Calculation of optimal recombination rates from a retroviral reporter system (Rhodes et al. 2005).

The optimal recombination rate can be calculated using equation (A) and substituting 4M for R(L), where M is the fluorescent protein MOI divided by the infection MOI (equal to the probability of a single infection event creating a fluorescent protein expressing cell). Recombination rates are similar when measured over varying genomic distances illustrating how our analytical recombination rate calculation calculates the optimal recombination rate regardless of the genomic distance over which recombination is measured.