Supplementary Table 1 Primer Sequences for KASP SNP Genotyping Assays

Supplementary Table 1 Primer sequences for KASP SNP genotyping assays.

Ch ro m os o m SNP Marker e Primer_AlleleFAM Primer_AlleleHEX Primer_Common

SL 2. 40 ch GAAAATAAAGATGAAGAAGTTAAGAGTGGA solcap_snp_sl_15055 01 A AAAATAAAGATGAAGAAGTTAAGAGTGGAG GCTTTCCTGAAACATACACACTAACACAT

SL 2. 40 ch solcap_snp_sl_8704 01 AGAACCAGGCGTTGCATTTGTAC AGAGAACCAGGCGTTGCATTTGTAT TCTACCACAGCGGAGCCAAAACTTA

SL 2. 40 ch solcap_snp_sl_13762 01 TCTGTGACAACATTCTCAAAAAAGGA CTGTGACAACATTCTCAAAAAAGGC CAACGTTTCTTCAATAGCTTCATCACTCAA

SL 2. 40 ch solcap_snp_sl_42213 01 CACGCGCCGCCGATTCAA CACGCGCCGCCGATTCAG GACACACCGACAGTTTTGTTTGTTTGTTA

SL 2. 40 ch solcap_snp_sl_15339 01 GGAAGATATAGAAGGCATGGAGG GGGAAGATATAGAAGGCATGGAGA GTAGCACTCTTGGGGAGTATTTCCTT solcap_snp_sl_40366 SL GTAAACTCTGCTGGTGCTTCAAC CTGTAAACTCTGCTGGTGCTTCAAT GAGTGAGAAGAAATTGCTTTAAAAGCAGA 2. T 40 ch 01

SL 2. 40 ch solcap_snp_sl_19481 01 AAGGCCCGAGGCAAAAACAGCA GGCCCGAGGCAAAAACAGCG TCTCTATGAGCGCGAGCAAGTTCTT

SL 2. 40 ch solcap_snp_sl_48121 01 AGCAAATAATGTCAATGTGCATATCGA AGCAAATAATGTCAATGTGCATATCGC TATGATGAGAGGAGTGCTCCGGAAA

SL 2. 40 ch solcap_snp_sl_28338 02 CATTCCTTTGGGATCTTTTGTGGCA CCTTTGGGATCTTTTGTGGCG ATACGTGGCCAACCCTTTCAGTGAT

SL 2. 40 ch solcap_snp_sl_8402 02 ATGTTGGTCAAGAACAGTTTGGCCA GTTGGTCAAGAACAGTTTGGCCG TGAAGCCTGTATGGTGTCATATTTGCAAA

SL 2. 40 ch solcap_snp_sl_8505 02 TACAAATTCGTGCAAGCGGGG ATCTTACAAATTCGTGCAAGCGGGA CCCTGTGTAGTATCATTTTGAAAGATACAA

SL 2. 40 ch solcap_snp_sl_13516 02 TTCCTTAGTAGCACTGCTCCATGT CCTTAGTAGCACTGCTCCATGG GAGAACAATGGCCAAGCTCAAGCTA

SL 2. 40 ch solcap_snp_sl_18447 02 CGCTTCTTTAGATTGAAACAGAGTGT CGCTTCTTTAGATTGAAACAGAGTGC CTTCATATGCCTGCTTTTGGAGTGAAATA solcap_snp_sl_17161 SL CCAGAAATCTTTTACAAGCAATAAATGTTCT CCAGAAATCTTTTACAAGCAATAAATGTTCA GCAAAAGTAGATCCAGAATCCAGGTTAAT 2. 40 ch 02

SL 2. 40 ch solcap_snp_sl_36287 02 ATCGCATTATCTTCTGTCGTTTCTAC GTATCGCATTATCTTCTGTCGTTTCTAT CCAAGTATGGTTGTGTTAGGCGGTT

SL 2. 40 ch solcap_snp_sl_32389 02 CGGTGGTTCAAAGACCTCACG GTCGGTGGTTCAAAGACCTCACA AATACGAGCTTGCAGGCTGCTGAAA

SL 2. 40 ch solcap_snp_sl_9666 03 GTCAAAGCTTTTAGCTAAAATGTCTCGA CAAAGCTTTTAGCTAAAATGTCTCGG CCTTAAGTGTTTTGATGGGCACGTTTTAT

SL 2. 40 ch solcap_snp_sl_14354 03 GGTGCCATTCAAGTTAATTGCTTGATT GTGCCATTCAAGTTAATTGCTTGATC GGGTTTCGGTTCAGAAAAACATCAATGAA

SL 2. 40 ch solcap_snp_sl_18590 03 CAGTCTAACATTATTTTACAAAGAGAGAGAA AGTCTAACATTATTTTACAAAGAGAGAGAG TCAACACCAACACTTCCACTTTACTGATT

SL 2. 40 ch solcap_snp_sl_7942 03 GGTTAAGTGCCAAGAACATGGAC CTGGTTAAGTGCCAAGAACATGGAT CCCGAAAGAGTTAATTAAACATGCAATGAA solcap_snp_sl_62348 SL TGCTCATAAAGATGAAATAAACAGAAGAC CTTTGCTCATAAAGATGAAATAAACAGAAGA GTTTGAAGGGACAAAATGTGGACTACATT 2. A 40 ch 03

SL 2. 40 ch solcap_snp_sl_34106 03 TCTCAGGTGAACTTCTTCATGCT CTCAGGTGAACTTCTTCATGCC CCAGTGAGTGAAGAAGGAATAGTAGATTT

SL 2. 40 ch solcap_snp_sl_33830 03 CACAAAACATGGCAAAGTTAAGTACAATTA CACAAAACATGGCAAAGTTAAGTACAATTT GAGAAAAAGAACCTGCATTTTGCGGTT

SL 2. 40 ch solcap_snp_sl_36532 03 GAAGACGGACAGAATCCTCG ATCTGAAGACGGACAGAATCCTCA GGAAGACTCTATGCTTTGAAAGTGATCTA

SL 2. 40 ch solcap_snp_sl_63869 04 GGTGCTGATATATTAGCTGATAGACTA GTGCTGATATATTAGCTGATAGACTC AAGAGGTACCTTTTCGGCAATAGAGTTTT

SL 2. 40 ch solcap_snp_sl_21335 04 CACCTGATAACTCACTTTATGGTCCA ACCTGATAACTCACTTTATGGTCCG TGTGAACATTGAGACAGTTGAGATGGAAT

SL 2. 40 ch solcap_snp_sl_16992 04 CAAATCAGTTGAGCAATTAAACTCACACT AATCAGTTGAGCAATTAAACTCACACG CAGTTGTACGAGGGCTCGTGGTA

SL 2. 40 ch solcap_snp_sl_17641 04 GTGATATATGAAGAAGAGCTTGGCG GTGATATATGAAGAAGAGCTTGGCT GGTTCATCTGTGACTTCCACCACTA SL 2. 40 ch solcap_snp_sl_3106 04 ACGGAATCGATTGCTCCGACGA CGGAATCGATTGCTCCGACGG CTGGCGAAGAAGACTGCATCGTTAA

SL 2. 40 ch solcap_snp_sl_11543 04 GAACGATTGATTAAACCTTTAGACTCAC GAACGATTGATTAAACCTTTAGACTCAT TTAGCAACAGCTCAAATCACCTCATGAAA

SL 2. 40 ch solcap_snp_sl_3748 04 AGCAGCACTACTCAAAGCTA GCTAGCAGCACTACTCAAAGCTG ATAGCTGCTGGACTCCATTCTGGAT

SL 2. 40 ch solcap_snp_sl_4024 04 CAACACTTAAATTTTGACATGTCCTAGAAA CAACACTTAAATTTTGACATGTCCTAGAAT GAGCAAAGATAGAGAAAGTTCTTGATCCTA

SL 2. 40 ch solcap_snp_sl_19103 05 GCCATTGGCCGGGATAACTCTA CCATTGGCCGGGATAACTCTG CTTGAGCACCAAGCGAGAGAACTTA

SL 2. 40 ch solcap_snp_sl_13482 05 TTGCCTATCAAAGCTCCGGCG CTTTGCCTATCAAAGCTCCGGCA GGGCTTACCTCTAGCTATAGTGGTT

SL 2. 40 ch solcap_snp_sl_16137 05 ATTTCCCACAAAAGGGTCTGTCC GATTTCCCACAAAAGGGTCTGTCA TTAAGACATGATCAGGTGCGTGTTCTTA solcap_snp_sl_12207 SL CACCGACTCTGCTCTCTGAGA CACCGACTCTGCTCTCTGAGG TGCTACTGCCAATGGAGCCACTAAA 2. 40 ch 05

SL 2. 40 ch solcap_snp_sl_123 05 TAGTTCAACATCCTCCAACGAACG AGTTCAACATCCTCCAACGAACA TTGTGGTCAGATCAGAGCCCTCTAT

SL 2. 40 ch solcap_snp_sl_249 05 AATCCAGTCTCCCAAACATCTTCAATA CCAGTCTCCCAAACATCTTCAATG CTCAGTAGTTTGATTCAGCGAGAAATCTA

SL 2. 40 ch solcap_snp_sl_369 05 CTTGCAAGCAAATGGAAGACTTC CCTCTTGCAAGCAAATGGAAGACTTT CTTGCGATAATGAGAACGTGATTGAACTT

SL 2. 40 ch solcap_snp_sl_35256 06 GAAAGACTAGCAGAGTGCAGCAG GAAAGACTAGCAGAGTGCAGCAA CTTCTTGCTAGTTGTAGGGAAGATCTATA

SL 2. 40 ch solcap_snp_sl_101043 06 CATTCTGTTTTATTTGTTCCTTACTTGTCTA CATTCTGTTTTATTTGTTCCTTACTTGTCTT CTTGTCTTGCACCTGTAATTTACATTCAAA

SL 2. 40 ch solcap_snp_sl_2622 06 CTTGTTAAGGTCTAATTTTGCTCGGT CTTGTTAAGGTCTAATTTTGCTCGGG CCCCAGGGCATGTACTAATGGAATT solcap_snp_sl_1337 SL GCAGAGTTCAAAGGGGGGG CTGCAGAGTTCAAAGGGGGGA TCAAAATCCCCTCCTCCCTCTCTTT 2. 40 ch 06

SL 2. 40 ch solcap_snp_sl_19915 06 CAGACAAATTTAACCTCAACTTCCCA CAGACAAATTTAACCTCAACTTCCCG AAGGACTTCTCTGGCTTGGTGCATA

SL 2. 40 ch solcap_snp_sl_19898 06 GCAGGATTATTGCCGGTGGTCT CAGGATTATTGCCGGTGGTCC GTTTCTTTGTGCTTGCATTTATGGGCTAT

SL 2. 40 ch solcap_snp_sl_31730 06 ACATCGTTGAAATCCAACTGTCCT ACATCGTTGAAATCCAACTGTCCC GATGAAAGGGTATCATCTCCACCAGTA

SL 2. 40 ch solcap_snp_sl_31712 06 GCAATGTTAAATACCTGTTATCAGCCA CAATGTTAAATACCTGTTATCAGCCG CAGGTTAAATACGTAGTAGTTATTCAGGAT

SL 2. 40 ch solcap_snp_sl_11221 07 AGCCTCCGGGAAAGTTGAGTCA AGCCTCCGGGAAAGTTGAGTCT GGCTCTACTTTAGCTTCATCAGTTTTCTT

SL 2. 40 ch solcap_snp_sl_11171 07 GGAAGAGTTCCTCGTACACCG GGGAAGAGTTCCTCGTACACCA GGCTATCCAAAGTGAAATGTCAAACACTT

SL 2. 40 ch solcap_snp_sl_70080 07 GTGATGCCGTCGATGAGGGC GGTGATGCCGTCGATGAGGGT ACGTGCTTCGTTTTCTTCAATACACTAAAA solcap_snp_sl_53585 SL AGTTTTAATTCTTACGCACTCTATGCTTAT GTTTTAATTCTTACGCACTCTATGCTTAC CTCGGGCAAGTAGCCAAATGGTAT 2. 40 ch 07

SL 2. 40 ch solcap_snp_sl_55513 07 TCTTTCTCAGGCTGGTGTGATA CTTTCTCAGGCTGGTGTGATG GCTCAGCTGAATGGATGGTGTCATT

SL 2. 40 ch solcap_snp_sl_12139 07 GGCCACTCAACATCGCCGGAT GGCCACTCAACATCGCCGGAA CTGACCTCGAAAATTCCGACCCAAT

SL 2. 40 ch solcap_snp_sl_37060 07 AATCTGCATCACTATGCTGTCGATTAA CTGCATCACTATGCTGTCGATTAC GAATCAGATCATGTGGATTCTCCTTTGAA

SL 2. 40 ch solcap_snp_sl_37030 07 AAATTGCATGGTTTCAGCTCTGTGC AAAAATTGCATGGTTTCAGCTCTGTGT CTTTCCTGGACAACTCAGACGTAGTA

SL 2. 40 ch solcap_snp_sl_24384 08 AATCATCAATCCACATTTATGCAGCTC AATCATCAATCCACATTTATGCAGCTG AGTCCCAGTAGGGTCGTCAATGAA

SL 2. 40 ch AAATATTATGTAGTGATCTTTGATGCAAATGT solcap_snp_sl_13899 08 A ATTATGTAGTGATCTTTGATGCAAATGTG CCAGAGCTTCCATTGCTTCTCATATTTAA

SL 2. solcap_snp_sl_13456 CATCGGAGGAGATTCAAGAGGT CATCGGAGGAGATTCAAGAGGC GGTCGGGTCGGGTTTGAATCTTTTT 40 ch 08

SL 2. 40 ch solcap_snp_sl_64502 08 CGTGTTTTTGATCCGAATGTCCAC CCGTGTTTTTGATCCGAATGTCCAT ATCTCAAAGAATAACTTCTATCAATGATTT

SL 2. 40 ch solcap_snp_sl_21430 08 ATAAGTTGTACTTACATTTTTTCGCCATCA AGTTGTACTTACATTTTTTCGCCATCG CACCTGAAACAACACCATTATCTCTGTAA

SL 2. 40 ch solcap_snp_sl_34763 08 TCCAAGGTCACTGGTATAATGCG CTTCCAAGGTCACTGGTATAATGCA CCTAATGTGCTTCACCAGAAAGGCAT

SL 2. 40 ch GAGGGAAGGAAATCAAGATTTTTGAGACA solcap_snp_sl_15446 08 AAGTAAAATCCCTAGCAACACTACCT AAGTAAAATCCCTAGCAACACTACCA T

SL 2. 40 ch solcap_snp_sl_36988 08 AGCTTCATTAGATTACAGTTGTATTTCCTT AGCTTCATTAGATTACAGTTGTATTTCCTA GCCGGAGCTACACCGGAGAAT

SL 2. 40 ch solcap_snp_sl_28415 09 TCAAGTTATGCTCGAGCTTTGTCAAA CAAGTTATGCTCGAGCTTTGTCAAG TTCAGGCTCAGTGAAGTGATAATCATGTT

SL 2. 40 ch solcap_snp_sl_14676 09 AAGGTATTCCGACCCTATCTTGCTT GGTATTCCGACCCTATCTTGCTC GTCGCACCTGTGCTGAATACTTCTA SL 2. 40 ch solcap_snp_sl_39804 09 CAACGACTGCAGGTAACTTTCCG CAACGACTGCAGGTAACTTTCCA CTGGTGACGTTTTGGTTGATTCTATGAAA

SL 2. 40 ch solcap_snp_sl_16585 09 AAACAAGAACTTGAAAGCCCACCT AAACAAGAACTTGAAAGCCCACCC GGTGCAGAAAGAGATTCGTCAGCAA

SL 2. 40 ch solcap_snp_sl_3355 09 CTTCCTCTTCTTCATGTCCTCTCT CCTCTTCTTCATGTCCTCTCG GATCTATGATTTTGCGAAGTGAAGTGAAAT

SL 2. 40 ch solcap_snp_sl_7829 09 CACGTTCGTGCAATCGTTGCTCA ACGTTCGTGCAATCGTTGCTCG ATGATCTGTTCTGGAGTTGTTGCTCAAT

SL 2. 40 ch TGAACTGGAAGAATTTTAGAGGGATGATA solcap_snp_sl_36852 09 CAGACAACAAGGGTGTGGCTCT AGACAACAAGGGTGTGGCTCC A

SL 2. 40 ch solcap_snp_sl_25745 09 CCTAGCCGGGCGTTGAAATTGT CTAGCCGGGCGTTGAAATTGG GAGATGTTAAGACAAGCAATGTGATGCTT

SL 2. 40 ch solcap_snp_sl_46059 10 GATGCTCATCCAATGCATCAAACTCT ATGCTCATCCAATGCATCAAACTCG CCCTATGTATCATCATCTACGTAACTCAA solcap_snp_sl_17859 SL CATATTCATACTCACTCCGCTTCTCT ATATTCATACTCACTCCGCTTCTCC CACAGAGAGCTTAGTTTGATGAAAGCTTT 2. 40 ch 10

SL 2. 40 ch solcap_snp_sl_30517 10 AGCCGCAGAGGTAGTAGTTCC CAGCCGCAGAGGTAGTAGTTCT TCCTCGCTGACACAGTCTCCGA

SL 2. 40 ch solcap_snp_sl_25580 10 AATACCATTTTTTTCAGCAAATCCAAGAGA ACCATTTTTTTCAGCAAATCCAAGAGC GCAAGTTGTTACGCGATTAGTAAGACATT

SL 2. 40 ch solcap_snp_sl_18726 10 GACAGCAAACCTAGATGAGAAATTACA GACAGCAAACCTAGATGAGAAATTACT CTCGTGAGGAAGAAGATGGGCTTTT

SL 2. 40 ch solcap_snp_sl_61192 10 ATCATAGAAATGACTTCCGCGCGT CATAGAAATGACTTCCGCGCGC TCCCACTATAAGAAATTGAATTCCAGTGAA

SL 2. 40 ch solcap_snp_sl_8858 10 TTCATTCACCCGTACCCTTTCCA CATTCACCCGTACCCTTTCCC CGGAGTTGATTCGGAGAGACGAAA

SL 2. 40 ch solcap_snp_sl_8808 10 GTACAGATAACAAACCACAATCAGTGA ACAGATAACAAACCACAATCAGTGG CTTCAGGTGATTGAACCTGCACTCTA solcap_snp_sl_36173 SL TTGTTAGGGTATTTTTGTATTGTTTGCATTTA GTTAGGGTATTTTTGTATTGTTTGCATTTG TCCAAAAGGCGGGACAAGGAAGTT 2. 40 ch 11

SL 2. 40 ch solcap_snp_sl_36066 11 TACTCGGCTCAGCTGGAATT CTTACTCGGCTCAGCTGGAATC GGAGTTGTGCCGGCTATTAAGGATA

SL 2. 40 ch solcap_snp_sl_9486 11 AGCCACCAGATGATTCATCCTCTAA CCACCAGATGATTCATCCTCTAG CTGCTCAAGCTTTATAACCCATTTCTCTA

SL 2. 40 ch solcap_snp_sl_6125 11 AACTCTGTATGATGTCTCGGTAGAAT ACTCTGTATGATGTCTCGGTAGAAC AGTATAACTTGAGGCAGCTTACCTCTAAA

SL 2. 40 ch solcap_snp_sl_19149 11 GAGTCTGAATTCGTGCTATATTTGATC TGAGTCTGAATTCGTGCTATATTTGATA GAACATCATTTTTCTGAGATGGTCTGTAAT

SL 2. 40 ch solcap_snp_sl_5970 11 TTCTACTGAACTACTCCTATTATCTAAT TCTACTGAACTACTCCTATTATCTAAG CTGCAAGGAATAAGAATTGCAATGCTGTT

SL 2. 40 ch solcap_snp_sl_100996 11 CATGATGATCGTCAGTTTCACAAG CTCATGATGATCGTCAGTTTCACAAA CAGGTGTGATTTCACCTCTGGAATAATTT

SL 2. 40 ch solcap_snp_sl_2711 11 GAAGACAAGCGAGCGTTGGCT GAAGACAAGCGAGCGTTGGCC GCTTAGCCTTCTCCTCATAGTTAAACAT solcap_snp_sl_17703 SL CACTTCGTGGTGAAGAGCTTATTAGA ACTTCGTGGTGAAGAGCTTATTAGG ACTTGTTTCCTCTCTTTAACCATCCGTTT 2. 40 ch 12

SL 2. 40 ch solcap_snp_sl_3165 12 GATCAGTGTGTAGAATTTAAATGCTATAACT ATCAGTGTGTAGAATTTAAATGCTATAACG CAAAAGCAAGCTTTCGTCTCTCTCGAT

SL 2. 40 ch solcap_snp_sl_12656 12 ACGCCAACAAGTCTGAGTTTGGAAT GCCAACAAGTCTGAGTTTGGAAC CCTTTGCGAATACTGGAATTGAGCTTAT

SL 2. 40 ch solcap_snp_sl_1572 12 GGTTCCTTGCTGCTGTGAGAAGA GTTCCTTGCTGCTGTGAGAAGG GAGTATAAGTTCCACAATGGAAATGCCAA

SL 2. 40 ch solcap_snp_sl_3112 12 AACCATCTTCTTCGGTAACCCAACA CCATCTTCTTCGGTAACCCAACG GCACCGGCAATACTCTGAGAAGTTT

SL 2. 40 ch solcap_snp_sl_31953 12 AAAAGAATGTTTGGTGATCTTGGAAACTAT AGAATGTTTGGTGATCTTGGAAACTAC GCACATAAACCACCAAGAAAGAACCAATT

SL 2. 40 ch solcap_snp_sl_14428 12 CTTCTAACATTATGTCATTGAATGATTTTTTC CTTCTAACATTATGTCATTGAATGATTTTTTT GAGGAATGGTGCTAGAACTAGAACCTT solcap_snp_sl_6526 SL ACACGCCATGGGTTAGAAAATAATCAA CACGCCATGGGTTAGAAAATAATCAG TGGGCCTAAACCATTTTTATACGGTTGAT 2. 40 ch 12