Modeling gene sequences over time in 2009 H1N1 Influenza A Virus populations

Table 1 Bayesian coalescent inference of full-length NA sequences from 2009 H1N1 Influenza A virus strains.

Group	Parameter	Value^a	HPD^b	ESS^c
62 NA sequences	Log likelihood	-2601.35	-2616.89 to -2586.07	1401.12
	Mean Rate^d	7.84 × 10^-3	7.59 × 10^-3 to 1.43 × 10^-2	126.75
	Codon 1^e	0.97	0.67 to 0.95	29387.19
	Codon 2	0.51	0.25 to 0.79	40307.00
	Codon 3	1.51	1.17 to 1.86	26291.08
	Expansion Growth Rate^f	66.43	0.38 to 503.70	206.45
	Root age (days)	324.99	130.84 to 644.01	163.42
	MRCA^g	August 17^th, 2008	September 27^th, 2007 to March 9^th, 2009.

^aIn all cases, the mean values are shown. ^b HPD, high probability density values. ^c ESS, effective sample size. ^d Mean rate was calculated in substitutions/site/day and transformed to substitution/site/year. ^e Contribution of each codon position to the mean rate. ^f Expansion Growth Rate was calculated in number of new infections/individual/day and transformed to number of new infections/individual/year. ^g MRCA, day of the Most Common Recent Ancestor.

ISSN: 1743-422X