Characteristics of a selective sweep from standing variation.

<p>orange: sweep from standing variation blue: sweep from a new mutation, blue: neutral model a: A cartoon of the allele frequency trajectory with relevant parameters: <i>f</i>₁: allele frequency at the time selection started, <i>f</i>_cur: allele frequency at the time mutation is observed. <i>t</i>₁: time at which selection started. <i>t</i>₀: time when mutation arose.,. b: 100 stochastic realizations of the allele frequency trajectory. Panels c,d: Age distribution of an allele at 1% frequency and 5% frequency in a population (log scale). Blue line denotes neutrality, green lines represent selection with α = 20,100,200 and 1000 (right to left). Panels e,f: Distribution of the EHH (e) and H (f) statistic under neutrality (blue), a de novo mutation (green) and standing variation (red). Full and dashed lines represent selective pressures of α = 1,000 and 200, respectively. The dash-dot line represents α = 4000. Note that the slopes of the curves are different for the two scenarios, and the low H value around 0 under neutrality is due to the conditioning on a high frequency derived allele. Times are given in coalescent units and are plotted on a logarithmic scale.