Fig. 6

A mis-assembly of the last exon of gene SLC35F2, in which Trinity assembled several truncated transcripts instead of the full exon (see “Measuring the confidence of a transcript in full-length transcriptome assemblers” section for details of each panel). a The three truncated short transcripts: c65590_g1_i1, c64_g1_i1, and c14482_g2_i1. b A schematic global view on how the last exon of gene SLC35F2 was assembled by Trinity and how the three next figures are connected in the full graph drawing. c A local visualisation of the truncation point between c65590_g1_i1 and c64_g1_i1 due to a simple repeat. d A local view of the region that traverses the repeat AluJo, and where the assembler has chosen to truncate the transcript c64_g1_i1. e A local view of the region that traverses the repeat AluSz, and where the assembler has chosen to truncate the transcript c14482_g2_i1