Table 1

Parameters estimates and log likelihood values for branch-site M1a, MA and restricted MA model.

Model

Parameters

Lnl


M1a

Relaxed branch-site test null model

ω0 = 0.065 p0 = 0.870

ω1 = 1.000 p1 = 0.130

-3647.925

Restricted MA (ω2 = 1, fixed)

Strict branch-site test null model

ω0 = 0.050 ω2 = 1.000

p0 = 0.653 p1 = 0.096 (p2 + p3) = 0.252

-3629.574

MA

Alternative model

ω0 = 0.053 ω2 = 82.666

p0 = 0.679 p1 = 0.093 (p2 + p3) = 0,228

-3627.665


Lnl = log likelihood; ω0 = dN/dS values for sites with 0 <ω < 1; ω1 = dN/dS values fixed to 1; ω2 = dN/dS values for sites with ω > 1, which corresponds only to sites in the foreground branch.

Sobrinho and de Brito BMC Evolutionary Biology 2010 10:293   doi:10.1186/1471-2148-10-293

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