Model | D | F_{ST} | Maxhap | SequenceLD | Rholike |
---|---|---|---|---|---|

Growth | −0.53 | 1.15 (1.00–1.35) | 1.10 (1.00–1.25) | 1.30 (1.20–1.42) | |

Bottleneck | 0.25 | 0.60 (0.50–0.70) | 0.65 (0.55–0.70) | 0.56 (0.50–0.64) | |

Sweep | –1.25 | 1.02 (0.78–1.32) | 0.95 (0.80–1.10) | 0.94 (0.84–1.06) | |

Four-island even | 0.14 | 0.19 | 0.85 (0.75–0.95) | 0.80 (0.70–0.90) | 0.88 (0.82–0.96) |

Four-island uneven | 0.25 | 0.21 | 0.60 (0.50–0.70) | 0.65 (0.55–0.75) | 0.62 (0.56–0.68) |

Two-island even | 0.19 | 0.22 | 0.82 (0.72–0.92) | 0.85 (0.75–1.00) | 0.82 (0.74–0.88) |

Two-island uneven | 0.21 | 0.25 | 0.76 (0.68–0.86) | 0.80 (0.80–0.95) | 0.76 (0.70–0.84) |

For each scenario and method the average log-likelihood curve across 100 10-kb data sets was calculated; the value given is the ratio of the value of ρ that maximizes this curve over the true value of ρ

_{0}. This ratio gives the factor by which the estimator will tend to under- or overestimate the true recombination rate. A value of 1 shows that the method is robust; values of 2 or 0.5 would suggest that for large data sets the estimates will tend to be respectively twice or half the truth. In parentheses are ∼95% confidence intervals based on the curvature of the expected log-likelihood curves. For each scenario the average values of Tajima's*D*and (for the island models)*F*_{ST}are given.