Fig. 2.

Types of mismatches in gene models detected after alignment of directional cDNA sequences to the YM genome sequences. a Alternatively-spliced introns at 5′ UTR; b an intron at the 3′ UTR; c an intron within coding region; d an intron smaller than the one predicted, possibly an alternatively-spliced intron, too; e overlapping transcripts in two neighboring genes; f a putative new transcript with an intron. The figures are images from Integrative Genomics Viewer (IGV). Purple sense reads; pink antisense reads. The blue bars are predicted gene models from the Plasmodium y. yoelii YM genome