Table 2. Comparison of monophyly, genetic distance, and Bayesian posterior probability results by linkage status and gene.

Criterion	Linked (N = 108)		Unlinked (N = 40)		Indeterminate (N = 3)
	env	gag	env	gag	env	gag
Proportion with Monophyly	0.935	0.880	0	0	0.667	0
Median Pairwise Genetic Distance (range)	0.028(0.000–0.130)	0.013(0.000–0.092)	0.172(0.112–0.346)	0.113(0.060–0.216)	0.188(0.089–0.255)	0.079(0.068–0.161)
Median Bayesian Posterior Probability (range)	0.998(0.038–1.000)	0.997(0.000–1.000)	<0.001(0.000–0.271)	0.000(0.000–0.000)	0.000(0.000–0.743)	0.000(0.000–0.000)
Proportion with Bayesian Posterior Probability ≥0.50	0.972	0.981	0	0	0.333	0

* Monophyly is defined as sharing the most recent common ancestor on a phylogenetic tree. During evaluation, the adjudicators used the minimum pairwise genetic distance found between partners’ sequences within each couple and the corresponding Bayesian posterior probability for those most closely related sequence pairs. The median (range) for genetic distances and Bayesian posterior probabilities displayed in the table reflect the minimum genetic distance and maximum Bayesian posterior probability for each pair.