TABLE 3

Haplotype configurations with highest likelihoods identified by the conditional enumeration method and numbered from 1 to 10 by decreasing likelihood or conditional probability

Probability (%)b
ConfigurationDifference from the most likely configurationaLikelihoodNo. of
 recombinantsλ = 0.995λ = 1.0
 1None6.27 × 10−12657.2757.21
 2[2, 7], [2, 8]1.28 × 10−12711.6911.68
 3[8, 7]1.16 × 10−12710.6410.63
 4[8, 6], [8, 7]6.43 × 10−137 5.88 5.87
 5[4, 1]2.61 × 10−138 2.38 2.38
 6[2, 7], [2, 8], [8, 7]2.38 × 10−138 2.17 2.17
 7[2, 3], [2, 4], [2, 5], [2, 7], [2, 8]2.35 × 10−139 2.14 2.14
 8[2, 7], [2, 8], [8, 6], [8, 7]1.31 × 10−138 1.20 1.20
 9[8, 6]1.20 × 10−138 1.09 1.09
10[2, 3], [2, 4], [2, 5], [2, 7], [2, 8]8.73 × 10−149 0.80 0.80
  • a For example, [2, 7] denotes that the corresponding configuration has an ordered genotype at marker 7 of individual 2, which differs from that in the most likely configuration.

  • b The conditional probability estimated by the ratio of the likelihood to the sum of the likelihoods of all configurations in SACHC*. When λ = 1.0, the conditional probabilities are calculated exactly.