Fig. 11

The mapping profiles for ICAM4 (intercellular adhesion molecule 4) in Replicate PFE1. The gene ICAM4 is on the “+” strand, and 100 % contained within CTD-2369P2.8 in the “−“ strand. In non-stranded RNA-seq, the ambiguous reads in overlapping regions are excluded from counting, which explains why there is no expression for ICAM4. However, the ambiguous reads can be perfectly resolved in stranded RNA-seq. By considering the read direction, all reads can be counted to ICAM4 because they are reverse complementary to ICAM4, but not CTD-2369P2.8