Figure 3

Evolutionary relationship of trypanosomatid degenerated retroposons. Minimal evolution phylogeny of the most probable sequence emitted from the HMM profile of degenerated retroposon classes (SIDER1 and 2 subfamilies, Lm DIRE and Tb SIDER). The phylogeny was based on maximum composite likelihood, assuming a heterogeneous substitution rate among lineages and completing deletions. Numbers represent bootstrap values, expressed as percentage, after 2000 replications and the Tb SIDER sequence was used to root the tree.