The Kimura K80 model with proportion of invariable sites was selected for OPA1-3 (base frequencies = equal; tratio = 1.47; proportion of variable sites = 0).
Odds ratio for HIV prevalence in young antenatal women 15-244 years) were computed in each quartile of the TI intensity districts for each successive year, taking 2001 as reference year, using generalized linear model with proportion of HIV positive women as the dependent variable with logit link and binomial distribution after adjusting for age, education, and place of residence (rural or urban).
A full model, with proportions specific to each site-time combination (S.T), gave an even lower AIC value, but the AIC difference between this and the S+T model was modest, indicating that the S+T model (Model D) provides an adequate description of the data on apparent prevalence.
The influenza effect for each age group was found to be statistically significant (p<0.05) in all the models, the only exception being the <1 age group in the identity-link Poisson models with proportion variables (Table 1).
Proportion explained variance was calculated according to Snijders and Bosker [ 13] by comparing the proportion unexplained variance in the full model with the proportion unexplained variance in a model with only random effects.
For each of the three studied genes, different models of evolution were selected by likelihood ratio tests: for COI, the Tamura-Nei model with a proportion of invariable sites and a gamma distribution was selected; for cytb, the Hasegawa-Kishino-Yano model with a gamma distribution was selected; for 28s rRNA, the Kimura 2-parameters model was selected.
The fatal crash involvement rate in each state-quarter was predicted from the fitted model with the proportion of renewals required to be in-person set to 1, and again with it set to 0, each time using the actual observed values of all other explanatory variables in each state-quarter.
The ML and NJ trees were built using the GTR model, with a proportion of invariable sites and Γ-distributed Γ-distributedsites.
The general time reversible (GTR) model with a proportion of invariant sites of 0.2559 and a gamma shape parameter of 0.4721 was determined to be most appropriate.
The mtDNA loci were best fit to a model with a proportion of invariant sites (I) and gamma distributed rate heterogeneity, whereas adora3 was best fit to a model with a proportion of invariant sites.
The beta&ω model (Nssites 8) adds an extra class of sites to the beta model, with a proportion of ω estimated from the data.
