Figure 1. Selective advantages when the substitution is absent at the start of infection.

A) The selective advantage required to achieve 50% (black) prevalence of the adaptive substitution within the host after a certain number of days of infection in a situation where the substitution is not present in the infecting virus population (results for 10% and 90% shown in grey). B) The proportion of mutant observed after 3 (dark blue), 6 (blue), 9 (pink), 12 (red) and 15 (dark red) days of infection for a range of selective advantages. The grey bar indicates 50% prevalence.