TABLE 1

Models of ω-ratio variation among sites used for simulation and analysis

Model codeDescriptionFree parameters
M0: one ratioConstant ω for all sitesω
M1: neutralp0 of sites with ω0 = 0p0
p1 of sites with ω1 = 1
M2: selectionThree site classes with ω0 = 0, ω1 = 1, ω2 in proportions p0, p1, p2p0, p1, ω2
M3: discreteThree site classes in proportions p0, p1, p2p0, p1, ω0, ω1, ω2
M7: βAll sites are from B(p, q)p, q
M8: β and ωp0 of sites are from B(p, q)p, q, p0, ω
p1 of sites are from a class with ω