Fig. 2.

PAVFinder detects both (a) structural rearrangements and (b) novel splicing variants. Numbers indicate reference transcript exon numbers. Dotted red lines represent novel adjacencies (joining between non-adjacent transcript sequences) and red blocks represent novel sequences. For splicing variants, canonical splice site motifs are indicated as they are checked for calling potential novel splicing events. Dotted vertical lines depict algorithm for detecting novel splicing variants by aligning contig sequences against annotated gene model