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This focal locus also featured two epistatic interactions accounting for daidzein and total isoflavones, respectively, with another locus in Gm05 for daidzein accumulation [ 10].
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Consider R reference loci in addition to the focal locus.
Locus A is taken as the focal locus and locus B as background locus.
We follow the evolution of 2 N e alleles at the focal locus.
As described in the main text, the case of h = 0 corresponds to the focal locus.
Yet, unlike the main model, it assumes that the focal locus is subject to recurrent mutation (see Equation B5).
In addition, selection at the focal locus can drastically promote LD (e.g., Sabeti et al. 2002).
We then use these fitness measures to calculate the equilibrium frequency of a deleterious allele segregating at the focal locus.
At the focal locus, mutations with a fixed allelic effect α appear recurrently at rate θ and convert ancestral alleles into derived mutant alleles.
Parameters were estimated for the equation π/ d ≈ A × (1 − B × exp(−abs(x)/ q)) where x is the distance from the focal locus.
The first term is due to direct selection on the focal locus, the second reflects migration, and the third represents the interaction of all forces.
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