Test | Evolutionary Model | Recombination Parameter ρ | P Value | |||||
---|---|---|---|---|---|---|---|---|

0 | 2 | 5.492 | 8 | 10 | 12 | |||

D′ | Simple | 0 | 75 | 95 | 95 | 97 | 100 | |

rh | 5 | 75 | 96 | 88 | 94 | 97 | 0.519 | |

r^{2} | Simple | 8 | 73 | 98 | 99 | 98 | 99 | |

rh | 3 | 71 | 94 | 99 | 97 | 98 | 0.041 | |

HT | Simple | 30 | 99 | 100 | 100 | 100 | 100 | |

rh | 42 | 96 | 100 | 100 | 100 | 100 | 0.518 | |

HT 3^{rd} | Simple | 25 | 97 | 99 | 100 | 100 | 100 | |

rh | 39 | 95 | 99 | 100 | 100 | 100 | 0.447 | |

PHI p | Simple | 0 | 58 | 96 | 98 | 100 | 100 | |

rh | 1 | 61 | 95 | 98 | 98 | 100 | 0.822 | |

PHI n | Simple | 0 | 64 | 93 | 98 | 99 | 100 | |

rh | 1 | 60 | 96 | 97 | 100 | 99 | 0.872 | |

NSS | Simple | 1 | 66 | 93 | 96 | 98 | 98 | |

rh | 3 | 71 | 92 | 96 | 97 | 98 | 0.419 | |

MS | Simple | 8 | 60 | 81 | 87 | 85 | 87 | |

rh | 3 | 58 | 77 | 81 | 84 | 85 | 0.009 |

Values represent the number of 100 samples in which recombination was detected, using a nominal

*P*value of 0.05 to indicate significance.*P*values are from paired, two-tailed Student’s t-tests. Simple, simple scenario of sequence evolution; rh, evolution of sequences involves mutation rate heterogeneity, but no population growth; D′, LD*vs.*distance using D′; r^{2}, LD*vs.*distance using r^{2}; HT, Homoplasy Test; HT 3^{rd}, Homoplasy Test using only every third site; PHI p, Pairwise Homoplasy Index using permutations; PHI n, Pairwise Homoplasy Index using a normal approximation; NSS, Neighborhood Similarity Score; MS, Max χ^{2}.