Figure 2.

A "dot-plot" style view of a subregion of the otx comparison (see Figure 1). The top sequence is a zoomed-in view of the otx genomic region from S. purpuratus, as in Figure 1; the region runs from 119.6 kb to 133.0 kb. The side sequence is a zoomed-in view of the orthologous region from L. variegatus, running from 38.5 kb to 51.5 kb. The region surrounding the first exon (in red) of the sp α-otx transcript is selected on the top (S. purpuratus) sequence, and the corresponding TBLASTX matches are highlighted on the left (L. variegatus) sequence in blue. The selection box in the center of the view contains the paircomp matches in this region, showing only 20 bp matches that match at 19/20 or 20/20 (corresponding to a 95% threshold). A closeup view of this region, showing the DNA sequence of the two regions with the corresponding matches, is shown in Figure 3.