CLUSTAL X (1.81) multiple sequence alignment input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CAAACAGGTTTGCACCGTCGCCCGCCCCTCTCCTCATCCGCCACAAACCC chr5A_1 CAAACAGGTTTGCGCCGCCGCCTGCTCCTATCCTCCTCTATCGCAACCCC chr5B_1 CAAACAGGTTTGCGCCGCCGCCTGCTCCTATCCTCCTCTATCGCAACCCC SNPs -------------S---S----S--S---S-----S--SSS-S---S--- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TAGCGCATCATCACTTGTCCGTCGCCTCGTCCAACCTTTAATGAGCGCTG chr5A_1 TAGTGCGACATCACTTGTCCGTCGCCTCGTCCAACCTCTAATGAGTGTTT chr5B_1 TAGTGCGACATCACTTGTCCGTCGCCTCGTCCAACCTCTAATGAGTGTTT SNPs ---S--SS-----------------------------S-------S-S-S forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GCCC---------------------------------------------- chr5A_1 TAATATGTGATGGCCGTCTGATCACACGTACGGCGCTACTTTTAGGCCAA chr5B_1 TAATATGTGATGGCCGTCTGATCACACGTACGGCGCTTCTTTTAGGCCAA SNPs SSSS---------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 CCCGGTTGTGTCAATTGGGCCGCTGCTTCAGAAATCAAGCTAGGCGCTCT chr5B_1 CCCGGTTGTGTCAATTGGGCCGCTGCTTCAGAAATCAAGCTAGGCGCTCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 AACGTTAACCGGGTTGTTATATATGATTAGTTGTTCAAGCATGACATTGA chr5B_1 AACGTTAACCGGGTTGTTATATATGATTAGTTGTTCAAGCATGACATTGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 CGGGCTACTGCTCCGCCGAATCATCTGAAACTTTCTGACCTATCTAAAAA chr5B_1 CGGGCTACTGCTCCGCCGAATCATCTGAAACTTGCTCACCTATCTAAAAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 ATACGCAAGGAGTTTTTTATTCCGCTCCTTTATCATTCATTCAATGTGTA chr5B_1 A-ACGCAAGGAGTTTTTTATTCCGCTCCTTTATCATTCATTCGATGTGTA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 CCTCCTCTTCGTTGCGCATCGTCCGCACTTTGACGACGCCAAACCCATGG chr5B_1 GCTCTTCTTCGTTGTGCATCGTCCGCACTTTGACGACGCCAAAACCATGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 GCCAAGCCCAGGAAAACCCGACCAGCCCACATCTCTCTACCTCACACGTC chr5B_1 GCCAAGCCCAGGAAAACCCGACCAGTCCACATCTCTTTCCCTCACACGTC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 GTTTTACTACTCCTATCCCAACCTCGAACAGATTTTTGCACCGCCGCCCG chr5B_1 GTTTTACTACTTCTATCCCAACCTCGAACAGGTTTTTGCACCGCCGCCCG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 TCCTCTCTCCTCCTCTGACGCAAACCCTAGTGCATCATCACGCATCCGTT chr5B_1 TCCTCTCTCCTCCTCTGACGCAAACCCTAGTGCATCATCACGTGTCCGTT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ------------------------ACTAACTTTTCTAACTCTTTACGATG chr5A_1 GCCTCGTCCATCTTTTAATGAGTGACTATCTTTGATATCTATATATGATA chr5B_1 GCCTCGTCCATCTTTTAATGAGTGACTATCTTTGATACCTATGTATGATA SNPs ----------------------------S----SS--S--S-S--S---S forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TTGTAAAATACGCGAGAGAATACACCTCGACGCTAGAATCCAAATGCATC chr5A_1 CAAAATAGTGAA----AGAATACATCTAAAGACTCGAATTCAAATGCATC chr5B_1 CAAAATAGGAAA----AGAATACATCTAGAGACTCGAATTCAAATGCATC SNPs SSSS-S-S--SSSSSS--------S--S--SS--S----S---------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TGGACGATTCCGATTCCAGGATCAGCTGAGGCCGGGCTCAGAATGGAATT chr5A_1 TGGATGATTCT--------GATCAGCCGAGACCGGCCTCGTAATGGAATT chr5B_1 TGGACGATTCT--------GATCAGCCGAGACCGGCCACGTAATGGAATT SNPs ----------SSSSSSSSS-------S---S----S---SS--------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TTCGGTTCCACACGGGAACCAGAGAGAGAGGGGCGAGTGGGGGCAAAAAA chr5A_1 TCGGTTCTAGATGGAGCAAATTCGTTTTTTCACAGCGGTGGGAGAGATCA chr5B_1 TCGGTTCTAGATGGAGCAAATTCGTTTTTTCACAGCGGTGGGAGAGATCA SNPs -SS-S-SSSSSSS-S-S-SSSSS-SSSSSSSSSS-S-SS---SS-S-SS- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -----------AAAAAGTAGTAGGTGTT--ATTTACGCAGCTAGAGCCCA chr5A_1 GTCGAGTGGGCAAAAAGGAGTAGGTGGTTAATTTACGCAGCTAAAGCCCA chr5B_1 GTCGAGTGGTCAAAAAGGAGTAGGTGGTTAATTTACGCAGCTAAAGCCCA SNPs -----------------S--------S----------------S------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AACGGCTCCGGATTTGGTGCGAAATTACGGCGGAACTGCCACACATC--- chr5A_1 AATGGATCCGAATTTGGTGGGAAATTACAGCGGAAGTGCCACACATCACA chr5B_1 AATGGATCCGAATTTGGTGGGAAATTACAGCGGAAGTGCCACACATCACA SNPs --S--S----S--------S--------S------S-------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ---------------GCGTCTCCACTCCCCCGCACCCTCCCCGCCCCGGC chr5A_1 TCCCAGCGTGAGTCTGCGTCTCCACTCCCCCGCACCCTCCCCGGCCAGAT chr5B_1 TCCCAGCGTGAGTCTGCGTCTCCACTCCCCCGCACCCTCCCCGGCCAGAT SNPs -------------------------------------------S--S-SS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CAGAGAGAGAGAGAGAGAGAGAGAGTCAGATCCACCGCCGCCCGGCTCCC chr5A_1 CCACCTCCCCGGCCGCCCGCCCGG----------CCGCCTCCCAGCCCCC chr5B_1 CCACCTCCCCGGCCGCCCGCCCGC----------CCGCCTCCCAGCCCCC SNPs -SSSSSSSSS-SSS-SSS-SSS-SSSSSSSSSSS-----S---S--S--- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CCGAGCTCCTCCGCCTCCAGATCCGGCGGCCGGTAATGGCGCCGTCGCC- chr5A_1 CCTAGCTCCTCCGCATCCAGATCCTGCGGCCGGTAATGGCGCCGTTGCCT chr5B_1 CCTAGCTCCTCCGCATCCAGATCCTGCGGCCGGTAATGGCGCCGTTGCCT SNPs --S-----------S---------S--------------------S---- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -----TCCGCAAGCAGCGCCGCCCCTCTGAGCCGCTCTCCACGCAA---- chr5A_1 CCGCATCCGCAAGCAGCGCCGCCGCTCTGAGCCGCTCTCCACGCATCGCG chr5B_1 CCGCATCCGCAAGCAGCGCCGCCGCTCTGAGCCGCTCTCCACGCATCGCG SNPs -----------------------S---------------------S---- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------CGTCTCCGTCGCCGTCTCCGTCGCCGGCCACCCCACCCCACCG chr5A_1 GAGTCTCCGTCTCCGTCGCCGTCGCCGTCGCCGG-----CCACCCCACCG chr5B_1 GAGTCTCCGTCTCCGTCGCCGTCGCCGTCGCCGG-----CCACCCCACCG SNPs -----------------------S----------SSSSS----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CTGCCTCGACCACGCCCCCTACCCACCCCATCGAGGTATGATGCAGCCTC chr5A_1 CTGCCTCGACCACGCCCCCTACCCACCCGAGGTATGCAGCGGGTGCACGG chr5B_1 CTGCCTCGACCACGCCCCCTACCCACCCGAGGTATGCAGCGGGTGCACGG SNPs ----------------------------S-SSS-S-S-SSSS-SSSS-SS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TCTTTCTCAGTTTTAGCGGAATTTGCTGCTGCTTCTGCTTCTAGTTAGCT chr5A_1 CCTCTCTCAGTTTTAGCGGAATTGATCCATGCTGCTGCTTCTAGTTAGCT chr5B_1 CCTCTCTCAGTTTTAGCGGAATTGATCCATGCTGCTGCTTCTAGTTAGCT SNPs S--S-------------------SSSSSS----S---------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GTTGTCACTCAAATACGCTGCATACTATTCGCAAAAATAAAAATAAAAAT chr5A_1 GTTGTTACTCAGAGATGCTGCAATATCACCGTCTGAATGTACTA------ chr5B_1 GTTGTTACTCAGAGATGCTGCAATATCACCGTCTGAATGTACTA------ SNPs -----S-----S-S-S------SSS-SSS--SSSS---SS-SSSSSSSSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ACTACTCACTACTGGAGTATCTATCACCTAGCAGTAGCAGTGAGTGAGTG chr5A_1 ---------------------------CTAGCACTAGCAGTGAGTGAGTG chr5B_1 ---------------------------CTAGCACTAGCAGTGAGTGAGTG SNPs SSSSSSSSSSSSSSSSSSSSSSSSSSS------S---------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AGTGAGT------------------------------------------- chr5A_1 AGTGAGTTAGTTCGGCTGTAACTAGTGGCAACGACGATGGTTTTCTTTGT chr5B_1 AGTGAGTTAGTTCGGCTGTAACTAGTGGCAACAACGATGGTTTTCTTTGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ------------------------------------------------GA chr5A_1 GGTATTAGCAGATACTCACTACTACGTATCACTTAGCAGTGAGTGAGTGA chr5B_1 GGTATTAGCAGATACTCACTACTACGTATCACTTAGCAGTGAGTGAGTGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GTGAGGTCGGCTTTAATCAGTTTACCAGTGACAACAACCATGATTTTGTC chr5A_1 GTGAGGTCGGCTGTAATCAGTTTACCAGTGACAACAACGATGATTTTGTC chr5B_1 GTGAGGTCGGCTGTAATCAGTTTACCAGTGACAACAACGATGATTTTGTC SNPs ------------S-------------------------S----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TCCGATATTATCATCGGACACTACATAGTCTAGTTTGATGCCGAGTCATT chr5A_1 TCTGATATTAC---CGGACACTCTCTAGTCTAGTTTGATGCCGAGTCG-T chr5B_1 TCTGATATTAC---CGGACACTCTCTAGTCTAGTTTGATGCCGAGTCG-T SNPs --S-------SSSS--------SSS----------------------SS- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ATAATGAATTTGTTTTCAACATAATCAAGGTTCCGCTCTTCGACGGTGCC chr5A_1 ATAATGAATTTGTTTTCAACA----CAAGGTTCTGCTCTTCGA---TGCT chr5B_1 ATAATGAATTTGTTTTCAACA----CAAGGTTCTGCTCTTCGA---TGCT SNPs ---------------------SSSS--------S---------SSS---S forward_1544 ------------------------TCAAGGTTCCGCTCTTCGAC------ reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TGCAGGTTGATGTTGAAGGCTTGTAGAGCTCAAAACACCCAGATGGTACT chr5A_1 TACAGGTTGATGTTGAAGACCTATAGAGCTCAAAAGACCCAGATGGTACT chr5B_1 TACAGGTTGATGTTGAAGACCTATAGAGCTCAAAAGACCCAGATGGTACT SNPs -S----------------S-S-S------------S-------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ---------ATGCAGCCTTCAGACATTTGGAAGGCGCATGCGTCGCAGCA chr5D_1_TraesCS5D01G000500 ACTGCCATAATGCAGCCTTCAGACATTTGGAAGGCGCATGCGTCGCAGCA chr5A_1 ACTGGCATAATGCAGCCTTCAGACATTTGGAAGGCGCATGCGTCGCAGCA chr5B_1 ACTGGCATAATGCAGCCTTCAGACATTTGGAAGGCGCATGCGTCGCAGCA SNPs ----S--------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GCAGCAGTCGGAGGGGCCAGGGCTGGACATGGAGAGGAGCAACGGATGCA chr5D_1_TraesCS5D01G000500 GCAGCAGTCGGAGGGGCCAGGGCTGGACATGGAGAGGAGCAACGGATGCA chr5A_1 GCAGCAGTCGGAGGGGTCAGGGCTGGACATGGAGAGGAACAACGGATGCA chr5B_1 GCAGCAGTCGGAGGGGTCAGGGCTGGACATGGAGAGGAACAACGGATGCA SNPs ----------------S---------------------S----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACGGCCATAACTGCTGCCCATCCCCTCTCCAGCCCGTCGCCTCAGCTGGT chr5D_1_TraesCS5D01G000500 ACGGCCATAACTGCTGCCCATCCCCTCTCCAGCCCGTCGCCTCAGCTGGT chr5A_1 ACGGCCATAACTGCTGCCCGTCCCCTCTCCAGCCCGTCGCCTCAGCTGGT chr5B_1 ACGGCCATAACTGCTGCCCGTCCCCTCTCCAGCCCGTCGCCTCAGCTGGT SNPs -------------------S------------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CAGCACTCCGAAAGCAGCGCCGCCTACTTCTCTTGGCCCACGTCTACGCT chr5D_1_TraesCS5D01G000500 CAGCACTCCGAAAGCAGCGCCGCCTACTTCTCTTGGCCCACGTCTACGCT chr5A_1 CAGCACTCCGAAAGCAGCGCCGCCTACTTCTCTTGGCCCACGTCTACGCT chr5B_1 CAGCACTCCGAAAGCAGCGCCGCCTACTTCTCTTGGCCCACGTCTACGCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GATGCACGGTTCCGCTGAGGGCCGCGCCAACTACTTTGGGAACCTGCAGA chr5D_1_TraesCS5D01G000500 GATGCACGGTTCCGCTGAGGGCCGCGCCAACTACTTTGGGAACCTGCAGA chr5A_1 GATGCACGGCTCCGCCGAGGGCCGCGCCAACTACTTTGGGAACCTGCAGA chr5B_1 GATGCACGGCTCCGCCGAGGGCCGCGCCAACTACTTTGGGAACCTGCAGA SNPs ---------S-----S---------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AGGGCGTGCTGCCGGGACACCTTGGCCGCCTGCCCAAAGGCCAGCAGGCC chr5D_1_TraesCS5D01G000500 AGGGCGTGCTGCCGGGACACCTTGGCCGCCTGCCCAAAGGCCAGCAGGCC chr5A_1 AGGGCGTGCTGCCGGGACACCTTGGCCGCCTGCCCAAAGGCCAGCAGGCC chr5B_1 AGGGCGTGCTGCCGGGACACCTTGGCCGCCTGCCCAAAGGCCAGCAGGCC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACCACCCTGCTCGATCTCATGATTATAAGGGCGTTCCACAGCAAGATCCT chr5D_1_TraesCS5D01G000500 ACCACCCTGCTCGATCTCATGATTATAAGGGCGTTCCACAGCAAGATCCT chr5A_1 ACCACCTTGCTCGATCTCATGATTATAAGGGCGTTCCACAGCAAGATCCT chr5B_1 ACCACCTTGCTCGATCTCATGATTATAAGGGCGTTCCACAGCAAGATCCT SNPs ------S------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GCGCCGCTTCAGCCTTGGCACGGCCATAGGCTTTCGGATCAGGAAGGGGA chr5D_1_TraesCS5D01G000500 GCGCCGCTTCAGCCTTGGCACGGCCATAGGCTTTCGGATCAGGAAGGGGA chr5A_1 GCGCCGCTTCAGCCTTGGCACGGCCATAGGCTTTCGGATCAGGAAGGGCA chr5B_1 GCGCCGCTTCAGCCTTGGCACGGCCATAGGCTTTCGGATCAGGAAGGGCA SNPs ------------------------------------------------S- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -----------------------------GCTTTCGGATCAGGAAGGGG- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CGTTGACCGACACGCCTGCCATCCTCGTGTTTGTTGCTCGCAAGGTTAAC chr5D_1_TraesCS5D01G000500 CGTTGACCGACACGCCTGCCATCCTCGTGTTTGTTGCTCGCAAGGTTAAC chr5A_1 CGTTGACCGACACGCCTGCCATCCTCGTGTTTGTTGCTCGCAAGGTTAAC chr5B_1 CGTTGACCGACACGCCTGCCATCCTCGTGTTTGTTGCTCGCAAGGTTAAC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AAGAAGTGGCTCAGGCCTACGCAGTGCCTTCCAGCTGCCCTTGAGGTACA chr5D_1_TraesCS5D01G000500 AAGAAGTGGCTCAGGCCTACGCAGTGCCTTCCAGCTGCCCTTGAGGTACA chr5A_1 AAGAAGTGGCTCAGGCCTACGCAGTGCCTTCCAGCCGCCCTTGAGGTACA chr5B_1 AAGAAGTGGCTCAGGCCTACGCAGTGCCTTCCAGCCGCCCTTGAGGTACA SNPs -----------------------------------S-------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CTTGGTTTTGTTGTTTGTTTTTACCAAATTCTTATTTAGCCCATACTAGT chr5D_1_TraesCS5D01G000500 CTTGGTTTTGTTGTTTGTTTTTACCAAATTCTTATTTAGCCCATACTAGT chr5A_1 CTTGGTTTTGTTGTTTGTTTTTAGCAATTTCTTATTTAGTCCACACTAGT chr5B_1 CTTGGTTTTGTTGTTTGTTTTTAGCAATTTCTTATTTAGTCCACACTAGT SNPs -----------------------S---S-----------S---S------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ATGAACTTTCATAACCTGTATCTGTGAATGTTCCTTCCATGAACAGGGAC chr5D_1_TraesCS5D01G000500 ATGAACTTTCATAACCTGTATCTGTGAATGTTCCTTCCATGAACAGGGAC chr5A_1 ATGAACTTTCATAACCTGTATCTGTGAATGTTCCTTCCATGAACAGGGAC chr5B_1 ATGAACTTTCATAACCTGTATCTGTGAATGTTCCTTCCATGAACAGGGAC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAGTTCTCTTATTATGGT chr5D_1_TraesCS5D01G000500 CTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAGTTCTCTTATTATGGT chr5A_1 CTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAGTTCTCTTATTATGGT chr5B_1 CTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAGTTCTCTTATTATGGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GCACCAGCACCGACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGG chr5D_1_TraesCS5D01G000500 GCACCAGCACCGACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGG chr5A_1 GCACCAGCACCGACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGG chr5B_1 GCACCAGCACCGACTCCAAAGGAACAATTGTATGACGAGCTTGTTGATGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GCTGCGGGGAAGTGATCCATCTATAGGCTCTGGTTCACAGGTCAT-TTTT chr5D_1_TraesCS5D01G000500 GCTGCGGGGAAGTGATCCATCTATAGGCTCTGGTTCACAGGTCAT-TTTT chr5A_1 GCTGCGGGGTAGTGATCCATCTATAGGCTCTGGTTCACAGGTCATATTTT chr5B_1 GCTGCGGGGTAGTGATCCATCTATAGGCTCTGGTTCACAGGTCATATTTT SNPs ---------S---------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TTCCCCACAGCTACCGTTGCCTGTTTGCCCTGTCCTCTTCACAGTTAACT chr5D_1_TraesCS5D01G000500 TTCCCCACAGCTACCGTTGCCTGTTTGCCCTGTCCTCTTCACAGTTAACT chr5A_1 TTTTCCACAGCTACTGTTGCCTGTTTGCCCTGTCCTCTTCACAGTTAACT chr5B_1 TTTTCCACAGCTACTGTTGCCTGTTTGCCCTGTCCTCTTCACAGTTAACT SNPs --SS----------S----------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AGTTATTACACTTCACATCCGTAGGATTGCAGTCTGGAGGAATTTGCTGT chr5D_1_TraesCS5D01G000500 AGTTATTACACTTCACATCCGTAGGATTGCAGTCTGGAGGAATTTGCTGT chr5A_1 AGTTATTACACCTCACATCCGTAGGATTGCAGTCTGGATGAATTTGCTGT chr5B_1 AGTTATTACACCTCACATCCGTAGGATTGCAGTCTGGATGAATTTGCTGT SNPs -----------S--------------------------S----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TGGATTCATTCACGCTGTATTTTATTTAGTTTTACTTCCATTGACTCAAA chr5D_1_TraesCS5D01G000500 TGGATTCATTCACGCTGTATTTTATTTAGTTTTACTTCCATTGACTCAAA chr5A_1 GGGATTCATTCACGCTGTATTTTATTTAGTTTTACTTCCATTGACTCAAA chr5B_1 GGGATTCATTCACGCTGTATTTTATTTAGTTTTACTTCCATTGACTCAAA SNPs S------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACTTCTTAAAACATTCCTACGTTTTCCTATGATGCAACCGAACAACCTGT chr5D_1_TraesCS5D01G000500 ACTTCTTAAAACATTCCTACGTTTTCCTATGATGCAACCGAACAACCTGT chr5A_1 ACTTCTTAAAACATTCCTATGTTTTCCTATGATGCAACCGAACAACCTGT chr5B_1 ACTTCTTAAAACATTCCTATGTTTTCCTATGATGCAACCGAACAACCTGT SNPs -------------------S------------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CAATACTATGGTTTTCCTACTCTTATATGTTTACCAAACCCTGCTTTGCT chr5D_1_TraesCS5D01G000500 CAATACTATGGTTTTCCTACTCTTATATGTTTACCAAACCCTGCTTTGCT chr5A_1 CAATACTATGGTTTTCCTACTCTTATATGTTTACCAAACCCTGCTTTGCT chr5B_1 CAATACTATGGTTTTCCTACTCTTATATGTTTACCAAACCCTGCTTTGCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ATAAATCATACACCACAAAGACCAGACCAGAGATTCTGTTTTTTTTATTC chr5D_1_TraesCS5D01G000500 ATAAATCATACACCACAAAGACCAGACCAGAGATTCTGTTTTTTTTATTC chr5A_1 ATAAATCATACACCACAAAGACCAGAGATTCTG------TTTTTTTATTC chr5B_1 ATAAATCATACACCACAAAGACCAGAGATTCTG------TTTTTTTATTC SNPs --------------------------SSSSSSSSSSSSS----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CATTCATTTTCAT---GTACATCAAAGTCATTATTTAGCTGTCAGCTCTC chr5D_1_TraesCS5D01G000500 CATTCATTTTCAT---GTACATCAAAGTCATTATTTAGCTGTCAGCTCTC chr5A_1 CATTCATTTTCATTTAGTACATCAAAATCATTATTTATCTGTCAGCTCTC chr5B_1 CATTCATTTTCATTTAGTACATCAAAATCATTATTTATCTGTCAGCTCTC SNPs --------------------------S----------S------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TGCACACGCATCAGTTTCATGAATTGACATTTTAACTCGCACTTGTATTG chr5D_1_TraesCS5D01G000500 TGCACACGCATCAGTTTCATGAATTGACATTTTAACTCGCACTTGTATTG chr5A_1 GACACACACATCAGTTTCATGCATTGACACTGAATAACTCTGGACATACA chr5B_1 GACACACACATCAGTTTCATGCATTGACACTGAATAACTCTGGACATACA SNPs SS-----S-------------S-------S-SS-SSS-S-SSSSSSSSSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 T------------------------------------------------T chr5D_1_TraesCS5D01G000500 T------------------------------------------------T chr5A_1 TACCAGTCTCATACTCCCATGAATTGATATTGTGACTTAGTTGTTTCGGT chr5B_1 TACCAGTCTCATACTCTCATGAATTGATATTGTGACTTAGTTGTTTCGGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TTGAATCCTCAGGTAGCTAGCCTTGAAACATACGGGACTTTGGGTGCCAT chr5D_1_TraesCS5D01G000500 TTGAATCCTCAGGTAGCTAGCCTTGAAACATACGGGACTTTGGGTGCCAT chr5A_1 TTTAATTCTCAGGTAGCTAGTCTTGAAACATACGGGACTTTGGGTGCCAT chr5B_1 TTTAATTCTCAGGTAGCTAGTCTTGAAACATACGGGACTTTGGGTGCCAT SNPs --S---S-------------S----------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TGTGAAGAGTCGAACTGGCAACAAGCAAGTTGGTTTCTTAACGAATAGGC chr5D_1_TraesCS5D01G000500 TGTGAAGAGTCGAACTGGCAACAAGCAAGTTGGTTTCTTAACGAATAGGC chr5A_1 CGTGAAGAGTCGAACTGGCAACAAGCAAGTAGGCTTCCTAACGAACAGAC chr5B_1 CGTGAAGAGTCGAACTGGCAACAAGCAAGTAGGCTTCCTAACGAACAGAC SNPs S-----------------------------S--S---S-------S--S- forward_1544 -------------------------------------------------- reverse_2899 ------------------------------------------------GC forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ATGTTGCAGTTGACCTGGATTATCCTAATCAGAAGATGTTCCATCCGTTG chr5D_1_TraesCS5D01G000500 ATGTTGCAGTTGACCTGGATTATCCTAATCAGAAGATGTTCCATCCGTTG chr5A_1 ATGTTGCAGTTGACCTGGATTATCCTAATCAGAAGATGTTCCATCCGTTG chr5B_1 ATGTTGCAGTTGACCTGGATTATCCTAATCAGAAGATGTTCCATCCGTTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 ATGTTGCAGTTGACCTGG-------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CCCCCTAATCTTGGGCCTGGAGTTTACCTTGGTGCTGTTGAGAGAGCCAC chr5D_1_TraesCS5D01G000500 CCCCCTAATCTTGGGCCTGGAGTTTACCTTGGTGCTGTTGAGAGAGCCAC chr5A_1 CCCCCTAATCTTGGACCTGGAGTTTACCTTGGTGCTGTTGAGAGAGCCAC chr5B_1 CCCCCTAATCTTGGACCTGGAGTTTACCTCGGTGCTGTTGAGAGAGCCAC SNPs --------------S----------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------GTGCTGTTGAGAGAGCCAC reverse_4603 -------------------------------------------------- input_sequence_29271 TTCTTTTATCACGGATGATGTTTGGTATGGTATCTATGCGGGAACGAACC chr5D_1_TraesCS5D01G000500 TTCTTTTATCACGGATGATGTTTGGTATGGTATCTATGCGGGAACGAACC chr5A_1 ATCTTTTATCACGGATGATGTTTGGTATGGTATCTATGCGGGAACGAACC chr5B_1 ATCTTTTATCACGGATGATGTTTGGTATGGTATCTATGCGGGAACGAACC SNPs S------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 T------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CAGGTAACATTTTTTGTCATCACAAATTGCTGAA-ATTTTTGTTCAACAG chr5D_1_TraesCS5D01G000500 CAGGTAACATTTTTTGTCATCACAAATTGCTGAA-ATTTTTGTTCAACAG chr5A_1 CAGGTAACATTTTTCGTCATCACAGATTGCTTCATATATTTGTTCAACTA chr5B_1 CAGGTAACATTTTTCGTCATCACAGATTGCTTCATATATTTGTTCAACTA SNPs --------------S---------S------SS----S----------SS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTCAACTGCCAAGGGGAGCCTTGGCGCAGTGGTAAAGCTGCTGCCTTGTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ACCATGGAAACAGCCTCTTACAGAAATGTAGGGAAAGGCTGCGTACTATA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GACCCAAAGTGGTCGGACCCTTCCCTGGACCCTGCGCAAGCGGGAGCTAC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 --------------------------TTCAGTGGCATACTCTAGTCAAAC chr5D_1_TraesCS5D01G000500 --------------------------TTCAGTGGCATACTCTAGTCAAAC chr5A_1 --------------------------TTCAACTGCCGACTCTAGTGAAAC chr5B_1 ATGCACCAGGTTGCCCTTTTTTTTTATTCAACTGCCGACTCTAGTGAAAC SNPs ------------------------------SSS--SS--------S---- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AAACAAACAAACAAACAAAAAAAGGTCTATTTGTGGATCTTGCGTCTTTG chr5D_1_TraesCS5D01G000500 AAACAAACAAACAAACAAAAAAAGGTCTATTTGTGGATCTTGCGTCTTTG chr5A_1 AGAAAATGAAATGTTTCTGAGTATTTCGTGTTTTTGGCATACATGGC--- chr5B_1 AGAAAATGAAATGTTTCTGAGTATTTCGTGTTTTTGGCATACATGGC--- SNPs -S-S--SS---SSSSSSSS-SS-SS--SSS--S-S-SSS-SSSSSSSSSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GGCACCTTACAGTTTATTCACCACACGGATTTCATGCCTTTTGCTGCCAT chr5D_1_TraesCS5D01G000500 GGCACCTTACAGTTTATTCACCACACGGATTTCATGCCTTTTGCTGCCAT chr5A_1 -GTATCTTGTACTCCATTCACCACGCTCATTTCATG-CTTTTGCTGCCAT chr5B_1 -GTATCTTGTACTCCATTCACCACGCTCATTTCATG-CTTTTGCTGCCAT SNPs S-S-S---SS-S-SS---------S-SS--------S------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 T-TGCTTTCTTATTATGCTCTTGTTCTCTAAAATTATAAGATGGTTTACC chr5D_1_TraesCS5D01G000500 T-TGCTTTCTTATTATGCTCTTGTTCTCTAAAATTATAAGATGGTTTACC chr5A_1 TTTTTTTCCTTATAATGCTCTTGTTCTCATAAATTGAAATGCCATTTACC chr5B_1 T-TTTTTCCTTATAATGCTCTTGTTCTCATAAATTGAAATGCCATTTACC SNPs ---SS--S-----S--------------SS-----SS--SSSSS------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -----------------------------------------TGGTTTACC forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CTTGCGATGCATCTGCAGAAACATTTGTCCGGGCTGATGGTGCATTTATA chr5D_1_TraesCS5D01G000500 CTTGCGATGCATCTGCAGAAACATTTGTCCGGGCTGATGGTGCATTTATA chr5A_1 TGTGCGGTGCATCTGCAGAAACATTTGTCCGTGCTGATGGTGCATTTATA chr5B_1 TGTGCGGTGCATCTGCAGAAACATTTGTCCGTGCTGATGGTGCATTTATA SNPs SS----S------------------------S------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 CTTGCGATGCA--------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CCATTTGCGGACGACTTTGACATTACTAATGTCAGCACTTCAGTTAAAGG chr5D_1_TraesCS5D01G000500 CCATTTGCGGACGACTTTGACATTACTAATGTCAGCACTTCAGTTAAAGG chr5A_1 CCATTTGCGGACGACTTTGACATTACCAATGTCAGCACCTCAGTTAAAGG chr5B_1 CCATTTGCGGACGACTTTGACATTACCAATGTCAGCACCTCAGTTAAAGG SNPs --------------------------S-----------S----------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AGTTGGACTCATCGGTGACATCAAGGCAATCGATCTGCAGTCCCCGATTG chr5D_1_TraesCS5D01G000500 AGTTGGACTCATCGGTGACATCAAGGCAATCGATCTGCAGTCCCCGATTG chr5A_1 AGTTGGACTCATCGGTGACATCAAGGCAATCGATCTGCAGTCCCCGATTG chr5B_1 AGTTGGACTCATCGGTGACATCAAGGCAATCGATCTGCAGTCCCCGATTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GTAGTCTCATCGGGAAGCAAGTTGTGAAAGTTGGAAGAAGCTCAGGCCAT chr5D_1_TraesCS5D01G000500 GTAGTCTCATCGGGAAGCAAGTTGTGAAAGTTGGAAGAAGCTCAGGCCAT chr5A_1 GCAGTCTCATCGGGAAGCAAGTTGTGAAAGTTGGAAGAAGCTCAGGCCAT chr5B_1 GCAGTCTCATCGGGAAGCAAGTTGTGAAAGTTGGAAGAAGCTCAGGCCAT SNPs -S------------------------------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACGACAGGGACCGTCATGGCATATGCTCTTGAATACAACGACGAGAAGGG chr5D_1_TraesCS5D01G000500 ACGACAGGGACCGTCATGGCATATGCTCTTGAATACAACGACGAGAAGGG chr5A_1 ACGACAGGGACCGTCATGGCATATGCTCTTGAATACAACGACGAGAAGGG chr5B_1 ACGACAGGGACCGTCATGGCATATGCTCTTGAATACAACGACGAGAAGGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CATATGCTTTTTCACTGACTTCCTTGTCGTCGGGGAGAACCAGCAAACGT chr5D_1_TraesCS5D01G000500 CATATGCTTTTTCACTGACTTCCTTGTCGTCGGGGAGAACCAGCAAACGT chr5A_1 CATATGCTTTTTCACCGACTTCCTTGTCGTCGGGGAGAACCAGCAAACGT chr5B_1 CATATGCTTTTTCACCGACTTCCTTGTCGTCGGGGAGAACCAGCAAACGT SNPs ---------------S---------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TTGATCTTGAAGGGGACAGCGGAAGCCTTATAATCTTAACAGGACAAGAT chr5D_1_TraesCS5D01G000500 TTGATCTTGAAGGGGACAGCGGAAGCCTTATAATCTTAACAGGACAAGAT chr5A_1 TTGATCTTGAAGGGGACAGCGGAAGCCTTATAATCTTAACAGGACAAGAT chr5B_1 TTGATCTTGAAGGGGACAGCGGAAGCCTTATAATCTTAACAGGACAAGAT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GGTGAGAAGCCACAGCCTATAGGGATTATATGGGGTGGCACGGCCAACCG chr5D_1_TraesCS5D01G000500 GGTGAGAAGCCACAGCCTATAGGGATTATATGGGGTGGCACGGCCAACCG chr5A_1 GGTGAGAAGCCACAGCCTATAGGGATTATATGGGGTGGCACGGCCAACCG chr5B_1 GGTGAGAAGCCACAGCCTATAGGGATTATATGGGGTGGCACGGCCAACCG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CGGAAGGTTGAAGCTGAAAAGTGGGCAGGGCCCAGAGAACTGGACGAGTG chr5D_1_TraesCS5D01G000500 CGGAAGGTTGAAGCTGAAAAGTGGGCAGGGCCCAGAGAACTGGACGAGTG chr5A_1 CGGAAGGTTGAAGCTGAAAAGTGGGCAGGGCCCAGAGAACTGGACGAGTG chr5B_1 CGGAAGGTTGAAGCTGAAAAGTGGGCAGGGCCCAGAGAACTGGACGAGTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GTGTTGATCTGGGGCGCCTTCTTGACCTCCTCGAGCTCGATCTGATCACG chr5D_1_TraesCS5D01G000500 GTGTTGATCTGGGGCGCCTTCTTGACCTCCTCGAGCTCGATCTGATCACG chr5A_1 GTGTTGATCTGGGGCGCCTTCTTGACCTCCTTGAGCTCGATCTGATCACG chr5B_1 GTGTTGATCTGGGGCGCCTTCTTGACCTCCTCGAGCTCGATCTGATCACG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACAAGCGAAGGGCTGCAAGGTCTGTGCTTTTCCTAACACTGAATGAGTGT chr5D_1_TraesCS5D01G000500 ACAAGCGAAGGGCTGCAAGGTCTGTGCTTTTCCTAACACTGAATGAGTGT chr5A_1 ACAAGCGAAGGGCTGCAAGGTCTGTCCTTTTCCTAACACTGAGTGAGTGT chr5B_1 ACAAGCGAAGGGCTGCAAGGTCTGTCCTTTTCCTAACACTGAGTGAGTGT SNPs -------------------------S----------------S------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TGTTTGCTGGGCACACAACAGCTAGACAGACATGTTGTTAGCCTCCT--- chr5D_1_TraesCS5D01G000500 TGTTTGCTGGGCACACAACAGCTAGACAGACATGTTGTTAGCCTCCT--- chr5A_1 TGTCTGCTGGACACACAACAGCTAGACAGACATGTTGTTGTCAGCATCCC chr5B_1 TGTCTGCTGGACACACAACAGCTAGACAGACATGTTGTTGTCAGCATCCC SNPs ---S------S----------------------------SS-SS-S---- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TTGTTTGTAGCATCACTTTGATTTCCTCCTCTCTTTGTTGG-TGGCACAA chr5D_1_TraesCS5D01G000500 TTGTTTGTAGCATCACTTTGATTTCCTCCTCTCTTTGTTGG-TGGCACAA chr5A_1 TTGTTTGTAGCATCACCTTGATTTCCTCCTCTCTTTGTTGGTTGGCACAA chr5B_1 TTGTTTGTAGCATCACCTTGATTTCCTCCTCTCTTTGTTGGTTGGCACAA SNPs ----------------S--------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CAGAGGCTCTGGAGGAGCAGAGGATCACGGTAGCGGCGGCCAATTCTACG chr5D_1_TraesCS5D01G000500 CAGAGGCTCTGGAGGAGCAGAGGATCACGGTAGCGGCGGCCAATTCTACG chr5A_1 CAGAGGCCCTGGAGGAGCAGAGGATCACGGTGGCGGCTGCCAATTCTATG chr5B_1 CAGAGGCCCTGGAGGAGCAGAGGATCACGGTGGCGGCGGCCAATTCTACG SNPs -------S-----------------------S------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GGTACCGAGTCGTCGCC---CGTGGCCACCACCCCGCAAGAAGCCGAGAA chr5D_1_TraesCS5D01G000500 GGTACCGAGTCGTCGCC---CGTGGCCACCACCCCGCAAGAAGCCGAGAA chr5A_1 GCCACCGAGTCGTCGCCGCACGTGGCCACCACCCCGCAAGAAGCCGAGAA chr5B_1 GCCACCGAGTCGTCGCCGCCCGTGGCCACCACCCCGCAAGAAGCCGAGAA SNPs -SS----------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 AGTGGACAAGATCTACGAGCCCCTGGGGATCAACATACAGCAGCTTCCAC chr5D_1_TraesCS5D01G000500 AGTGGACAAGATCTACGAGCCCCTGGGGATCAACATACAGCAGCTTCCAC chr5A_1 AGTGGACAAGATCTACGAGCCCCTGGGGATCAACATCCAGCAGCTTCCAC chr5B_1 AGTGGACAAGATCTACGAGCCCCTGGGGATCAACATCCAGCAGCTTCCAC SNPs ------------------------------------S------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 GGGACGGCTCCGCCAACTCGATGGACCAGCCCTTTGGGCCTGACGAGTTC chr5D_1_TraesCS5D01G000500 GGGACGGCTCCGCCAACTCGATGGACCAGCCCTTTGGGCCTGACGAGTTC chr5A_1 GGGACGGCTCTGCCAACTCGACGGACCAGCCCTTTGGGCCCGACGAGTTC chr5B_1 GGGACGGCTCTGCCAACTCGACGGACCAGCCCTTTGGGCCCGACGAGTTC SNPs ----------S----------S------------------S--------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CGCGTTGACACGGTGGATGGGGTGAACAGCAACGTGGAGGAGCGGCAGTT chr5D_1_TraesCS5D01G000500 CGCGTTGACACGGTGGATGGGGTGAACAGCAACGTGGAGGAGCGGCAGTT chr5A_1 CACGTCGACACGGTGGATGGGGTAAACAGCAACGTGGAGGAGCGGCAGTT chr5B_1 CACGTCGACACGGTGGATGGGGTAAACAGCAACGTGGAGGAGCGGCAGTT SNPs -S---S-----------------S-------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CATCCCGAACCTGATGGGCATGTCCCCGATGCGCGACGAGCAAGGAGGCA chr5D_1_TraesCS5D01G000500 CATCCCGAACCTGATGGGCATGTCCCCGATGCGCGACGAGCAAGGAGGCA chr5A_1 CATCCCGAACCTGATGGGCATGTCCCCGATGCGCGACGAGCAAGGAGGCA chr5B_1 CATCCCGAACCTGATGGGCATGTCCCCGATGCGCGACGAGCAAGGAGGCA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ACGGCGAGCTGGAAAACAA---CAACCTGGAGAGCTCGGCGGAGGACATC chr5D_1_TraesCS5D01G000500 ACGGCGAGCTGGAAAACAA---CAACCTGGAGAGCTCGGCGGAGGACATC chr5A_1 ACGGCGAGCTGGAAAACAACTGCAACCTGGAGAGCTCGGCGGAGGACATC chr5B_1 ACGGCGAGCTGGAAAACAACTGCAACCTGGAGAGCTCGGCGGAGGACATC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 TGCTTCTCGCTGCACCTGGGCGAGCGGGAGCCCAAGAGGCTCCGCTCCGA chr5D_1_TraesCS5D01G000500 TGCTTCTCGCTGCACCTGGGCGAGCGGGAGCCCAAGAGGCTCCGCTCCGA chr5A_1 TGCTTCTCGCTGCACCTGGGCGAGCGGGAGCCCAAGAGGCTCCGCTCCGA chr5B_1 TGCTTCTCGCTGCACCTGGGCGAGCGGGAGCCCAAGAGGCTCCGCTCCGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 CACGACGACGGTGGACATAGACCTGCAGAAATGA---------------- chr5D_1_TraesCS5D01G000500 CACGACGACGGTGGACATAGACCTGCAGAAATGAGGGGCTCGGTCGCCGT chr5A_1 CACGACGACGGTGGACATAGACCTGCAGAAATGAGAGAGGG----GCCGT chr5B_1 CACGACGACGGTGGACATAGACCTGCAGAAATGAGAGAGGG----GCCGT SNPs -----------------------------------S-SSSSSSSS----- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GGCGTCTTGTTCATTTCGTCGTGCCCCTCTGTATGCGTCGTTGTTGTTAT chr5A_1 GGCATCTTGTTCCTTTCATCGTGCCCCTCTGTATGCGTTGTTGTTGTTG- chr5B_1 GGCATCTTGTTCCTTTCATCGTGCCCCTCTGTATGCGTTGTTGTTGTTG- SNPs ---S--------S----S--------------------S---------SS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TATTGGATTGGATTGGAGGCGATTGCGATTTGTGCCGGCAGTGGATGGAA chr5A_1 -------TTGGATTGGAGGCGATTGCGATTTGTG---------GATGGAA chr5B_1 -------TTGGATTGGAGGCGATTGCGATTTGTG---------GATGGAA SNPs SSSSSSS---------------------------SSSSSSSSS------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 --TTGGATTGGATTGGAGGCGA---------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AAATAAAACCCCATTGATCGATCTGTGAGATGAGAACCTGTTGTTGTATT chr5A_1 AAATAAAACCCCATTGATCGATCTGTGAGATGAGAACCTGCTGTTGTATT chr5B_1 AAATAAAACCCCATTGATCGATCTGTGAGATGAGAACCTGCTGTTGTATT SNPs ----------------------------------------S--------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GCTCGCTGGGACCCGACCCACAGAGTTTTACTACAGCAGTAGTTTCAGGT chr5A_1 GCTCGCTGGGACCCGACCGACAGAGTTTTACCACAGCAGTAGTTTCAGGT chr5B_1 GCTCGCTGGGACCCGACCGACAGAGTTTTACTACAGCAGTAGTTTCAGGT SNPs ------------------S------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 GAAAATGATGGCGCTGTCATCTGTATGTGTACTACTCCTGGTAGTACTCC chr5A_1 GAAAACGATGGCGCTGTCATCTGTATGTGTACTACTCCTGGTAGTACTTC chr5B_1 GAAAACGATGGCGCTGTCATCTGTATGTGTACTACTCCTGGTAGTACTTC SNPs -----S------------------------------------------S- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CTCCGTTTCAAATTACTCGTCGCAGAAATGGATGTATCTAGAACTAAAAT chr5A_1 CTCCGTTCCAAATTACTCGTCGCAGAAATGGATGTATCTAGAACTAAAAT chr5B_1 CTCCGTTCCAAATTAGTCGTCGCAGAAATGGATATATCTAGAACTAAAAC SNPs -------S------------------------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ACATCTAGATACATCTATACCTGCGACAAGTAATTCGGAATGGAGGGAGT chr5A_1 AC----------------ACCTGCGACAAGTAATTCGGAACGGAGGGAGT chr5B_1 AC----------------ACCTGCGACAAGTAATTCGAAACGGAGGAAGT SNPs --SSSSSSSSSSSSSSSS----------------------S--------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AGTAGTGAACTGTTGCGTGATTTATCTAACTCCCAACTCGTCAGCCAACT chr5A_1 AGTAGTGAACTGTTGCGTGATTTATTTAACTCCCAACTCGTCAGCCAACT chr5B_1 AGTAGTGAACTGTTGCGTGATTTATTTAACTCCCAACTCGCCAGCCAACT SNPs -------------------------S------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ATAATCAGTACTGTTGCATGTGTACTAGTAATAGCGAAACATGCTACGTT chr5A_1 A------------------------------------------------- chr5B_1 AACCAGTACGTATATGTGAATAAAGGAAGGAAAACATGTAGCATTACACA SNPs -SSSSSSSSSSSSS--SSSS-SS-SS-SSS-S-S-SSSSSSSSS---SSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TCATGTTGGTTAGTTGCC-------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GGCCTGTATGGCTGCATGGAATTACTTGTCACTGTATCTAGATGTATTTT SNPs SSSSSS-SSSSSSSSSSS-------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AGTTGTAGATACATCCATTTTTATTCATTTTTGAGACGAGTAATTTGGAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ---------------TCGTTTCATGTTTTGTAGTACTCCCTCCGTTCCTA chr5A_1 -------------------------------------------------- chr5B_1 CGGAGGGAGTATGTTTCATGTCATGTTTTGTACTACTACTAGCAAAAGTG SNPs -----------------S-S------------S----S-SSS-SSSSS-S forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AATATAAGTCTTTCTAGTGATTCCACTAGGTGGACTACATACGAAGCAAA chr5A_1 -------------------------------------------------- chr5B_1 CCCGTTGCAACGTGCGTTGCAACGGATGAACAACAAAAACATCATAAAAT SNPs SSSS-SSSSSSS-SSSS--SSS-SSS-SSSSSSSSS-S-S-SS-SSS--S forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TTGAATGAATCTACATTTAAAATGTATCTATATACATCCGTATGTGGTTC chr5A_1 -------------------------------------------------- chr5B_1 TTATAGACCCAAAATAAAATAATTCAAGTTCAGGCAAATTGCACCAATAT SNPs --SS-SSSSSSS-SSSSS-S---SS-SS-SS-SS--SSSSSSSSSSS-SS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 ATAGTGAAATCTCTACAAAGACTTATATTTAGGAACGGAGGGAAACTATT chr5A_1 -------------------------------------------------- chr5B_1 GTCATCAGTTTTACAGATTGATAATTAAGATAAATGATGCAAGAGAGCAA SNPs S-SS-S-SS-S-SS-S-SS--SSSS--SSSSSS-SSSSSSSSS-SSSSSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TA------------------------------------------------ chr5A_1 -------------------------------------------------- chr5B_1 AGAACATGAGACATCAAATTTATGACAAAAAAGAAATAGATCAAAGATTT SNPs SS------------------------------------------------ forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTAATGATGTCGGTAGTGAAACACAAAAAATACATGCTAGCCAAATAAGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ATGACTTAATATCCAGACATATGAGTGTCGTCTATTTTAACATGGTGGCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CACCATGTTGCCACACAATGTCCACGTGATCGTAATGCACGTGGTAAATC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CCTAGGCAATGAGCTTATCACTGCACGACACACTTGCCATTGTCTCGCGC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AAGGAAATATTTAAATCTTTAAAAACAAATCTCATCGACCAAGAACTACT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTCAATACCTAGACATATAAAGACTTTTCAAAAACTAATCAAATCCTAGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CATAAAAGACTTCTGAATCGGCGAACAGTTTTTCGAATCGACAAACATCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTTATAAATTAGGACATCTTTAAAAAATCACGAACATTTGTTTTGTTTTT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AGAGAAACATTTATTGAAATGCATGGATAGTTTTTGAATTCATGAATATT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTTTGACTCAGCTAACATTTTTTGAATTGATGACTTTTTTAAATTGGGGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ATGAATTTTAAATTTCGCAAAAGACATTTGATTTTTTGAAAATTTTCTTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GACATTTTTTTCCAGATTCACGAATATGTTTTGAATACACAATCATTTTT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTGAAAATCATGAACATGATTTTACTTCCTGACATGTTTTTCCAGATTGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GATTTTTTATAATTTGCGACAGTTTTGTAAAATCACCAACTTTTTTTGAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ACAGCGAAAATTTTATGATTTCCCAAAGTTTTTTTAATTCACTATTATTT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTCTAAAATTTGGTTATAACTGAAAACTTTTATAATTTGGAATTGTCAAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTAATTTCAAGAAGAAAAAACTAAAACAGAAATGAGAAAAGAAAAGAAAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GACAAAATGAAAAAAAAGGAGCGTCACACCCGGTAGGCCGGTCCCATGGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GGAGGTGCCTAAGAAAAAGGAGGCAAAAAATGGTATTACCAGGATTCGAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CCCAGGCCTACACGGTAGAAGCAACAGCCTGGTGGCCCCAGGCTGGTAGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ACGCTTGCGTTATAGACACGGCATCGCTAGTCTAAAAGCACAGTTCACGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CGGCGCCTTTGGAAATAAAAACCAAATCGTTTTCTTAACTTACCGAGTGG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GATAGCGGGTAATTTATAGCTAATTCGGAGGCAATTATTTGGACGGACGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CCAGAAGCACTATTTACTTTATTATTATTTTTATGGCGATTATATATATA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GGGTAGATAGATCGAATAATTACGAATGGACATGGTTCTACGCGAGGATG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GAATCACCTCCGTCCATGCGCATGTGATTCGTGTAGTATTTGTACAACCA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GCCCGTACATCTATTTCTCAGCACCGCTCCAGTGTAGTATAGGCCTAGTA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTCCACAGCCAATAAGTGAGTAAGCCCTACTGCACAATAACTACACTGAT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CCATGCTATTGATTAGAGAAGTTAATCTCTCATTTATTTGTACATTCAAC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GGCAGCGTGCACCACCCCATGCATTTTCTCCCCATTCATTGTATCCATGC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CGCAGCTCGTCCCTCACTCAGCTAGCTTCTCTAGTCCATGCTCAGGGAGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TCTAAGAGTTCCTCTTCCCAACAATGGAGTTGTGGAATTGTAGCTATACT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GGAGTCCATCTCTTTCTCTCTCTCTGGTGGTTGGTGGTGGACATTGCAAG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTCATGTTCTGTATTAGGATCCCAACTAACGTAGAAAAGATAACGAACAT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTAACCTTCCGTCGTTGCTAGAGCTTGATGCCATGGCCAGCTTTTTCCTC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TCAGCGCCAGGTTGAAGATGAACAATATTGCACACCTCAACCTGTATCCA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTTATTAGGAGCAGGTCGTGAAGTGTTAACTACATTGGAAGCATGCACCC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TGTCCATAATCACACTAGCTCTCTCCACCTCGCATTGTTCAATTTAGAAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTGGAGTATTTTAGTTTCGTCACTTGTTTCAAGTATTGGTTTAGAACTGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AATCCTTACATTTATCAATTTCTTATTAAAAAATCAATTAACTCCATTCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TCGTAGTTAACTCAAATCATGAAAAAAGTAGAATTTGAATTTTTAAATGC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AACATTAATAATAAAAAATCATTTCGTCTATTAATAGAAGATCAGGCAAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ATTCTACATAAAGGTTAAAATATTTTTACATGGCTTATAGAGAACGAGGC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTCTTTTTACGGCTTTGGGTTTGATCTCAGCTTCACAAGCATACATGTTA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 ACCAAAAATTACAATCCCCATTTAAAAAAAATTAGAGACATCAAAATCAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTCCACATATAATTCTAATTGAAGTTACGATATGAAAGTATCTGCGAGCT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GCATTTAATTATCTAAATATATGGGAGCAAGTTTGTCATGGTTACAGCTA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 AATTTGTGTGCTTAGTCGTTGTTCTATGTATTAACATTATATTAATATAT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GTAGTAGTAATATATTAATTGGTAAATTAGGACTAATCATCATACAAGTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TGTTTAATCATTGTGCCAGTTATTAGCTCTGTAATATTTAGGGCTAATTA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GCATATGAGTCTTACTCTATACACTAAACCATCCAGTTCGTCATGAATCA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GTCGCTATGAATAAAGCTTCTTGTATCAGCATTCCGTTGATTCATCTGCC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TATTGATGAGTAGCACATTAATACATAGGTTTGGCCACCTAATCACAAGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 GCCACAAAAGAAGTCTGCAATGCAAGTAGACCAACATGTTGGTTATATGT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CAGCGCGCGCGTATACCCAAGAAAGTAAAACACAGAACCAGTGTGATATG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CTATAACATGTGTATCAACGTTTCTGCTGGGGCCATCTCCTCTTGTTCTT SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CCGCTCTCCACAGGGACGCGACTCACAGAAGAGCTACAGTGCAGTTCTAA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CAGATAAGAGAATTAAAGATTGACCCAACACCTGCAAGGGGCGTTGCTAC SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CAGACAGCTAGTATCCATACGAGAATTAAACGAGACCTGGCCCATGCATG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TCAGGTATAACGTCACGTATTTACTCTGGCCTGAGAATTACCNNNNNNNN SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 CAGTGGCCTATATTAAGTAGCAATCGTGATGCATATGCGGACGCGCGAGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 -------------------------------------------------- chr5A_1 -------------------------------------------------- chr5B_1 TTTCGGCATCGCGTGCCACCATGTCCCAAAAGTTCGCGTCCGTAGATAGA SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 --------------------TTATTGTGAAGAATTTTTTTGTAGTACTAC chr5A_1 -------------------------------------------------- chr5B_1 TAGGGTAGATTAGGGTAGATTTATTGTGAAGAATCTTTTGTAGTACT--- SNPs ----------------------------------S----SSSSSSSSSSS forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TCCAGATGTGATGCTAATTGA--------CCATGGCAATTTTTGAGACTA chr5A_1 -------------------------------------------------- chr5B_1 ---AGATGTGATGCTAATTGACCAAATTTCCATGGCAATTTTTGAGACTA SNPs SSS----------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TAGATCATGCATGGCACCCCCAAATGTGTAGTTCATGGCAATTGGCAACT chr5A_1 -------------------------------------------------- chr5B_1 TAGATCATG----GCACCCCCAAATGTGTACTTCATGGCAATTGGCAACT SNPs ---------SSSS-----------------S------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CGTATCTTTTTGCAATCGAAACTCAAATTTAGATTTGTTACCATTGCAAC chr5A_1 -------------------------------------------------- chr5B_1 CGTATGTTTTTGCAATCGAAACTCAAATTTAGATTTGTTACCATGGCAAC SNPs -----S--------------------------------------S----- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 TCAAGATTTGATTTGTTGTTATGCCAAATTGAATTATTCTTTCCCATGCC chr5A_1 -------------------------------------------------- chr5B_1 TCAAGATTTGATTTCTTGTTATGCCAAATTGAATTATTCTTTCCCATGCC SNPs --------------S----------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 AAAAAACATACTAAAATGTTTCCTTGGAAATTTAAAATAAGTTGCCATGT chr5A_1 -------------------------------------------------- chr5B_1 AAAAAACA---TAAAATGTTTCCTTGGAAATTTAAAATAAGTTGCCATGT SNPs --------SSS--------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 -------------------------------------------------- chr5D_1_TraesCS5D01G000500 CAACTCAACTTGTGCACCATGTCAAATTAAATCATGTTATCATTGCCATG chr5A_1 -------------------------------------------------- chr5B_1 CAACTCAACTTGTGCACCATGTCAAATTAAATCATGTTATCATTGCCATG SNPs -------------------------------------------------- forward_1544 -------------------------------------------------- reverse_2899 -------------------------------------------------- forward_1999 -------------------------------------------------- reverse_3442 -------------------------------------------------- forward_3001 -------------------------------------------------- reverse_4603 -------------------------------------------------- input_sequence_29271 ------- chr5D_1_TraesCS5D01G000500 GCAGTTT chr5A_1 ------- chr5B_1 GCAGTTT SNPs ------- forward_1544 ------- reverse_2899 ------- forward_1999 ------- reverse_3442 ------- forward_3001 ------- reverse_4603 -------