Table 3. Additional terms referred to in the text.

Symbol	Description
F	The set of pairs which have for at least one epitope i, then a vaccinated host of type h who has virus type v, such that , is successfully vaccinated, i.e. they restrict at least one epitope they are vaccinated against and that epitope has no escape mutations. By contrast, a vaccinated host with is unsuccessfully vaccinated and has the same properties as an unvaccinated infected host.
	The unit vector of length n that has ith coordinate equal to 1, e.g.
	The Kronecker delta:
	The basic reproductive number. The expected number of secondary cases caused by one primary case in a wholly susceptible population. In this model framework .
	The control reproductive number. The expected number of secondary cases caused by one primary case in a wholly uninfected population under a control strategy.
	Lifetime transmission potential of a successfully vaccinated host. In this model framework .
	Lifetime transmission potential of an unvaccinated or unsuccessfully vaccinated host. .
K	The next generation matrix