Genome-Wide Survey for Biologically Functional Pseudogenes
Figure 4
Visualization of the Effect of Mutual-Best-Hit Filtering
The tree shows the evolutionary history for a sequence set associated with the ATXN7L3 orthologous proteins. We have here found two potentially pseudogenic sequences in each species and this gives us a total of four quartets to investigate; the gene-sequence pair together with any human–mouse combination of the pseudogenes. It is unlikely that the human chrX pseudogene is closely related to any of the mouse ones and therefore any quartet including the sequence from the X chromosome should be of limited interest. If we pair a particular human pseudogene only with the most similar mouse pseudogene (and vice versa), the sole remaining example is the human chr12–mouse chr10 pair.