TABLE 1

Simulation results

rSD of Embedded Image Embedded Image
A. Θ = 0.005, 2001 sites
0.000.03100.07520.00510.0020
0.020.04000.11500.00490.0020
0.040.06660.12520.00540.0025
0.080.09030.21540.00510.0021
B. Θ = 0.01, 1001 sites
0.000.01970.06860.01020.0043
0.020.03880.08760.01020.0040
0.040.08570.16970.00980.0036
0.080.12600.26940.00960.0040
C. Θ = 0.01, 2001 sites
0.000.00840.05490.01010.0037
0.020.01870.03970.01000.0038
0.040.05650.08980.01010.0037
0.080.08850.11560.00960.0038
D. Θ = 0.1, 1001 sites
0.000.00070.00220.09840.0328
0.020.02290.01510.10570.0337
0.040.04120.02120.10530.0352
0.080.07940.03050.10680.0291
E. Θ = 0.1, 1501 sites
0.000.00040.00110.10280.0353
0.020.02380.01290.10370.0295
0.040.04150.01540.09950.0309

Means and standard deviations of parameter estimates from 100 simulated data sets of 10 sequences each. Presented as true r, mean estimate of r, standard deviation of r, estimate of Θ, and standard deviation of Θ. The majority of replicates were calculated without the “final coalescence” criterion, but it was used in specific cases where the program would otherwise have run out of space and throughout the subtables with Θ = 0.1.