Figure 2.

Mapping reads from a genome containing a polymorphic intron deletion to a reference genome. As in Figure 1, the black line at the top represents a chromosome in a sample genome, the bottom line represents the chromosome in the reference genome, gray boxes represent exons, and short bars represent reads. Note that no reads are mapped to the intron that is deleted in the sample chromosome but present in the reference genome. Also note that the reads crossing the single exon–exon boundary in the sample chromosome are not mapped to the reference genome.