Recombination rate controls the strength of selection on the introgressed haplotype. a) During deleterious introgression, markers in high recombination regions become unlinked with deleterious QTL and experience lower negative selection. Blue and red bars represent major and minor parent ancestry, respectively. Yellow, dark blue, and gray circles represent positively selected, negatively selected, and neutral variants, respectively. b) During adaptive introgression, markers in high recombination regions become unlinked with adaptive QTL and experience lower positive selection. c) and d) Selection coefficients for markers in recombination quintiles for chromosome 12 (negative selection for the introgressed haplotype) and chromosome 2 (positive selection for the introgressed haplotype). Mean and two SEs presented.