GACCCATTCGCACATCTAGAGCCAACGTAACGTGTCAATAATTCATCGGC SNPs ---S---------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 ---TCATTCGCACATCTAGAGCCA-------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGACATGA chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGACATGA chr4D_4994 -------------------------------------------------- chr7D_4997 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGCCATGA chr2D_4998 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGACATGA chr2D_4998 -------------------------------------------------- chr5B_4998 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGCCATGA chr7A_5021 GTTTGTTTACTGATTGCCGCTAAAGTTTGATGCTTTCGATCTGGCCATGA chrUn_5021 GTTTGTTTACTGATTGCTGCTAAAGTTTGATGCTTTCGATCTGGCCATGA chrUn_5021 GTTTGTTTACTGATTGCTGCTAAAGTTTGATGCTTTCGATCTGGCCATGA SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TTGG--GAGAGAGAGAGAGAGAGAGAGAG----------AGA--GAGATG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 TTGGGAG------------------AGAG----------AGA--GAGATG chr4D_4994 -------------------------------------------------- chr7D_4997 TTGG--G------------------AGAG----------AGA--GAGATG chr2D_4998 TTAGGAG------------------AGAG----------AGA--GAGATG chr2D_4998 -------------------------------------------------- chr5B_4998 TTGG--G------------------AGAGAGAGAGAGAGAGA--GAGATG chr7A_5021 TTGG--G------------------AGAG----------AGAGGGAGATG chrUn_5021 TTGA--G------------------AGA----GATAGAGAGA--GATGTG chrUn_5021 TTGA--G------------------AGA----GATAGAGAGA--GATGTG SNPs -------SSSSSSSSSSSSSSSSSS------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chr4D_4994 -------------------------------------------------- chr7D_4997 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chr2D_4998 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chr2D_4998 -------------------------------------------------- chr5B_4998 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGCTT chr7A_5021 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chrUn_5021 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT chrUn_5021 TAAAACAAGATGAGATAGAAACTAGTTCTTCTACAACTTGTATCTGGTTT SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 CACACCCTTTTCTTTAGATCCAGGGACATAGGTCATGCTGGCATGGTAGC chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 CACACCCTTTTCTTTAGATCCAGGGACATAGGTCATGCTGGCATGGTAGC chr4D_4994 -------------------------------------------------- chr7D_4997 CACACCCTTTTCTTTAGATCCAGGGACATAGGTCATGCTGGCATGGTAGC chr2D_4998 CACACCCTTTTCTTTAGATCCAGGGACAGAGGTCATGCTGGCATGGTAGC chr2D_4998 -------------------------------------------------- chr5B_4998 CACACCCTTTTCTTTAGATCCAGGGACATAGGTCATGCTGGCATGGTAGC chr7A_5021 CACACCCTTTTCTTTAGATCTAGG-------------------------- chrUn_5021 CACACCCTTTTCTTTAGATCCAGGGACATAGGGCATGCTGGCATGGTAGC chrUn_5021 CACACCCTTTTCTTTAGATCCAGGGACATAGGGCATGCTGGCATGGTAGC SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 -------------------------------------------------- chr7D_1_TraesCS7D01G000200 TTACATTGTAGTGCTGATGCAGAGGTCTCCTCTAGTTGGGTTAAATTGAG chr7A_1 -------------------------------------------------- chr4A_1 -------------------------------------------------- chr1B_3901 -------------------------------------------------- chr2D_4985 TTACATTGTAGTGCTGATGCAGAGGTCTCCTCTAGTTGGGTTAAATTAAG chr4D_4994 -------------------------------------------------- chr7D_4997 TTACATTGTAGTGCTGATGCAGAGGTCTCCTCTAGTTGGGTTAAATTAAG chr2D_4998 TTACATTGTAGTGCTGATGCAGAGGTCTCCTCTAGTTGGGTTAAATTGAG chr2D_4998 -------------------------------------------------- chr5B_4998 TTACATTGTAGTGCTGATGCAGAGGTCTCCTCTAGTTGGGTTAAATTAAG chr7A_5021 -------------------------------------------------- chrUn_5021 TTACATTGTAGTGCTGATGCAGAGATCTCCTCTAGTTGGGTTAAATTAAG chrUn_5021 TTACATTGTAGTGCTGATGCAGAGATCTCCTCTAGTTGGGTTAAATTAAG SNPs -------------------------------------------------- forward_998 -------------------------------------------------- reverse_3171 -------------------------------------------------- forward_2601 -------------------------------------------------- reverse_4145 -------------------------------------------------- forward_3190 -------------------------------------------------- reverse_5894 -------------------------------------------------- forward_5117 -------------------------------------------------- reverse_6259 -------------------------------------------------- forward_5135 -------------------------------------------------- reverse_6260 -------------------------------------------------- forward_5137 -------------------------------------------------- reverse_6262 -------------------------------------------------- forward_5913 -------------------------------------------------- reverse_7654 -------------------------------------------------- input_sequence_15141 ------------------------- chr7D_1_TraesCS7D01G000200 GCGGTGACATCACGTCTCGGTGTTG chr7A_1 ------------------------- chr4A_1 ------------------------- chr1B_3901 ------------------------- chr2D_4985 GCGGTGACATCACGTCTCGGTGTT- chr4D_4994 ------------------------- chr7D_4997 GCGGTGACATCACGTCTCGGTGTT- chr2D_4998 GCGGTGACATCACGTCTCGGTGTT- chr2D_4998 ------------------------- chr5B_4998 GCGGTGACATCACGTCTCGGTGTT- chr7A_5021 ------------------------- chrUn_5021 GCGGTGACATCACGTCTCGGTGTT- chrUn_5021 GCGGTGACATCACGTCTCGGTGTT- SNPs ------------------------S forward_998 ------------------------- reverse_3171 ------------------------- forward_2601 ------------------------- reverse_4145 ------------------------- forward_3190 ------------------------- reverse_5894 ------------------------- forward_5117 ------------------------- reverse_6259 ------------------------- forward_5135 ------------------------- reverse_6260 ------------------------- forward_5137 ------------------------- reverse_6262 ------------------------- forward_5913 ------------------------- reverse_7654 -------------------------