Overlapping rare allele scan QTL and GWAS associations.

GWAS associations detected by Chen et al. [44] encompassed by rare allele scan QTL for the same trait and population. SNP, parent name, and haplotype number for rare allele scan QTL peak joined together (QTL), marker identified by GWAS (SNP), chromosome (chrom_QTL and chrom_GWAS), additive effect of GWAS association (a_effect_SNP), dominance effect of GWAS association (d_effect_SNP), AgpV4 physical position of GWAS associated SNP (Position), Std. Dev of trait within the population, and proportion of trait variance associated with GWAS SNP (r2_GWAS). Other trait columns are the same as for S8 Table. (CSV)