Figure 4

Core set tree of A. dirus mosquitoes and evolutionary simulation of this tree. (a) The black lines represent branches for the global core set (71 haplotypes), which satisfies the orthogonality perfectly. The global core set was decomposed into nine groups (the vertical bold lines). Here, each group had the 29th haplotype in common. The blue lines denote the 35 haplotypes of the local P-core set, while the red lines show the 58 haplotypes of the local S-core set. The remaining 34 haplotypes were excluded because of the shared-site uncertainty explained in Fig. 7. (b) We simulated a Markov process of sequence evolution, which resulted in the same phylogenetic tree as the core-set tree (a). Application of the core set approach to a set of the terminal sequences retained 154 sequences of the whole 164 sequences as the global core-set member without requiring any local core-set trees. The obtained node sequences were perfectly identical to the true ones. The global core set produced a unique MP tree. The inclusion of the remaining 10 sequences allowed MP to propose a number of topologies (804).