Strong negative selection on the introgressed haplotype corresponds to seed production QTL on six chromosomes, and one instance of strong positive selection for the introgressed haplotype is noted for chromosome 2. a) Selection estimates based on allele frequency change for inferred parental haplotypes across the genome. Horizontal bars indicate QTL for seed production from chromosomal translocations. b) Recombination rate across the genome. Colors represent alternating chromosomes. Colors alternate between chromosomes.