Table 1. B19 genotype 1 nucleotide substitution rate.
Data seta | analyzed partitions (nt)b | Clock modelc | Log Marginal Likelihoodd | Nucleotide substitution rate (10−4 substitutions/site/year) | |
---|---|---|---|---|---|
Mean ± S.E. | HPD | ||||
cDNA | 665–4851 | Relaxed exponential | −17913 | ||
substitution model | TIM3 + I + G | Relaxed lognormal | −18250 | ||
Strict | −16535 | 1.03 ± 0.01 | 0.56–1.27 | ||
NS1 | 667–2631 | Relaxed exponential | −8935 | ||
substitution model | TIM3 + I + G | Relaxed lognormal | −8925 | ||
Strict | −7965 | 1.36 ± 0.01 | 0.73–1.75 | ||
VP1 | 2624–4851 | Relaxed exponential | −10604 | ||
substitution model | TIM3 + I + G | Relaxed lognormal | −10606 | ||
Strict | −9658 | 1.64 ± 0.01 | 1.00–2.00 | ||
uVP1 | 2624–3305 | Relaxed exponential | −3836 | ||
substitution model | TPM3 + I + G | Relaxed lognormal | −3837 | ||
Strict | −2847 | 1.11 ± 0.03 | 0.04–3.10 | ||
VP2 | 3305–4851 | Relaxed exponential | −8448 | ||
substitution model | TrN + I + G | Relaxed lognormal | −8476 | ||
Strict | −7486 | 2.32 ± 0.01 | 1.53–2.86 |
a131 isolates used in analyses listed in Table S1a.
bnumbered according to the reference sequence NC_000883.2.
ccoalescent tree prior for all analyses was Bayesian Skygrid.
dLog Marginal Likelihood obtained using Stepping Stone Sampling; Abbreviations: HPD - Highest Posterior Density interval contains 95% of posterior probability distribution of nucleotide substitution rate, S.E. – standard error of mean.