CLUSTAL X (1.81) multiple sequence alignment input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GAGCGTTTAGAATACTAAAATAGTGATCTAAATGCTCTTATATTAGTTTA chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 CGCCCC-------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CGGAGGGAGTACTATTCTGCTGTAGATTAGCTACTCTGGAACAGCTTGAG chr5A_59 --------GTACCATTCTGCTGTAGATTAGCTACTCTGGAACAGCTTGAC chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSS----S------------------------------------S forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 AATTTTCTTCCATTTCAGTACTTTCTATTCTCTCAGAATCTTCCATTCCA chr5A_59 AATTTTCTTCCATTTCAGTACTTTCTATTCTCTCAGCATTTTCCATTCCA chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ------------------------------------S--S---------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TTTTGGGCTCCACATTTTATCTTTTCCTTCTTGGGTTGGAAATAAATAAA chr5A_59 TTTTGGGCTCCACATCTTATCTTTTCCTTCTTGGGTTGGAAATAAATA-A chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---------------S--------------------------------S- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TTTACGGCACCTTT-ATATACTAAAACAGGTGAAAGGCCAACAACCCCTT chr5A_59 TTTACGGCACCTTTGATGTACTAAAGCAGGTGAAAAGCCAACAACCCCTT chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----------------S-------S---------S-------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CTTTACTTTTACTACACTCTTGATGGAAACAATACGTCTAGTAGAAGATG chr5A_59 CTTTATTTTTACTCCACTCTCGATCGAAACAGTACGTCTAGTAGAAGATT chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----S-------S------S---S------S-----------------S forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 AGGTCGCTTTATGGCATGCAATGCAGGGTTCATGGACATTCTCCGCTTTC chr5A_59 AGGCCGCCTTATGGCATGCAATGTGGGGTTCATGGACATTCTCCGCTTTC chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---S---S---------------SS------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 AGTTACAGGATAGGTGACAGATCAGACGTTCTCAACCTTATTAAGAAGTT chr5A_59 AGTTACAGGATAGGTGACAGATCAGACGTTCTCAACCTTATTAAGAAGTT chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GCCACCAAACGACCATTTGCTCCACAGATGAAAGAAGAATCAGCCTCAAC chr5A_59 GCCACCACACGACCATTTGCTCCACAAATGGAAGAAGAATCAGCCTCAAC chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------S------------------S---S------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GTTGTTCATGGTCGGTCACCAAAGACCAAACGATGGCAACTTTGATCATA chr5A_59 GTTGTTCATGGTCGGTCACCAAAGACCAAACGATGGCAACTTTGATCATA chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GATGGATGGAAGAAGAAGAAGAACTTAGCTAGGAAGTAATCAATCATTGA chr5A_59 AATGGATGGAAGAAGAAGA---ACTTAGCTAGGAAGTAATCAATCATTGA chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs S------------------SSS---------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TGAAATCCAGTACGTACGTACTCCTCCGCTGGCTGGCTGCAAGCTAGTAC chr5A_59 TGAAATCCAGTATGTA---------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ------------S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 ----------TACGTACGTACTCCTCCGCT-------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TAGTCTGAAACAATGTTGAGACTGATTCTTCTTCCATTTTGGAGTGGATT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CAGTGCTCTCATGAAGTGCATATTACATTTTTTTTAATAAGAAGTGCAGA chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TCAATTGGCTACTAGGTCGAGTAGTGCAAATTAGTCATGGTCGGTCACGA chr5A_59 -------------------------------------------------- chr5A_722 ----------------------AGTGCAAATTAGTCATTGTCGGTCACGA chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSS----------------S----------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 AACGATGTCAACTTTGATCATCAATCATAAGCTTGAGTATATGTTAGTTT chr5A_59 -------------------------------------------------- chr5A_722 AACGATGTCAACTT---------------------------TGATAGTTT chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --------------SSSSSSSSSSSSSSSSSSSSSSSSSSS--S------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TTTTTCCTCATGGGTCAA-----------GTGGGCTAATAGGGCTAGCGC chr5A_59 ----------------------------CGTGGGCTAATAGGGCTAGCGC chr5A_722 TTTTTCCTCGTGGGTTAAGTGGATTCCCCGTGGGCTAATAGGGCTAGCGC chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---------S-----S---------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 ACTTT-AAAAAATCTGTCTAATGAGAGCCCACTAATGAATCAATTTAAGT chr5A_59 ACATAAAAAAAATCTGTCTAATGAGAGCCCACTAATGAATCAATCTAAGT chr5A_722 ACATAAAAAAATCTGT---------------CTAATGAATCAATCTAAGT chr5A_869 -------------------------------CTAATGAATCAATCTAAGT chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --S-S---------------------------------------S----- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GGGATGAGAGCCCACTAAACCACCTGCAGATTGCGTGCTTCCAGACGGCT chr5A_59 GCGATGAGAGCCCACTAAACCACCTGCAGATTGCGTGCTTCCAGACGGCT chr5A_722 GCGATGAGAGCCCACTAAACCACCTACAGATTGCGTGCTTCCAGACGGCT chr5A_869 GCGATGAGAGCCCACTAAACCACCTGCAGATTGCGTGCTTCCAGACGGCT chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -S------------------------------------------------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TTCCAAAGCGG---------------CCCGAGCCAATCTCCTTATACAAC chr5A_59 TTCCAAACCGGCCGATGACGGTGCACCCCGAGCCAATCTCCTCATACAAC chr5A_722 TTCCAAACCGGCCGATGAAGGTGCACCCCGAGCCAATCTTCTCATACAAC chr5A_869 TTCCAAACCGGCCGATGACGGTGCACCCCGAGCCAATCTCCTCATACAAC chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------S----------------------------------S------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ---------------------------------AGAATCAATCAAGGGTT chr5D_1_TraesCS5D01G012700 ACGCGCGG-----TCTCCACGCGACACAAAATCAGAATCAATCAAGGGTT chr5A_59 ACGCGCGG---------------ACACAAAATCATAATCAATCTAGGGTT chr5A_722 ACGCGCGGCGTGGTCTCCACGCGACACAAAATCATAATCAATTTAGGGTT chr5A_869 ACGCGCGG---------------ACACAAAATCATAATCAATCTAGGGTT chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ----------------------------------S--------S------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 TCTTCCAGATCGAAGATCATCACGTACTACAAACAATTGCAATCAAAGAA chr5D_1_TraesCS5D01G012700 TCTTCCAGATCGAAGATCATCACGTACTACAAACAATTGCAATCAAAGAA chr5A_59 TCTTCCAGAGC------------------------------------GAA chr5A_722 TCTTCCAGAGC------------------------------------GAA chr5A_869 TCTTCCAGATC------------------------------------GAA chr5B_1065 -----------------------------------------------GAA chr5B_1066 ------------------------------------------------AA chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 GATCATCACGTACGGTAGGCACG-CCATGGCTGCCGACGAGGACCGGCCG chr5D_1_TraesCS5D01G012700 GATCATCACGTACGGTAGGCACG-CCATGGCTGCCGACGAGGACCGGCCG chr5A_59 GATCATCACGTACGGTAGGCACG-CCATGGCTGCCGACGAAGACCGGCCG chr5A_722 GATCATCACGTACGGTAGGCACG-CCATGGCTGCCGACGAAGACCGGCCG chr5A_869 AAGCATCACGTACGGTAGGCACG-CCATGGCTGCCGACGAAGACCGGCCG chr5B_1065 CATCATCACC----GTAGGCAGGACGATGGCCGCCGACCAGGACAAGCCG chr5B_1066 GATCAACACGTACGGTAGGCACG-CCATGGCTGCCGACCAGGACTGGTCG chr5D_1079 -----------ACGGTAGGCAGGACGATGGCCGCCGACCAGGACAAGCCG chr5D_1090 ----------------------G-CGATGGCCGGCGATGAGAACCAGCCG chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CTGAAGGCCGCACGCGCAGACGAGACGGAGGAGCACCGGCTGACGCCTGA chr5D_1_TraesCS5D01G012700 CTGAAGGCCGCACGCGCAGACGAGACGGAGGAGCACCGGCTGACGCCTGA chr5A_59 CTGAAGGCCGCACGCGTAGACGAAA-GGGGGAGCAGGGGCTGACGCCTGA chr5A_722 CTGAAGGCCGCACGCGTAGACGAAA-GGGGGAGCAGGGGCTGACGCCTGA chr5A_869 CTGAAGGCCGCACGCGTAGACGAAA-GGGGGAGCAGGGGCTGACGCCTGA chr5B_1065 CTCAAGGCTGCTCGTGTCGAGGGCAGG---GAGGATCACCTGGCACG--- chr5B_1066 TCGAAGGTCGCACTTGTTGAAGGCACGGCGGAGGACCGGCTGCCGGTTTT chr5D_1079 CTCAAGGCTGCTCGTGTCGACGGCAGGGATGAT---CAGCTGGCACG--- chr5D_1090 CTAAACGATGCACGTGCCGACGGCGTGGATGAGGACCAGCCGGCGCG--- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----------------------S-------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CCTGCCGGAAGACGTGCTCGCCGACGTCCTCCACCGCGTCCCGCCGCGCT chr5D_1_TraesCS5D01G012700 CCTGCCGGAAGACGTGCTCGCCGACGTCCTCCACCGCGTCCCGCCGCGCT chr5A_59 CCTGCCGGAAGACGTG---------------------------------- chr5A_722 CCTGCCGGAAGACGTGCTCGCCGACGTCCTCCGCCGCGTCCCGCCGCGCT chr5A_869 CCTGCCGGAAGACGTG---------------------------------- chr5B_1065 CCTGCCGGAGGACGTGCTCGCCGACGTCCTCCGCCGCGTCCCGCCGCGTT chr5B_1066 CCTGCCGGGAGATGTTCTCGCCGACGTCCTCCGCCGCGTCCCGCCGTGCT chr5D_1079 CCTGCCGGAAGACGTGCTCGCCGACATCCTCGGCCGCGTCCCGCCGCGCT chr5D_1090 CCTGCCCGACGACGTGATCGCGGACGTCCTCCGCCGCGTCCCGCCACTCT chr5B_1167 CCTGCCCGAGGATGTGCTCGCCGAAGTCCTCCGCCGCGTCCCGCCGCGCT chr5B_1167 CCTGCCCGAGGATGTGCTCGCCGAAGTCCTCCGTCGCGTCCCGCCGCGCT chr5B_1167 CCTGCCCGACGACATGATCGCGGCCGTCCTCTGCCGCGTCCCGCCGCGCT chr5D_1200 ---------------------------------CCGCGTCCCGCCGCGCT chr5A_1207 ----------------------------------------CCGCCGCGCT chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --------------------------------S----------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 GGCTCGCCGCCTCCCGCTGCGTCTGCAGGGCCTGGCGCGACGCGATCGAC chr5D_1_TraesCS5D01G012700 GGCTCGCCGCCTCCCGCTGCGTCTGCAGGGCCTGGCGCGACGCGATCGAC chr5A_59 ------------CCCGCCGCGTCTGCAGGGCCTGGCGCGAAGTGGTCGAC chr5A_722 AGGTCGCTGCCTCCCACTGCGTCTGCAGGGCCTGGCGCGAAGTGGTCGAC chr5A_869 ------------CCCGCCGCGTCTACAGGGCCTGGCGCGAAGTGGTCGAC chr5B_1065 GGGTGGCTGCCTCCCGCTGCGTCTGCAGGGCCTGGCGCGACGCCATCGAT chr5B_1066 GGGTCGCCGCCTCGTGCTACGTGTGCAGGGTCTGGCATGAAGTGGTCGAC chr5D_1079 GGGTCGCCGCCTCCCGCTGCGTCTGCAGGGCCTGGCACGACGCCATCGAT chr5D_1090 GGCTCGCCGCCTCCCGCTGCGTCTGCAGGGCCTGGCGCGACACCATCGAT chr5B_1167 GGATCGCCGCCTCCCGCTGCGTCTGCACGGCCTGGCGCGACGCCATCGAT chr5B_1167 GGATCGCCGCCTCCCGCTGCGTCTGCACGGCCTGGCGCGACGCCATCGAT chr5B_1167 GGCTCGCCGCCTCCCGCTGCGTCTGCAGGGCCTGGCGCGACACCATCGAT chr5D_1200 GGATCGCCGCCTCCCGCTGCGTCTGCACGGCCTGGCGCGACGCCATCGAT chr5A_1207 GGATCGCCGCCTCCCGCTGCGTCTGCACGGCCTGGCGCGACGCCATCGAT chr5B_1241 ------------------------GCACGGCCTGGCGTGACGCCATCGAC chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 GCCCACGGCCTCCTGCGTGCCGACCTGCTCCCGCTGTCGTTCGCCGGCCT chr5D_1_TraesCS5D01G012700 GCCCACGGCCTCCTGCGTGCCGACCTGCTCCCGCTGTCGTTCGCCGGCCT chr5A_59 GCCCACCGCCTCATGCGCGCCGACCTGCTCCCGCTCTCGTTCGCCGGCCT chr5A_722 GCCCACCGCCTCATGCGCGCCGACCTTCTCCCGCTCTCGTTCGCCGGCCT chr5A_869 GCCCACCGCCTCATGCGCGCCGACCTGCTCCCGCTCTCGTTCGCCGGCCT chr5B_1065 GCACACGGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCGTTCGCTGGCCT chr5B_1066 AGCCACCGCCTCCTGCGGGCCGACCTGCTCACGCTCTCGTTCGCCGGCCT chr5D_1079 GCACACGGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCGTTCGCTGGCCT chr5D_1090 GCGCACCGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCGCTGGCCGGCCT chr5B_1167 GCGCGCGGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCGCTCGCTGGCCT chr5B_1167 GCGCGCGGCCTCTTGCGCGCCGACATGCTCCCGCTCTCGCTCGCCGGCCT chr5B_1167 GCGCACCGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCGTTGGCCGGCCT chr5D_1200 GCGCGCGGCCTCCTGCGCGCCGACCTGCTCCCGCTCTCCCTCGCCGGCCT chr5A_1207 GCGCGCGACCTCCTGCACGCCGACCTGTTCCCGCTCTCCCTCGCCGGCCT chr5B_1241 GCGCACGACCTCCTGCGCGCCGACCTGCTCCCGCTGTCGCTCGCCGGCCT chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----------------S-------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CTTTGTTCACTTCAACGAGCACAAGTATCCCGAGTTCTTCGCCCGCCCCT chr5D_1_TraesCS5D01G012700 CTTTGTTCACTTCAACGAGCACAAGTATCCCGAGTTCTTCGCCCGCCCCT chr5A_59 CTTCGTCCACTTCATGGAGCACAAGTATCCCGAATTCTTCGCCCGCCCCT chr5A_722 TTTCATGCACTTCAACGCGCACAAGTATCCCGAGTTCTTCGCCTGCCCCT chr5A_869 CTTCGTCCACTTCATGGAGCACAAGTATCCCGAATTCTTCGCCCGCCCCT chr5B_1065 CCTCATCCACTTCGACAAGCACAAGTATACCGAATTCTTCGCTCGTCCCT chr5B_1066 CTTCGCCCACTTCATGGAGCACAAGTATCCCGAATTCTTCGCCCGCCCCT chr5D_1079 CCTCATCCACTTCGACAAGCACAAGTATACCGAATTCTTCGCTCGTCCCT chr5D_1090 CTTCATCCACTTCAACGAGCACAAATATCCCGAGTTTTTCGCCCGTCCCT chr5B_1167 CTTCGTCCACTTCGACGAGCACAAGTATCCCGAATTCCTCGCCCGCCCCT chr5B_1167 CTTCGTCCACTTCGACGAGCACAAGTATCCCGAATTCCTCGCCCGCCCCT chr5B_1167 CTTCATCCACTTCAGCGAGCACAAATATCCCGAGTTTTTCGCCCGTCCCT chr5D_1200 CTTCATCCACTTCGACGAGCACAAGTATCCCGAATTCCTCGCCCGCCCCC chr5A_1207 CTTCGTCCACTTCGACGAGCACAAGTATCCCGAATTCCTCGCCCGCCCCT chr5B_1241 CTTCATCCACTTCAGCGAGCACAAGTTCCCCGAGTTCCTCGCCCGCCCCT chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---S--S------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 C---------------CTC---GGGAGAGGCT------TCCCATGCCGTC chr5D_1_TraesCS5D01G012700 C---------------CTC---GGGAGAGGCT------TCCCATGCCGTC chr5A_59 C---------------CTCCTCCTCCTCGGGAG---------ATGCCATC chr5A_722 C---------------CTCC---------GGAG---------ATGCGGTC chr5A_869 C---------------CTCCTCCTCCTCGGGAG---------ATGCCATC chr5B_1065 C---------------CGCC---------------------CATGCGGTC chr5B_1066 C---------------CTCCTCGGGAGTTGCT------GCCCGTGCCATC chr5D_1079 C---------------CGCC---------------------CATGCGGTC chr5D_1090 CCTCCGTGGAC---GGCGCC---------------------CATGCGGTC chr5B_1167 C---------------CTCT---------GTGGCTGGCGCCCCCGCCATC chr5B_1167 C---------------CTCC---------GTGGCTGGCGCCCCCGCCATC chr5B_1167 CCTCCGTTGAG---GGCGCC---------------------CATGCGGTC chr5D_1200 CCTCTGCGGCT---GGCGCC---------------------CCCGCCATC chr5A_1207 C---------------CTCA---------GTGGCTGGCGCCCCCGCCATC chr5B_1241 CCTCCGCCGTAGATGGCGCA---------------------CGTGCGGTC chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---------------------------S----------S----------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 AGCGGCAACCTCAGCTTCCTGCCCTCCACCGCCCCTCATGCCGGCACTAT chr5D_1_TraesCS5D01G012700 AGCGGCAACCTCAGCTTCCTGCCCTCCACCGCCCCTCATGCCGGCACTAT chr5A_59 AGCGGCGACCTCAGCTTCCTGCCCTCCACCGGCCCTCGCGCCGGCACTAT chr5A_722 AGCGGCAACCTCAGCTTCCTGCCCTCCACCGCCCCTCATGCCGGCACTAT chr5A_869 AGCGGCGACCTCAGCTTCCTGCCCTCCACCGGCCCTCGCGCCGGCACTAT chr5B_1065 AGCGGCAACCTCAGCTTCCTGCCTTCCACTGCCCCTCATGCTGGTACTAT chr5B_1066 TGCGGCGATCTCAGCTTCCTGCCCTCCACCGGCCCTCGTGCCGGCACCAT chr5D_1079 AGCGGCAACCTCAGCTTCCTGCCTTCCGCTGCCCCTCATGCTGGCACTAT chr5D_1090 AGCGGCAACCTCAGCTTCCTGCCCTCCCCTGCCCCTCACGCCGGCGGTAT chr5B_1167 AGCGGCAACCTCAGTTTCCTGCCCTCCACCACCCCTCATGTCGGCACTAT chr5B_1167 AGCGGCAACCTCAGTTTCCTGCCCTCCACCACCCCTCATGCCGGCACTAT chr5B_1167 AGCGGCAACCTTAGCTTCCTGCCCTCCCCTGCCCCTCATGCCGGCGGTAT chr5D_1200 ACCGGCAACCTCAGCTTCCTGCCCTCCACCAGCCCCCATTGCGGCTATTT chr5A_1207 AGCGGCAACCTCAGCTTCCTGCCCTCCGCCACCCCTCATGCCGGCACTAT chr5B_1241 AGCGGCAACCTCAGCTTCCTGCCCTCCACCAACCCCCATTGCGGCTATTT chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ATGGGAC---AACTGCGATGATTGGCGCGACTACCGCGTCGAGGATCACT chr5D_1_TraesCS5D01G012700 ATGGGAC---AACTGCGATGATTGGCGCGACTACCGCGTCGAGGATCACT chr5A_59 ATGGGAA---CACTCTGATGATTGGCATGGCTACAACATCGAGGATCACT chr5A_722 TTGGGAC---AAGTGCGATGATTGGCACGATTACCAGATACACGATCACT chr5A_869 ATGGGAA---CACTCTGATGATTGGCATGGCTACAACATCGAGGATCACT chr5B_1065 ATGGGAT---GACGCCAGTGATTGGGACGACTACAAGATTCAGAATCATT chr5B_1066 ATGGGAG---AGCGGCGATGATGGGCATGGCTACAACATCGAGGATCACT chr5D_1079 ATGGGACGACG---CCAGTGATTGGGACGACTACAAGATTCAGAACCATT chr5D_1090 ATGGGAC---AACTGTGATGATTGGTACGACTACTACATCCACGATCATT chr5B_1167 ATGGGACGACGACTGCGATGATTGGCGTGACTATAACATCGATGATCACT chr5B_1167 ATGGGACGACGACTGCGATGATTGGCGTGACTATAACATCGATGATCACT chr5B_1167 ATGGGAC---AACTGTGATGATTGGAACGACTACTACATCAAGGATCATT chr5D_1200 CTGGCAGGAAGACTGCGCTGATTGGTGGCACTATAACATCGATGATCACT chr5A_1207 ATGGGACGACGACTGCGATGATTGGCGTGACTATAACATCGATGATCACT chr5B_1241 CTGGCAGGAAGACTGCGCTGATTGGTGCCACTATAACATCGAGGATCACT chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -----------------------------------S-S------------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 ---------------------------------------------TCACT reverse_2622 -------------------------------------------------- input_sequence_65242 GCAACGGGTTACTCCTGCTCAGTAAAAACTGTGTCGTTAACCCCGCCACC chr5D_1_TraesCS5D01G012700 GCAACGGGTTACTCCTGCTCAGTAAAAACTGTGTCGTTAACCCCGCCACC chr5A_59 GTAATGGGCTACTCTTGCTCAGCAAAAATTGTGTCGTTAACCCTGCCACC chr5A_722 GCAACGGGCTACTCTTGCTCAGCAAAAACCGTGTGGTTAACCCTGCCACC chr5A_869 GTAACGGGCTACTCTTGCTCAGCAAAAATTGTGTCGTTAACCCTGCCACC chr5B_1065 GCAACGGGCTCCTCTTGCTTAGCGACAACCATGTGGTTAACCCAGCCATC chr5B_1066 GTAACGGACTACTATTGCTCAGCAAAAACTGTGTCATTAACCCTGCCACC chr5D_1079 GCAACGGGCTCCTCTTGCTTAGCAACAACCATGTGGTTAACCCTGCCATC chr5D_1090 GCAACGGGCTCCTCTTGCTTGGCAATAACTGCGTGGTTAACCCTGCCACA chr5B_1167 GCAATGGGCTCCTCTTGCTTCGCAGTAACCGGGTGGTTAACCCTGCCACC chr5B_1167 GCAATGGGCTCCTCTTGCTTCGCAGTAACCGGGTGGTTAATCCTGCCACC chr5B_1167 GCAACGGGCTCCTCTTGCTTGACAATAACTGCGTGGTTAACCCTGCCACG chr5D_1200 GCAACGGGCTCCTCTTGCTTCGCAGTAACCGGGTGGTTAACCCTGCCACC chr5A_1207 GCAATGGGCTCCTCTTGCTTCGCGGTAACCGGGTGGTTAACCCTGCCACC chr5B_1241 GCAATGCGCTCCTTTTGCTTCGCAATAACTGGGTGGTTAACCCTGCCATG chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --------S-----S-------S--------------------S------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 GCAACGGGTTACTCC----------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CGTCAGTGGGACGCTTTCCCACCGTGCCCGGC---CCAAGATTGTACTAG chr5D_1_TraesCS5D01G012700 CGTCAGTGGGACGCTTTCCCACCGTGCCCGGC---CCAAGATTGTACTAG chr5A_59 CGTCAGTGGAATGCTTTCCCGCCGTGCCCGGC---CCAAGATTGTACTAG chr5A_722 CGTCAGTGGAACGCTTTCCCACCGTGCCCGGG---CCAAGATTGTATTAG chr5A_869 CGTCAGTGGAATGCTTTCCCGCCGTGCCCGGC---CCAAGATTGTACTAG chr5B_1065 CGAAGGTGGAATGCTTTGCCACCGTGCCCGGC---CAAAGATGGTAC--- chr5B_1066 TGTCGGTGGAATGCCTTCCCGCCGTGCCTGGC---CCAAGATTTTACTAG chr5D_1079 CAAAGGTGGAATGCTTTGCCACCGTGCCCGGC---CAAAGATGGTAC--- chr5D_1090 CGCCAATGGAGTACTCTACCAACGTGCCCGGT---CAAGGGTCGTAC--- chr5B_1167 CGATGCTGGAGTGCTTTGCCACCGTGCCCTGCTCCCAAGGATGGCAC--- chr5B_1167 CGATGCTGGAGTGCTTTGCCACCGTGCCCTGCTCCCAAGGATGGCAC--- chr5B_1167 CGCCAATGGAATACTCTACCAACGTGCCCGGT---CAAGGGTCATAC--- chr5D_1200 CGATGCTGGAGTGCTTTGCCACCGCGCCCTGC---CAAAGATGCCAC--- chr5A_1207 CGATGCTGGAGTGCTTTGCCACCGTGCCCTGCTCCCAAGGATGGCAC--- chr5B_1241 CGATGGTGGAATACTCTGCCAAAACGTCCGGC---CAAGCACGATAG--- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---------S---------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ATGGAACATGCGGTACAGTCGGCATTTGGTGTATGATCCGATGATATCCA chr5D_1_TraesCS5D01G012700 ATGGAACATGCGGTACAGTCGGCATTTGGTGTATGATCCGATGATATCCA chr5A_59 ATGGAACATGTGGTACTCTAGTCATTTGGTCTATGATCCGATGATATCCC chr5A_722 CTGGAATGTGCGGTACATCCGGCATTTGGTGTATGATCCGATGATATTCA chr5A_869 ATGGAACATGTGGTACTCTAGTCATTTGGTCTATGATCCGATGATATCCC chr5B_1065 ATGGTACATGTGGTACCGTGGGCATTTGGTCTATGATCCGATGGTATCAC chr5B_1066 ATGGAACATGTCGTACCTTCGTCATTTGGTCTATGATCCGATGATATCCC chr5D_1079 ATGGTACATGTGGTACGGTGGGCATTTGGTCTATGATCCGATGGTATCAC chr5D_1090 AGGGAGGGTGTCCTACAGTGAGCACCTAGTTTATGATCCCACAGTATCAC chr5B_1167 AGGAAATGTGTGGTACAGTGGTCATCTGGTCTATGATCCGATGGTATCAC chr5B_1167 AGGAAATGTGTGGTACAGTGGTCATCTGGTCTATGATCCGATGGTATCAC chr5B_1167 AGGGAGGGTGTCCTACAGTGAGCACCTAGTCTATGATCCCACGGTATCAC chr5D_1200 AGGTAACGTGTCATACCGTGGGCATCTGATCTATGATCCGATGATATCAC chr5A_1207 AGGAAACGTGTGGTACAGTGGGCATCTGGTCTATGATCCGATGGTATCAC chr5B_1241 AGGGAATGTGCGGTACAACGGACATCTGGTCTATGATCTGATGGTATCAC chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CGCACTACGAGGTGTTTATGATCCCATGTTTGCATGATAAGGGTCGTGGT chr5D_1_TraesCS5D01G012700 CGCACTACGAGGTGTTTATGATCCCATGTTTGCATGATAAGGGTCGTGGT chr5A_59 CACACTATGAGGTACTTATGATCCCATGTTTGCGTGACAACAACGATCGT chr5A_722 CACACTACGAGGTGCTTATGATCCCACGTTTGCATGACAAGGGTCGTGGT chr5A_869 CACACTATGAGGTACTTATGATCCCATGTTTGCGTGACAACAACGATCGT chr5B_1065 CACATTACGAGGTGTTCATGGTCCCAAGTTTGCGTGATAAAGATGATCCT chr5B_1066 CACACTATGAGGTGTTTATGATCCCATGTTTGCGTGACAA---------- chr5D_1079 CACATTACGAGGTGTTCATGGTCCCACGTTTGCGTGATAAAGATGATCCT chr5D_1090 CACACTACGAGGTGTTTATGATCCCTTTCTTGGAAGGCAATCC------- chr5B_1167 CGTACTACGAGGTGTTTATGACCCCCCATTTGGATGACTACCA------- chr5B_1167 CGTACTACGAGGTGTTTATGACCCCCCATTTGGATGACTACCA------- chr5B_1167 CACACTACGAGGTGTTTATGATCCCTTTCTTGGAAGGCAATCC------- chr5D_1200 CGTACTATGAGGTGTTTATGACCCCCCGTTTGGATGACTATCA------- chr5A_1207 CGTACTACGAGGTGTTTATGACCCCCCATTTGGATGACTATCA------- chr5B_1241 CATATTACGAGGTGTTTATGATCCCCTGGTTGGATAACTATCA------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 GGG------GGAGACAAGGCAGA-CCGCTCGATGGAGGAATCTGAATGGC chr5D_1_TraesCS5D01G012700 GGG------GGAGACAAGGCAGA-CCGCTCGATGGAGGAATCTGAATGGC chr5A_59 ATATGTGACGAAGACGAGGCAGA-CCTCTCCATGGAGGAATCCGAGTGGC chr5A_722 GGG------GCAGACAAGGCAGA-CCTCCCGATGGAGGATTCTGAATGGC chr5A_869 ATATGTGACGAAGACGAGGCAGA-CCTCTCCATGGAGGAATCCGAGTGGC chr5B_1065 TCTAATCGTCC---------TGA-CCTCTTGATGGAGAAATCTGAATGGC chr5B_1066 -------------------------------------------------- chr5D_1079 TATAATCGTCC---------GGA-CCTCTTGATGGAGAAATCTGAATGGC chr5D_1090 -----TTACGGACACGATGTAGA-CCCCTTGACGGAGGATTCTGAATGGC chr5B_1167 -----TTCTGAAAATGAGGTAGA-CCCCTCGATGGAGGAATCTGAATGGC chr5B_1167 -----TTCTGAAAATGAGGTAGA-CCCCTCGATGGAGGAATCTGAATGGC chr5B_1167 -----TCATGGGCACAATGTAGA-CCCCTTAACGGAGGAATCTGAATGGC chr5D_1200 -----TTCTGGAGATGAGGTAGA-CCCCTCGATGGAGGAATCTGAATGGC chr5A_1207 -----TTCTGAAGATGAGGTTGA-CCCCTCGATGGAGGAATCTGAATGGC chr5B_1241 -----TCCTCAAGATGAGGTAGACCCCCTCGATGGAGGAATCTGAATGGC chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --------------------------S----------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 CACCATCTCCATGCAAGATGTATATGTTCTCATCAAGGATTCTGAAAAAA chr5D_1_TraesCS5D01G012700 CACCATCTCCATGCAAGATGTATATGTTCTCATCAAGGATTCTGAAAAAA chr5A_59 CACAGTCTCCATGCAAGATGTATGTGTTCTCATCAAGGA----------- chr5A_722 CACCGTCTCCATGTAAGATGTACATGTTCTCATCAAGGA----------- chr5A_869 CACTGTCTCCATGCAAGATGTATGTGTTCTCATCAAGGA----------- chr5B_1065 CGCCGTCTCCATGCAAGATGTATGTATTCTCATCAAGG------------ chr5B_1066 -------------------------------------------------- chr5D_1079 CACCGTCTCCATGCAAGATGTATGTATTCTCATCAAGG------------ chr5D_1090 CACCGTCCCAATGTAAGATGTATGTATTCTCATCAA-------------- chr5B_1167 CACCATCCCTATGTAAGATGTATGTATTCTCATCAA-------------- chr5B_1167 CACCATCCCTATGCAAGATGTATGTATTCTCATCAA-------------- chr5B_1167 CACCGTCCCCATGTAAGATGTATGTATTCTCATCAA-------------- chr5D_1200 CACCATCCCCATGCAAGATGTATGTATTCTCATCAA-------------- chr5A_1207 CACCATCACAATTAAAGATATATGTATTCTCATCAA-------------- chr5B_1241 CACCATCCCTATGCAAGGTGTATGCATTCTCATCAA-------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ---------------------------------------SSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ATAACATTTTTAAAACATGAATGATGCCTCCACAAAATTGATTTTTCGTT chr5D_1_TraesCS5D01G012700 ATAACATTTTTAAAACATGAATGATGCCTCCACAAAATTGATTTTTCGTT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 TCAAAAAACCCTGATGACCGTGTGGTTAAAATTGATCATCTCTATGGCAG chr5D_1_TraesCS5D01G012700 TCAAAAAACCCTGATGACCGTGTGGTTAAAATTGATCATCTCTATGGCAG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ATGGGGCCCGGTCGTCAGATCCACATGGCAACAAATATAGACTCCACTA- chr5D_1_TraesCS5D01G012700 ATGGGGCCCGGTCGTCAGATCCACATGGCAACAAATATAGACTCCACTAG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 ----------GTCGTCAGATCCACATGGCA-------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TCAAACCATGAAGTCAAACAGATGGCCATTGAGATAGACAGGTGGGGCCC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GGTCGTCAGCTTCTTATTCTCATATCTCTTCCTCTTTTCTCTATTTCCTT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 ATGACGATAAAGGGTTTCCCCCGCTTTATATTATAAAGCAACAACCCAAT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -------------------------------------------------- chr2D_2084 -------------------------------------------------- chr7B_2084 -------------------------------------------------- chr1B_2089 -------------------------------------------------- chr3D_2089 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 ACAACAAACTA--GGCGATTTTATTGATATTTGTAC--AAAAGAACTT-T chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 ----CAAACTA--GACGATTTCATTGATATTTTTAC--AAAAGAACTTTA chr2D_2084 ----CAAACTAGGGGCGATTTCATTGATATTTGTAC--AAAA-AACTT-A chr7B_2084 ----CAAACTA--GGCGATTTAATTGACATTTTACAAAAAA------CTT chr1B_2089 ---------TA--GGCGATTTCGTTGATATTTGTAC--AAAA-AAAC--- chr3D_2089 ---------TA--GGCGTTTTCATTTATATTTTTAC--AAA------TTG chr6B_2125 -------------------------------------------------- chr6B_2125 -------------------------------------------------- chr7D_2161 -------------------------------------------------- chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs SSSS-----------------S---------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 AAAACACAAATTAAGAACGCAAACTAAAATCAACAAC-----GC-CGTCG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 AAACAAA-ATTGTTAAACGCAAACTAAAAACGACTAGGCCCATC-TGCCG chr2D_2084 AAAACACAAATTAAAAACACAAACTAAAAACGACTATGCCCAGC-CACCG chr7B_2084 AAAACAC-AAATGAAAACACAAACTAAAAACGACTACGCCTAGC-CAT-- chr1B_2089 ----------TTAAAAGCACAAACTAAAAACGACTACGCCTAGC-CACCG chr3D_2089 AAAACAT-AATTTAAAAAACAAACTAAAAACAACAACTACTACTACGCCG chr6B_2125 AAAACAT-AAATTTAAAAGCAAACTAAAAACTACTACTACTAGC-CACCG chr6B_2125 AAAACAT-AAATTTAAAAGCAAACTAAAAACTACTACTACTAGC-CACCG chr7D_2161 ------------------------------------C-----GC-CGCCG chr7B_2173 -------------------------------------------------- chr6A_2174 -------------------------------------------------- chr4B_2174 -------------------------------------------------- chr7D_2175 -------------------------------------------------- chr1D_2180 -------------------------------------------------- chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --------------S--------------S-------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CCACC----CGCCCCCCTTCTACATGCCGAGGAGCCTGTAGAACCGGGTG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GCGCC----CGCCCGCCTTCTACATGCCGAGGAGCCTGTAGAACTAGGTG chr2D_2084 CCGTCTCT-----CGCCATCTACATGCCGAGGAGCCTGTAGAACCGGGTG chr7B_2084 -------------CGCCTTCTACATGCCGAGGAGCCTGTAGAATCGGGTG chr1B_2089 CCGCC----CGCCCGCCTTCTACATGTTGAGGAGCCTGTAGAACCGGGTG chr3D_2089 CCGCCTCCGCGCCGCCCTTCTACATGCCGAGGAGCCTGTAGAAGTTGGTA chr6B_2125 ----C----CGCCCGCCTTCTACATGCCGAGGAGCCTGTAGAAGTTGGTG chr6B_2125 ----C----CGCCCGCCTTCTACATGCCGAGGAGCCTGTAGAAGTTGGTG chr7D_2161 CCGCC----AGCCCACCTTCTACATGCCGAGGAGCCTGTAGAACCGGGTG chr7B_2173 ----C----CGCCCACCTTCTACATGCCGAGGAGCCTGTAGAACATGGTG chr6A_2174 --------------GCTTTCTACATACCGAGGAGCCTGTAGAACCGGATG chr4B_2174 ---------CGCCCGCCTTCTACATGCCGAGGAGCCTGTAGAATCGGGTG chr7D_2175 ----------GCCCGCCTTCTACATGCCGAGGAGCCTGTAGAACTGGGTG chr1D_2180 ---------------CCTTCTACATGCCGAGGAGCCTGTAGAAGTTGGTG chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs --S----------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TA---------GTCG------TTGTCA---------TC------------ chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 TA---------GTCGCTGCCGC------------CGTAGTTGTTGCCG-- chr2D_2084 TA---------GTCGCCGCCGT------------CGCCGTCATCATCGTC chr7B_2084 TA---------GTCG------TCGCCGCTGCCACCGTCGTCGCCGTCGT- chr1B_2089 TA---------GTTGCCGCCGT------------CGCCG----------- chr3D_2089 CAGTCGCCGCCGTCA------T------------CGTC------------ chr6B_2125 TCAT---CGCCGCCG------T------------CGTC------------ chr6B_2125 TCAT---CGCCGCCG------T------------CGTC------------ chr7D_2161 TA---------GTCGCCGTCAT------------CGTC------------ chr7B_2173 TA---------GTCG------T------------CGTC------------ chr6A_2174 TA---------GTCG------T------------CGTC------------ chr4B_2174 TA---------GTCGCCATCAT------------CGTCGTCGCGCGCCCT chr7D_2175 TA---------GTCGCCAC------------------C------------ chr1D_2180 TC---------GTCG---C------------------C------------ chr4A_2229 -------------------------------------------------- chr1B_2233 -------------------------------------------------- chr2D_2233 -------------------------------------------------- chr3D_2233 -------------------------------------------------- chr2D_2234 -------------------------------------------------- chr5A_2266 -------------------------------------------------- chr3B_2308 -------------------------------------------------- SNPs ----------------------S-S-S----------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 ------------GTCACCGCCGTCGCTGCTGCACCCCTGGCCAGCGTCAC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -CCGTGCTGGGTGCCGCCGCCGTCCCTGCTGCACCCCTGGCCAGCGTCGC chr2D_2084 ACCGTGATGGGTGCCGCCGCCGTCCTTGCTCCAACCCTGACCAGCGTCGC chr7B_2084 --CGTGCTGGGTGCCGCCGCCGTCCCTACTGCATCCTTGACCGGCATTGC chr1B_2089 ----TGCTGGGTGCCACCGCCGTCCCTGCTGCACCCCTGACCAGCGTCGC chr3D_2089 ------------ATCGTCGGCGGCCTTGCTCCACCCCTGCCCTGGGTTGC chr6B_2125 ------------GTCGACGCCGTCCTTGCTGCACCCCTGGCGTGCGTCGC chr6B_2125 ------------GTCGACGCCGTCCTTGCTGCACCCCTGGCGTCCGTCGC chr7D_2161 ------------GCCGCCGCCGTCCCTGCTACACCCCTGACCAGCGTTGC chr7B_2173 ------------GCCGCCGCCGTCCTTACTGCATCCCTGACCAGCGTCGC chr6A_2174 ------------GTCGCCGCCGTCCCTACTGCACCCCTGACCAGGGTCGC chr4B_2174 GCC------GGACCCGTCGTCGTCCCTGCTGCTACCCTGGCCAGGGTCAC chr7D_2175 ------------GCCACCGTCGTCCCTACTGCACCCCTAACCAGGGTCGC chr1D_2180 ------------GCCGCCGCCATCCTTGCTGCACCCCTGACCTGCGTCGC chr4A_2229 ------------GTCGCCGCCGTCCCTGCTGCACCCCTGACCAGCATCGC chr1B_2233 ----------------CCGTCGTCCCTACTGCACCCTTGACCAGCGTTGC chr2D_2233 ----------------CCGCCGTCCCTGCTGCAGCCCTGACCAGCGTCGC chr3D_2233 ----------------CCGCCGTCCCTGCTGCACCCCTGACCAGGGTCGC chr2D_2234 -----------------CGCCGTCCCTGCTGCACCCCTGACCAGGGTCGC chr5A_2266 -------------------------------------------------C chr3B_2308 -------------------------------------------------- SNPs ------------------------S------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CGATGCGC-GGGGGGTTGGATGGCCCTGGCGCATCCTCATCGTCGC---T chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 CGACGCGC-AGGGGGTTGGACGGCCCAGGCGCATCCTCGTCGTCGT---T chr2D_2084 CGATGCGC-GGGGGGTTGGACGGCTCGGGCGCATCCTCGTCGTCGC---T chr7B_2084 CGATGCGC-GGGGGATTGGACGGCCCGGGCACATCCTCATCATCGC---T chr1B_2089 TGGTGTGCGGGGGGGTTGGACGGCCCGGGCGCATCCTCGTCTTCGT---T chr3D_2089 TGTGGTGG-ATGGGGTTGGACGGCCCGGGTGCCTCCTCGTCGCTGTC--- chr6B_2125 CGATTCAT--GGGGGTTGGACGGCCCGGGCGCCTCCTCGTCGCTGTC--- chr6B_2125 CGATTCAT--GGGGGTTGGACGGCCCGGGCGCCTCCTCGTCGCTGTC--- chr7D_2161 CGATGCGT-GGAGGGTTGGACGGCCTGGGCGCCTCCTCGTCGTTGC---T chr7B_2173 CGATGCAT-GGGGGGTTGGACGGCCCGGGCACCTCCTCGTCGCTGTC--- chr6A_2174 CGACGTGC-GGGGGGTTGGACGGCCTGGGCTCGTCCTCGCCGTTGCA--- chr4B_2174 CGACCAGC-GCGGGGTTGGACGGACCGGCCTCGTCCTCCTCGTCAT---T chr7D_2175 CAACGCGC-GGGGGGTTTGACGGCCCTGGCGCGTCCTCCTCATTGC---T chr1D_2180 CGCTGTGT-GGGGGGTTGGATGGCCCGGGCGCCTCCTCGTCGCTGTC--- chr4A_2229 CGATGCGT-GGGGGGTTGGACGGCCCGGGCGCCTCCTCGTCGCTGTC--- chr1B_2233 CAGTGCGC-GGGGGGTTGTACGGCCCGGGCGCTTCCTCGTCGTCAT---T chr2D_2233 CGATGCGT-GGGGGGTTGGACGGCCCGGGCGCCTCCTCGTCGTTGTC--- chr3D_2233 CGACGCGC-GAGGGGTTGGACCGCCCGGGCACGTCCTTGTCGTCGC---T chr2D_2234 CAACGCGC-GGGAGGTTGGACGGCCCGGGCGCATCCTCGTCGTCGTCGCT chr5A_2266 CAATGCGC-GGGGGGTTGGACGGCCCGGGCGCATCCTCGTCGTCGC---T chr3B_2308 ------------------------------------------TCGT---T SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GTCGAGGACGACCATGCCGCCCTCCTTGCCTC------------------ chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GTTGAGGGAGACCACGCCGCCCTCCTCGCGTC------------------ chr2D_2084 GTCGAGGACGACCACGCCGCCCTCCTCGCGTC------------------ chr7B_2084 ATCAAGGACGACCACGCCACCCTCCTCATGTC------------------ chr1B_2089 GTCGAGGACGATCACGCCGCCCTCCTCGCGTC------------------ chr3D_2089 GTCGAGGATGACAACGCCGCCCTCCCTGCGGC------------------ chr6B_2125 GTCGAGGATGACGATGCTGCCCTCCTCGTGGA------------------ chr6B_2125 GTCGAGGATGACGATGCTGCCCTCCTCGTGGA------------------ chr7D_2161 GTCGAGGATGACGATGCCGCCTACCTCGCGAC------------------ chr7B_2173 GTCGAGGATGACGCCGCCGCCCTCCTAGCGCT------------------ chr6A_2174 TTCGAAGACGACGACGCCGCCCTCCTCGCATC------------------ chr4B_2174 GTTGAGGACGACGCTGCCGCCCTCCTCACGTAGTCCGCGTGCGGCGCGCG chr7D_2175 GTCGAGGACGACGATGCCACCCTCCTCGCGTC------------------ chr1D_2180 GTCGAGGATGACGACATCGCCCTCCTCGCGGC------------------ chr4A_2229 CTCGAGGATGATGACGCCGCCCTACTCGCGTC------------------ chr1B_2233 GTCGAGGATGACGGCGCTGCCCTCCTCGCGTC------------------ chr2D_2233 GTCGAGGACGACGACGCCGCCCTCCTCATGGC------------------ chr3D_2233 GTTGAGGACGACAACGCCGCCCTCGTCGCGTC------------------ chr2D_2234 GTCGAGGACGACGATGCCGCCCTCGTCGCGTC------------------ chr5A_2266 ATCAAGGACGACCACGCCGCCCTCCTCGCGTC------------------ chr3B_2308 GTCGAGGATGACGCCGCCATTCTCCTCGCGTC------------------ SNPs -----------------------------S-------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 -CCCGGCACTGAGCGGCGATCTCTTCGAAGGCCCGGCGCTGGCGCTCCAT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -CCCGGCGCCGAGCGGTGATCTCTTCGAAGGCCCGGCGCTGGCGCTCCAT chr2D_2084 -TGCTGCGCCGATCAGCGATCTCCTCGAAGGCCCGGCGCTGGCGCTCCAT chr7B_2084 -CGCGGCGCCTAGTGGCAATTTCCTCATAGGCCCGGCGCTGGCGCTCCAC chr1B_2089 -CACGACACCGAGCGGCGATCTCCTCGAAGGCTCGGCGCTGGCGCTCCAT chr3D_2089 -CATGGTGCCGGGTGGTGATCTCCTCGAGGGCGCGGCGCTGGCGCTCCAT chr6B_2125 -CGCGGCGCCGGGCGTTGATCTCCTCGAGGGCGCGGCGCTGGCGCTCCAT chr6B_2125 -CGCGGCGCCGGGCGTTGATATCCTCGAGGGCGCGGCGCTGGCGCTCCAT chr7D_2161 -CGCGACGTCGAGTGGCGATCTCCTCGAAGGCGTGGCGTTGGCGCTCCAT chr7B_2173 -CGCGGCGCCGAGGGGCGTTCTCCTCGAGGGCGCGGCGCTGGCGCGCCAT chr6A_2174 -CGCGACGCCGGGCCTTGATCTCCGCGTGTGCCCGGCGCTGGCAGAGCAG chr4B_2174 GCCTGGCGCCGGGCCTGGAGCTCCGCGTATGCTCGGCGCTGGCGGAACAC chr7D_2175 -CGCGGCGCCGAGCCTTGATCCCCGCGTAGGCCCGGCGGTGGCGCGCCAC chr1D_2180 -CGTGGTGCCGGGCGGCGATCTCCTCGAGGGCGTAGCGCTGGCGCTCCAT chr4A_2229 -AGTGGCGCCGAGCGGCGATCTACTCGAGGGCACAACGCTGCTGCGCCAT chr1B_2233 -CGCGGTGCCAAGCGGCGATCTCCTCGAAGGACTGGCGCTGGCGCTCCAT chr2D_2233 -CGCGGCGCCGAGCGTAGATCTCCTCGAGGGCGCGGCGTTGGCGCGCCAT chr3D_2233 -CGCGGCGCCGAGCTTTGATCTCCTCGTAGGCCTGGCGCTGGCGCTCCAC chr2D_2234 -CGCGGCGCCGGGCCTTGATCTCCTCGTAGGCCCGGCGCTGGCGCGCCAC chr5A_2266 -CGCGGCGCTGAGCGACGATCTCCTCGAAGGCCCGACGTTGGCACTCCAT chr3B_2308 -CGCGGCGCCAAGTGGCGATCTCCTCGAAGGCGCGGCGCTGGCCCTCCAT SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TTGATCGCAGACGCAGTCCGCCTTCGCCCACTTGAGGGCGGTCTCATCGG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 CTGCTCGTGGACGTAGTCCGCCTTCGCCCACTTGAGGGCGGTCTAGTTGT chr2D_2084 CTGCTCGCGAACGTAGTCTCCCTTCGCCCACTTGAGGGCAGTCTCGTCGG chr7B_2084 CTGCTCACGGACGTAATCCTCCTTCGCCCACTTAAGGGCGGTCTCATCGT chr1B_2089 CTGCTCGTGGACGTAGTCCGCCTTCGCCCACTTGAGAGCGGTCTCGTCGG chr3D_2089 CTCCTACCGGACGTAGTCGTCCCGCGCCCATTTGAGGTTGGTCTCCTCGT chr6B_2125 CTACTGCCGGACGTAGTCGTCCTGCACCCATTTCAGGCCGGTCTCCTCAT chr6B_2125 CTACTGCCGGACGTAGTCGTCCTGCACCCATTTCAGGCCGGTCTCCTCAT chr7D_2161 CTGCTCGCGGACGTCGTCCGCCT-CGCCCATTTGAGGGCAGTCTCGTCAG chr7B_2173 CTCCTCACGGACGTAGTCCTGTCGCGCCCATTTGAGGGCCATCTCGTCGG chr6A_2174 CTGCTTGCAGACGTAGTCCGCCTTCGCCCACTTGAGGGCGGTCTCGTCGG chr4B_2174 CTGCTCGCGAATGTAGTCCTCCCTTGCCCACTTGAGGGCAGCCTCGTCGT chr7D_2175 CTGCTCGTGGACGTGGTCCGCCTTCGCCCACTTGAGGGTGGTCTCGTCGG chr1D_2180 CTCCTACCAGACGTAGTTGTCCCGCACCAATTTCAGGCCGGTCTCCTCGT chr4A_2229 CTCCTCGCGGACGTAGTCCTAACACGCACATTTGAGGGCGGTCTCATCGG chr1B_2233 CTGCTCGTGGACGTAGTCCGCCTTCACCCACTTGAGGGCGGTCTCGTCGG chr2D_2233 CTCCTAGCAGACATAGTCCTCCCGCGCCCATCTGAGGGCGGTCTCGTCGT chr3D_2233 CTGTTCGCGGATGTAGTCCGCCTTCGCCCACTTGAGGGCGGTCTCGTCGT chr2D_2234 CTGCTCGCGGACGTAGTCCGCTTTCGCCCACTTGAGGGCGGTCTCGTCGT chr5A_2266 CTGCTCGCGGACGTAGTCCGCCTTCGCCCACTTGAGGGCGGTCTCGTCGG chr3B_2308 TTGCTCGCAGACGTAGTCCGCCTTCGCCCACTTGAGGGCGGTCTTGTCGT SNPs ---S---------S------------------------------------ forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CGGCGGCCATAGCCTCGTGCTGCTTCTTCACGGGGAGCAAACCCGGCTCG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 CGGCGACCATGGCCTCGTGCTCCTTCTTTAC-GGGAGCAAACTCGGCTCG chr2D_2084 CGGCGGCCATGGCGTCGTGCTCCTTCTTCATGGGGAGCAAACCCGGCTCG chr7B_2084 CAT---------CCTGGTGCTCCTTCTTCACGGGGAGCAAACCCGGCTCG chr1B_2089 CGGCGGCCATGGCCTGGTGCTCCTTCTTCACGGGGAGCAAACCAGACTCG chr3D_2089 CGGCGGCCATGGCCTCGTGCTCCTTCTTCACGGTGAGGAGCTCTGGCTCG chr6B_2125 CGGCAGCCATGGCCTCGTGCTCCTTATTCACGGCGAGGAGCCCCGGCTCG chr6B_2125 CGGCAGCCATGGCCTCGTGCTCCTTATTCACGGCGAGGAGCCCCGGCTCG chr7D_2161 CGGCGGCCATGTCCGCGTGCTCCTTCTTCATGGGGATCAACCCTGGCTCG chr7B_2173 CGACGGTCATGGCCTCGTGCTCCTTCTTCACGGGGAGCAGCCCCGGCTCG chr6A_2174 CGGCGGCCATCTCCGCGTGCTCCGGATTCACGGGGAGCAGCCCCGGCTCG chr4B_2174 CAGTGGCCATCTCCGCGTGCTCCGGTTTCACGGGGAGCAGCCCCGGCTCG chr7D_2175 CGGCGGCCATCTCCGCGTGCTCCTTCCTGACGGGGAGCAACCCTGGCTCG chr1D_2180 CGGTGGCCATGGCCTCGTGCTCCTTC---ACGGCGAGGAGCCCTGGCTCG chr4A_2229 CGGCGGCCATGGCCTCGTGATCCTTCTTCAC-CGGAGCAACCCCGACTCA chr1B_2233 CGGCGGCCATGGCCTCGTGCTCCTTCTTCACGGG-AGCAAACTCGACTCG chr2D_2233 TGGCGGCCATGTCCTCATGCTC---CTTCACAGGGAGCAGCCCCGGCTCG chr3D_2233 CGGCGGCCATCTCCGCGTGCTCCTTCTTCACGGGGAGCAACCCCGGCTCG chr2D_2234 CGGCGGCCATCTCCGTGTGCTCCGACTTCACGGGTAGCAGCCCCGGCTCG chr5A_2266 CGGCGGCCATGGCCTCGTGCATCTTCTTCACGGGGAGCAAACCCAGCTTG chr3B_2308 CGGCGGCCATGGCCTCGTGCTCCTTCTTCACGGGGAGCAAACCCGGCTCA SNPs ----------S----------S---------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 ---------------------GCTTCTTCACGGGGAGCAAA--------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GTCTTCGGCCGGACGAGGCGGTAGGA--A---G----AAGGGGAAGGC-- chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GTCTTCGGCCGGACGAGGCGGTAGGA--A---G----AAGGAGAGGGG-- chr2D_2084 GTCTTCGGCCGGACGAGGCGGTAGGA--A---G----AAGGAGAGGGG-- chr7B_2084 GTCTTTGGCCAGTTGAGGCGGTAGGA--A---C----GAGGAGAGGGG-- chr1B_2089 GTCTTCGGCCGGACGAGGCGGTAGGA--A---G----AAGGACAGGGG-- chr3D_2089 GTCTTCAGCTTGACGAGGCGGGACGA--G---G----GAGGAGATGGGCC chr6B_2125 GTCTTTGTCCAGACGAGGTGGGAAGA--G---T----GAGGAGAGGGGCC chr6B_2125 GTCTTTGTCCAGACGAGGTGGGAAGA--G---T----GAGGAGAGGGGCC chr7D_2161 GTCTTCGGCCTGACGAGGCGA---GA--A---G----AAGGAGAGGGG-- chr7B_2173 GTCTTCGGCCTGACGAGACGG---GGAGA---GGGAGGAGAGGGGCCA-- chr6A_2174 GGCTTCGGCCGGACTAGGCAGAG--------GGA-ACACGGGGAGGGG-- chr4B_2174 GTCTTCGGCCGAACCAGGCGG---AGAGA---GCGCGGGGAGGGGCGG-- chr7D_2175 GTCTTCGGCCGGACTAGGCGGAG--------GGA-ACGCGGGGAGAGG-- chr1D_2180 GTCTTCGTCCTGACGAGGCGG---GA--A---GGGAGGAGAGGGGCCA-- chr4A_2229 GTCTTCGGCCTGACAAGACGG---GA--AGAGGA-AGGAGAGGGGCGA-- chr1B_2233 TTATTCGGCCTGATGAGGCGGTAGGA--A---G----AAGGAGAGGGG-- chr2D_2233 GTCTTCGGCCGGACGAGACGG---GACGA---GGGAAGGGAGGGGCGA-- chr3D_2233 GTCTTCGGTCGGATGAGGCAGAG--------GGA-ATGAGGGGAGGGG-- chr2D_2234 GTCTTCGACCGGATGAGGCAGAG--------GAA-ACGCGGGGAGGGG-- chr5A_2266 GTCTTCGGTCGGATGAGGCAGTA--------GGA-AGAAGGAGAGGGG-- chr3B_2308 GTCTTCGGCCTGACGAGGCCG---GA--A---GA-AGAAGGAGAGGGG-- SNPs --------------------------------------------S--S-- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 -TGGCC---------GCCCTCGTTGATGACAAGGGCGTTGCCGCGGGTGC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -TGGCC---------GCCCTCGTTGATGACAAGGGCGCCGCCGCGGGTGC chr2D_2084 -CGGCC---------GCCCTCGTTGATGACAAGGGCGCCGCCGCGGGTGC chr7B_2084 -CGGTC---------GCCGTCGTTGATGATGAGGGCGCCACCACGGGTGC chr1B_2089 -CGGCC---------GCCCGCGTTGATGACATGGGCGCCGCCGCGGGTGC chr3D_2089 ACGGCC---------ACCCAGGTTGATGACGAGGGCGCCGCCACAGGTGC chr6B_2125 ACGACC---------ACCCTCGTTGATGACGAGGGCGCCGCTGCGGGTGC chr6B_2125 ACGACC---------ACCCTCGTTGATGACGAGGGCGCCGCTGCGGGTGC chr7D_2161 -CGGCC---------GCCCTCATTGATGACGAGAGCGCCTCC-------- chr7B_2173 -CGGTC---------GCCCTCGTTGATGACGAGGGTGCCGCCGCGGGTGC chr6A_2174 -CGGCC---------GCCCTCGTTGATGACGAGGGCGCCGTTGCGGGTGC chr4B_2174 -GCGCCCTCGTGCTTGCCCTCGCGGATGACGAGGGCGCCGCTGCGGGTGC chr7D_2175 -CGGCC---------ACCCTCGTTGATGAGGAGGGCGCCGCTGAGGGTGC chr1D_2180 -CGGCC---------GCCCTCGTTGATGACGAGGGCGCCGCCGCGGGCGC chr4A_2229 -CGGGC---------ACCCTCATTGATGACGAGGGCAGAGTTGCGGGTGC chr1B_2233 -CTTCC---------GCCCTCGTTGATGACGAGGGTGCCGCCGCGGGTGC chr2D_2233 -CCGCC---------GCCCTCGTTGATGACCAGGGCGCCGCCGCGGGTGC chr3D_2233 -CGGCC---------GCCCTCGTTGATGACGAGGGCGCCGCTGCGGGTGC chr2D_2234 -CGGCC---------GCCCTCGTTGATGACGAGGGCGCCGCTGCGGGTGC chr5A_2266 -CGGCC---------TCCCTCGCTGATGACAAGGGCGCCGCCGCGAGTGC chr3B_2308 -TGGCC---------ACCCTCGTTGATGA--------------------- SNPs -------------------------------------SS----------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GGCACCCTAGT---GGCGTCTCCTGTGGCTCCAGCTTGACGGGGCGAAGC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GGCGCCCCAGT---GGCGTCTCCTGCGTCTCCAGCATGACAGGGCGAAGC chr2D_2084 GGCGCCCCAGT---GGCGTCTCCTACGGCTCCGGCTTGACAGGGCGAAGC chr7B_2084 GACGCCCAAGT---G---------GCGGCTCCGACTTGACGGGGCGGAGC chr1B_2089 GGTGCCCCAGT---GGCGCCTCCAGCGGCTCCGGCTTGACGGGGTGAAGC chr3D_2089 GCCGCCCGAGC---GGCGTCTCCCGCGGCTCCGACTTGACGGGGAGGAGC chr6B_2125 GCCGCCCGAGC---AACGTCTCCTGTGGCTCCCGCTTGACGGGGCGGAGT chr6B_2125 GCCGCCCGAGC---AACGTCTCCTGTGGCTCCCGCTTGACGGGGCGGAGT chr7D_2161 ---------GC---GGCGTCTCCTGTGGCTTCGGCTTGACGGGGCGGAGC chr7B_2173 GGCGCCCGATC---GGCGTCTCCTGTGGCTCCGGTTTAACGGGGCGGAGC chr6A_2174 GGCACCCAAGT---GGCGTCTCCTACGGCTCCGGCTTGACGGGGCGGAGC chr4B_2174 GGAGACGTAGCGACGTCTCCTTCTCCGGCTCTTCCTTGACAGGGCAGAGA chr7D_2175 GGCTCCCAAGC---GGCGTCTCCGACGGCTCCGACTTGACAGGGCGGAGC chr1D_2180 GCCGCCCGAGC---GGCGTCTCCTGTGGCTCCGGCTTGACGGGGCGGAGC chr4A_2229 GGGGCCCAAGT---GGCGTCTCCAGTGGTTCCGGCTTGACGGGAGGGAGC chr1B_2233 GATGCCCAAGT---GGTGTCTCCTGCGGCTCCGGCTTGACGGGT-GGAGC chr2D_2233 GGAGCCGGAGC---GGCGTCTCCTGTGGCTCCGGCTTGACGGGGCGGAGT chr3D_2233 GGCGCCCAAGC---GGCGTCTCCTGCGGCTCCGGCTTGACGGGGCGGAGC chr2D_2234 GACACCGAAGC---GGCGTCTCCTCCGGCTCCGGCTTCACGGGGCGGAGC chr5A_2266 GGCGCCCA-GT---GACGTCTCTTGTGGCTTCGGCTTGACAAGGCGAAGC chr3B_2308 --CGCCCAAGT---GGAGTCTCCTGCGGCTCCGGCTTGACGGGGCAGAGC SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 ACCGGCGAGCCAGAGGACAGAGAGCCAAA------GCCCGACAACGACGA chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 CCCGGCGAGCCGGAGGACAGAGAGCCAGA------GCCCGACGATGACGA chr2D_2084 GCCGGCGAGCCGGAGGACACAGAGCCAGA------GCCCGACGACGAGGA chr7B_2084 GCCGGGGAGCCGGAGGACAGAGAGTTGGA------GCCCGACAACGACGA chr1B_2089 GCCGGCGAGCCGGAGGACAAAGAGCCAGA------GCCCGATAACGACGA chr3D_2089 GCTGGTGACCCAGAG------GAGCAGGA------GCCCGACGAGGACGA chr6B_2125 GCCGGCGATACGGAGGAAAG------GGA------GCCCGACGAGGAGGA chr6B_2125 GCCGGCGATACGGAGGAAAG------GGA------GCCCGACGAGGAGGA chr7D_2161 GCCGGCGATCCGAAGGACAGAGAGCCAGA------GCCCGACGAGGAGGA chr7B_2173 GCCGGCGATCCAGAGGAAAG------GGA------GCCCGACGACAAGGA chr6A_2174 GCCGGCGAGCCGGAG---------------------CCTGATGATGAGGA chr4B_2174 GCCAGCAAGCCGGAGGAGAGCAAGCCGGA------GCCCGACGAGGAGGA chr7D_2175 GTCGGCGACCCGAAGGAGAGAGAATCGGA------GCCCGGCGATGAGGA chr1D_2180 GCAGGCGATCCGGAGGAAAGGGAGCC---------------CGAGGAGGA chr4A_2229 GTCGGGGATCTGGAGGAAAG------GGAGCCAGAGCCCAACGACGAGGA chr1B_2233 GCCGGCGAACATGACGAAAGAGAGCCATA------GCCCGATGATGACGA chr2D_2233 GCCGGCGATCCGGAGGACAG------GGA------CCCCGACGACGAGGA chr3D_2233 GCCGGCGACCCGGAGGAAAGCGAACCGGA------ACCCGACGACGAGGA chr2D_2234 GTCGGCGACCCGGAGGAGAGCGAACCGGA------GCCTGACGATGAGGA chr5A_2266 GCCGGCGAGCCGGCGGACAGAGAGCCAGA------GCCCAAAGACGATGT chr3B_2308 GCCGGCATACCGAACGAAAGAGAGCCATA------ACCCGATGACGAGGA SNPs S--------------------------S---------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 TGTCACCGTCTCCATTCGCCGCGGCA-------------------GCG-- chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 TGTCGCCATCTCCATTCGTCGCGACGTTCAGGAGCTGTCGTGGCGGCG-- chr2D_2084 TGTCGTCGTCTCCATTCGCCGCGGCGTCCAGGAGCTGCCATGGCGGCG-- chr7B_2084 TGTTGCCGTATCCATTCGCCGCAGCATCCAGTAACTGTCGCGGCGGTG-- chr1B_2089 TGTCGCCGTCTCCATTCACCG-------------------CGGCGACG-- chr3D_2089 GAACGCCGTCTCCATCCACCT-------------------CGGTGTCCAG chr6B_2125 GGAGGCCGTCTCCATTCGCCGCGGCGTCCAGGAGCTGCCGCGGCGGCG-- chr6B_2125 GGAGGCCGTCTCCATTCGCCGCGGCGTCCAGGAGCTGCCGCGGCGGCG-- chr7D_2161 GGTCGCCGTCTCCATTCGCCGCGGCGTCCAAGAGCTGCCGCGACGGCG-- chr7B_2173 GGTTGCCGTCTCCATTCGCCGCGGCGTCCAGGAGCTGCCGCGGCGGCG-- chr6A_2174 GGTCCCCGCCTCCATTCACCGCGGCATCCAGGAGCTGCCACAACGGCG-- chr4B_2174 CGTCCCAGGCTCCATTCATCGCGGCG-------------------TCA-- chr7D_2175 GGTCACCGCCTCCATTCGCCGCGGCGTCCAGGAGCTACCACGGCGGCG-- chr1D_2180 GGACGCCGTCTCCATTCGCCACGGCGTCCAGGAGCTGCCGCAGCGGCG-- chr4A_2229 GGTTGGTGTCTCCATTCGTCGCGGCA-------------------GCA-- chr1B_2233 GGTCGCTGTCTCCATTCGCCGCGGCA-------------------GCG-- chr2D_2233 GGTCGCCGTCTCCATTCGTCGCGGCGTCCAGGAGCTGCCGCAGCGGCG-- chr3D_2233 GGTCGCCGTTTCCATTCGCCGCGGCG-------------------GCG-- chr2D_2234 GGTCACCGCCTCCATTCGCCGCGGCG-------------------GCG-- chr5A_2266 TGTCCCTGTCTCCATTCGCCGCGGCGGCGAG------------------- chr3B_2308 GGTCGCCTTCTCCATTCGCCGCGGCGTCCATGAGCTACCACGGCGTCG-- SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 -----------------AGAGAAGGA---GGGGGCGCCGCATACTCCAGG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 -----------------AGAGAAGGA---GGGGGCGCCGGATACTCCAGG chr2D_2084 -----------------AGAGAAGGAGGGGGGGGCGCCGGGTACTCCAGG chr7B_2084 -----------------AGAGAAGGAGGGGGA---GTAGGGTACTCCAGG chr1B_2089 -----------------AGAGAGGGA---GGGGGCACCGGGTACTCCAGG chr3D_2089 GAGCTGTTGCAGCGCTAGGAGAAGGAGGGGC-----GCGGGTACTCCAAC chr6B_2125 -----------------AGAGAAGGA---GGGGGCGCCGGGTACTTCAAG chr6B_2125 -----------------AGAGAAGGA---GGGGGCGCCGGGTACTTCAAG chr7D_2161 -----------------CGAGAAGGT--GGGGGACGCCGGGTACTCCAGG chr7B_2173 -----------------AGAGAAGGA--GGGT-GCGCTGGGTACTCCAAG chr6A_2174 -----------------AGAGAATGA--TGGGCGCGGCGGGTACTCGAGG chr4B_2174 -----------------TGAGAACGA--CGGCCGCGGCGGGTACTCGAGG chr7D_2175 -----------------AGAGAAGGA--CGGGCGCGCCGGGTACTCGAGG chr1D_2180 -----------------AGAGAAGGA--GGGGGGCGCCGGGTACTCCAAG chr4A_2229 -----------------AGAGAAGGT--GGGGCGCGCAAGGTACTCCAAG chr1B_2233 -----------------AGAGAAGGA---GGGGTCGTCGGGTACTCCAGG chr2D_2233 -----------------AGAGAAGGA--GGGGGCCACCGGGTACTCCAAG chr3D_2233 -----------------AGAGAAGGA--CGGGGGCGCCGGGTACTCGAGG chr2D_2234 -----------------AGAGAAGGA--CGGGCGCGCCGGGTACTCGAGG chr5A_2266 ----------------------AGGA--GGGGGGCGCCGGGTACTCCAAG chr3B_2308 -----------------GGAGAAGGA--GGGGGGCGCTGGGTACTCCAAG SNPs ---------------------------------------S---------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 CGCGGCGTGTTGCCGGTCTCGATGTGCTCGAGGACGGCCTCGAGTGTGTG chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 CGCGGCGTGTTGCCGGTCTCGATGTGCTCGAGGATGGCCTCGAGTGTGCG chr2D_2084 CGCGGCGTGTTGCCTGCCTCGATGTGCTCAAGGACAGCCTCGAGGGTTCG chr7B_2084 AGCGGCGTGTTGCCGTCCTCGATGTGCTTGAGGACAACTTCGAGGGTGCG chr1B_2089 CGCTGCATGTTGCCAGCCTCGATGTGCTTGAGGACGGCCTCGAGTGTGTG chr3D_2089 CACGGCGAGTTGCCGCCCTCGATGTTCTCGAGGACGGCTTCGATTGTGCG chr6B_2125 CGTGGTGTGTTGCTAGCCTCGATGTGCTTGAGGACGGCTTCAAGGGTGCG chr6B_2125 CGTGGTGTGTTGCTAGCCTCGATGTGCTTGAGGACGGCTTCAAGGGTGCG chr7D_2161 CGCGGCGTGTTGCCGGCCTCGATGTACTCGAGGACGGCTTCGAGGGTGTG chr7B_2173 CGCGGCGTGTTGTCGGCCTCGATGTGTTCGAGGACGGCTTCGAGGGTGCG chr6A_2174 CACGGCGTATTGCCGGTCTCGATGTGGTCGAGGATGGCCTCGAGGGTGCG chr4B_2174 CGCGGCGTGTTGCCGGTCTCGATGTGGTCGAGGACGGCCTCGAGGGTGCG chr7D_2175 CGCGTCGTGTTGCCAGTCTCGATGTGGTCGTGGACGGCCTCGAGGGTGCA chr1D_2180 CGCGACGTGTTGCCGGCCTCGATTTGCTCGAGGACGGCTTCGAGGGTGCG chr4A_2229 CGCGGCGTGTTGCCAGCCTCGATGTGCTCAAGGATAGCTTCAAGGGTGCG chr1B_2233 CGCGGCGTGTTGCCGACCTAGACGTGCTCGAGGACGGCCTCGAGGGTGCG chr2D_2233 CGCGGCGTGTTGCCGGACTCGATGTACTCGAGGACGGCTTCGAGGGTACG chr3D_2233 CGCGGCATGTTGCCGGTCTCGATGTGGTGGAGGACGGCTTCGAGGGTGCG chr2D_2234 CGCGGCGTGTTGCCGGTCTCGATGTGGTCGAGGACGGCCTCGAGGGTGCG chr5A_2266 CGCGGCGTGTTGTCAGCCTCGATGTGCTCGAGGACGGCCTCGAGGGTGCG chr3B_2308 CGCGGCATGTTGCCAGCCTCGATGTGCTCGAGGACGGCTCCGAGGGTGCG SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GCCTGGGACGCCCCAGCATCGGTGCCTTCCCTTAGAGTTGTGGCGGCCGC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GCCTGGGACGCCCCACTATCGGCGCCTCCCCTCGGAGTTGTGGTGGTCGT chr2D_2084 GCCTGGGACGCCCCACAATCGTCACCTCCCCTCGGAGATGTGGCGGCCGC chr7B_2084 GCCTGGGACGCCCCACCATAGGCGCCGTCCCTCGGACTTGTGGCGGCCGT chr1B_2089 GCCTGGGACGCCCCACCATCGATGTCTTCTGTCGGAGTTCTGGCGGCCGC chr3D_2089 GCCGGGGACGCCCCACCATTGGCGTCGCCCCTCGGAGTTGGAGAAACCGC chr6B_2125 GCCGGGAATGCCCCACCATTGGCGCCGTCCCTCAGAGTTGAGGCAGCCGT chr6B_2125 GCCGGGAATGCCCCACCATTGGCGCCGTCCCTCAGAGTTAAGGCAGCCGT chr7D_2161 GCCGGGGACGCCCCACCATTGGCGCCGCCCCTCGGACTTGTGTCGGCCGT chr7B_2173 GCCGGGGACGCCCCACCATTGGCGTTGCCCCTCGGAGTTGAGGCAGCCGC chr6A_2174 GCCGGGCACGCCCCACCACTCGCGCCGCCCGTCGGCGTTGAGGCGGCCGC chr4B_2174 GTTGGGCACGCCCCACCACTCGCGCCGCCCGTCCACGTTGAGGCGGCCGT chr7D_2175 GCTAGGCACGCCCCACCATTCGCGTCGCCAGTCGGCATTGAGTCAGCCGC chr1D_2180 ACCGGGGACGCCCCACCATTGGCGCC---CATCGGAGTTGAGGCGGCCAC chr4A_2229 GCCGGGGACGCCCCACCATTGGCGCTGCCCCTTAGAGTTGAGGCGGCCGC chr1B_2233 GCCTAGGACACCCCACCATTGGCGCCACCCCTCGGAGTTGAGGCGGCCCC chr2D_2233 GCCGGGGACGCCCCACCATTGGCGCCTCCCGTCGGAGTTGAGGCGGCCGC chr3D_2233 GCCGGGCACGCCCCACCATTCGCACCGCCCGTCGGCGTTGAGGCGGCCGC chr2D_2234 GCCGGACACGCCCCACCACTCGCGCCGCCCGTCGGCGTTGAGGCGGCCGC chr5A_2266 GCCTGGAACGCCCCACCATCGGCGCCTCCCCTCGAAGTTGTGGCAGCCGC chr3B_2308 GCCGGGGACGCCCAACCATTGGAGCCGTCCCTCAGAGTTGAGGCGGCCGC SNPs ---------------S---------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GGGG-CTCGACGCCGTTGGTGGCAGCGATCTGCTCCTCGTGCCACCGCTC chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GGGG-CTCGACGCCGTTGGTGGGGGCGATCTGCTCCTCGTGGCACCGCTC chr2D_2084 GGGG-CTCGAGGCCGTTGGTGGCGGCGATCTGCTCCTCGTGGCGCCGCTC chr7B_2084 GGGG-CTCGACGCCGTTGGTGGCGGCGACCTGCTCCTAGTGGCACCACTC chr1B_2089 GCGG-CTCGACGCCGTTGGCGGCGGCGATCTTCTCCTCATGGTGCCGCTC chr3D_2089 GGGG-TTCGACG-------------------------------------- chr6B_2125 GGGG-CTCGATGCTGTTGGTGGAGGCGAGCTGCTCCTCGTGGTGGCGGTC chr6B_2125 GGGG-CTCGATGCTGTTGGTGGAGGCGAGCTGCTCCTCGTGGTGGCGGTC chr7D_2161 GCGG-CTCGACACCGTTCGTAGAGGCGAGCATGTCGGCGTGGCGGCGTTT chr7B_2173 GGAG-CTCGACACCGTTGGTGGAGGCGAGCTGCTCCTCGTGGCGGCGGTT chr6A_2174 GGAG-GATGATGCTGTTGGCGGAGGCGATCTGGTCTTCGTGGCGGCGCTC chr4B_2174 GGGG-GATGGTACCGTTGGCGAAGGCGATCTACTCCACGCGGCGCCGCTC chr7D_2175 GGGGGGATGATGCCGTTGGCGGAGGCGTTCTGGTCTTCGCGGCGGCGGTC chr1D_2180 GGAG-CTCGACGCCGTTCGTGGAGGCGAGTTGCTCGTCGTGGCGGCTGTT chr4A_2229 AGGG-CTTGACGCCTTCCGCGGAGGCGAGCTAGTATTCGTGGCGGCGTTT chr1B_2233 GTGG-CTCGAAGCCGTTGGTGGCGGCGATCTGTTCGTCGTGGCGCCGCTC chr2D_2233 GGGG-CTCGACGCCGTTGGTGGAGGCGAGCTGCTCCTCGTGGCGGCGTTC chr3D_2233 GGGG-GATGACGCCGTTTGCGGAGGCGACCTG--------GTCGGCGGTC chr2D_2234 GGGG-GATGATGCCGTTGGTGGAGGCGATCTGGTCTTCGCGGCGGAGCTC chr5A_2266 -GGG-CTCGGCACCGTTGGTGAGGGCGATCTGCTCCTCGTGGCGCCGCTC chr3B_2308 GGGG-CTCGACGCCGTTGGTGGAGGCGATCTGCTCCTCGTGGCGCTGCTC SNPs -----------------------S-----------------S-------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 -------------------------------------------------- chr5D_1_TraesCS5D01G012700 GAAGTACGCCGTCCACAGCGTGTTGTTGTCGGGGGCGTACCTCGGCTGGT chr5A_59 -------------------------------------------------- chr5A_722 -------------------------------------------------- chr5A_869 -------------------------------------------------- chr5B_1065 -------------------------------------------------- chr5B_1066 -------------------------------------------------- chr5D_1079 -------------------------------------------------- chr5D_1090 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5B_1167 -------------------------------------------------- chr5D_1200 -------------------------------------------------- chr5A_1207 -------------------------------------------------- chr5B_1241 -------------------------------------------------- chrUn_2084 GAAGTACGCCGTCCACATCGTGTTGGTGTCGGGGGCGTACCTCGGCTGGT chr2D_2084 GAAGTACGCCGTCCACAGCGCGTTGCTGTCGGGGGCGAACCTCGGCTGGT chr7B_2084 GAAGTACGCCGTCCACATTGTCTTGTTGTTGGGGGCGAACCTCAGTTGGT chr1B_2089 GAAGTACGCCATCCACAACGCGTTGTTGTCGGGGGCGTACCACAGTTGGT chr3D_2089 -------------------------------------------------- chr6B_2125 AAAGTACGTCGTCCAAAGCGTGTAGCTGTCGAGGGCGTACCTCGGATGGT chr6B_2125 AAAGTACGTCGTCCAAAGCGTGTAGCTGTCGGGGGCGTACCTCGGATGGT chr7D_2161 GACGTACGTCGTCCACAGCGTGTTGCTGTCGGGGGCGTACCTCGGATCGT chr7B_2173 GAAGTACGCCGTCCACAGCGTGTTGCTGTCGAGGGCGTACCTTGGCTGGT chr6A_2174 GAAGTACATCGGCCACAGTGTGTGGCTGTTAGCGGCATACCTCGGCTCGT chr4B_2174 GAAGAACATCGTCCACAACGTGTGCCTGTCGACGGCGTATCTCGGCTCGT chr7D_2175 GAAGTACATCGTCCACAGCGTGTGGCTGTCGGCAGTGTACCTCGGCTCGT chr1D_2180 GAAGTACGCCGTCCACAGCGTGT--------------------------- chr4A_2229 GAAGTACGCCGTCCACAACGTGTGGCTGACGGGGGCATACCTCGCCTGGT chr1B_2233 GAAATAAGCCATCCACATCGTGTTGCTGTCAG-GGCGTACGTCGGCTGGT chr2D_2233 GAAGTACGCCGTCCATAGCGTGTTGCTGTCGGGGGCGTACGTCGGCTGGT chr3D_2233 GAAGTACATCGTCCACAGCGTGTGGTTGTCGGCGGCGTACCTCGGCTCGT chr2D_2234 GAAGTACATCGTCCACAGCGTGTGGCTGTCAGCGGCGTACCTCGGCTCGT chr5A_2266 GAAGTACGCCGTCCACAGCGCGTTGCTATCGGGGACGTACCGCGGTTGGT chr3B_2308 GAAGTACGACGTCCACAGCGTGTTGCTGTCGGGGGCGTACCTCAGCTGGT SNPs -------------------------------------------------- forward_580 -------------------------------------------------- reverse_1961 -------------------------------------------------- forward_1565 -------------------------------------------------- reverse_2622 -------------------------------------------------- input_sequence_65242 ------- chr5D_1_TraesCS5D01G012700 TCCGCTG chr5A_59 ------- chr5A_722 ------- chr5A_869 ------- chr5B_1065 ------- chr5B_1066 ------- chr5D_1079 ------- chr5D_1090 ------- chr5B_1167 ------- chr5B_1167 ------- chr5B_1167 ------- chr5D_1200 ------- chr5A_1207 ------- chr5B_1241 ------- chrUn_2084 TCTGCTG chr2D_2084 TCCGCTG chr7B_2084 TCCGCTG chr1B_2089 TCCGTTG chr3D_2089 ------- chr6B_2125 TCC---- chr6B_2125 TCC---- chr7D_2161 TCCGC-- chr7B_2173 TCC---- chr6A_2174 TCGGCT- chr4B_2174 TTCGCTG chr7D_2175 TCC---- chr1D_2180 ------- chr4A_2229 TCCGC-- chr1B_2233 TCCGCTG chr2D_2233 TCCGC-- chr3D_2233 TCCGCTG chr2D_2234 TTCGCTG chr5A_2266 TCCGCTG chr3B_2308 TCTGCTG SNPs ------- forward_580 ------- reverse_1961 ------- forward_1565 ------- reverse_2622 -------