The effect of recent bottlenecks of severity ϕ (the probability of coalescence during the bottleneck for a pair of chromosomes) on genealogical correlations for a sample of n = 50 chromosomes (from 106 coalescent simulations)

ϕt2/Var(t)ρij,ijρij,ikρij,klEmbedded Image
  • The last column indicates the average value of r2 between sites at which the rarer allele has a frequency of at least 0.1.