Figure 4
From: SpliceJumper: a classification-based approach for calling splicing junctions from RNA-seq data
Sequence reads from 3,032,644 to 3,036,223 on chromosome 11 of simulated Test1 dataset. A benchmarked splicing junction from 3,033,210 to 3,035,657 (connected by dash lines) is called out by SpliceJumper, but missed by both TopHat2 and MapSplice2. 1-9 are nine splicing sites. A, B, and C are three split-mapped reads (only mapped part shown) that are clipped at splicing site 8, and the clipped segment can be aligned at site 1. D is clipped at splicing site 1. The clipped segment can be mapped at site 8. A, B, C, and D and their mate reads form four discordant pairs encompassing splicing site 1 and site 8.