Fig. 2.

Neighbor-joining phylogenetic tree inferred from the analysis of 29 Galileo copies found in the D. mojavensis genome. The two TIRs of each copy were included in the tree as separate sequences to allow their comparison within and between copies. TIRa is the TIR located at 5′ from the TPase or the first TIR that appears in the contig if the copy could not be oriented. The complete deletion option was used leaving 269 informative sites. Bootstrap values at main nodes are shown. The average pairwise divergence between groups D and E is ≈25%, indicating a divergence time of ≈8 myr, and the average pairwise divergence between these two groups and groups C and F is ≈32%, implying a divergence time of ≈10 myr. The putative chimeric elements with highly divergent TIRs are marked with an arrow. Details of these Galileo copies are given in SI Tables 4 and 5.