Evolution of endogenous retroviruses in the Suidae: evidence for different viral subpopulations in African and Eurasian host species

Table 4 Bayes factor comparisons between model M₀ and M₁ for each ERV gene showing also the number of generations for each Bayesian inference.

Gene	Model comparison¹		Number of generations		2*log_eB₁₀^§
	M₀	M₁	M₀	M₁
pol	*1-HKY+Γ	⁺3-HKY+Γ	3,000,000	6,000,000	0.049
gag	*1-K80+Γ	⁺3-K80+Γ	8,000,000	13,000,000	0.033
env (class A)	*1-HKY+Γ	⁺3-HKY+Γ	3,000,000	10,000,000	-0.061
env (class B)	*1-K80	⁺3-K80	3,000,000	3,000,000	0.016
env (class E)	*1-HKY+Γ	*1-GTR+Γ	3,000,000	3,000,000	0.0025
	*1-HKY+Γ	⁺3-HKY+Γ	3,000,000	3,000,000	0.0014

^1. HKY = Hasegawa-Kishino-Yano model [78]; K80 = Kimura 2-parameter [79]; Γ = gamma distribution.
* 1 = one model for the whole gene.
⁺ 3 = partition of the data per codon position.
^§ Values represent twice the log_e of the Bayes factor (B₁₀) in the comparison of models M₀ and M₁ (2*log_e B₁₀). Positive values below 2 indicate no evidence against M₀ [71, 80]

ISSN: 2730-7182