Fig. 3

Impact of recombination rate on bootstrap supports. a Average bootstrap supports of the trees inferred with the core genomes of A. pittii simulated with different recombination rates (r/m). The trees and their bootstrap supports were inferred with RAxML. The blue dashed line represents the average bootstrap supports estimated across all the simulated trees of A. pittii. The blue solid line represents the average bootstrap support of the real tree of A. pittii. b Relationship between the average bootstrap supports of the trees of A. pittii simulated with various recombination rates and their tree topology score relative to the real tree of A. pittii