Figure 2

Populating PME set. The comparison between RefSeq and YPS128 (right part) finds a putative conservation of a Ty2 element and a putative deletion of a Ty1 element, therefore marked as PME. By means of this comparison alone, the Ty2 has not been recognized as PME. The subsequent comparison between RefSeq and Y55 (left part), where both the Tys have moved, leads to the marking of both these regions as PMEs, thus correctly detecting all the already known Ty elements in this region.