Figure 3.

Relationship between Gubbins analysis times and number of sequences in alignment (n_seq). The time taken for the analysis of alignments containing different numbers of simulated sequences are shown when using RAxML for constructing the phylogeny at each iteration (solid line), using FastTree 2 for constructing the phylogeny at each iteration (dashed line), or a hybrid approach that uses FastTree 2 in the first iteration and RAxML for all subsequent iterations (dotted line). The formulae for each of the best fit trend lines are displayed.