Figure 2

The three stages of the GeneMapper pipeline. (a) The first stage, in which only the most conserved exons are mapped. (b) The second stage, in which the algorithm uses exons mapped in the first stage as signposts to map already mapped exons. In this example, the possible locations of the second and third exons are narrowed down because they must be between the first and fourth exons. (c) The last stage, in which the algorithm searches for cases of exon splitting and exon fusion.