FIG 3.

Hfq binding site and motif distribution in the coding and noncoding regions. (A) Peak length distribution of CLIP-seq and RNA-seq experiments. (B) Bar plot showing the percentage of intergenic and antisense peaks in RNA-seq, CLIP-seq, and strong Hfq-bound peaks. The P values (Fisher’s exact test) are shown to illustrate the enrichment of peaks in the antisense and intergenic regions. (C) U₆ stretch frequency and position in three classes of peaks, including all CLIP-seq peaks, all RNA-seq peaks, and strong Hfq-bound peaks. Presentation was separated by intergenic (left) and genic (right) regions. (D) Motif distribution along the Hfq-bound mRNAs (left), all mRNAs of Y. pestis (middle), and in all mRNAs of E. coli (right).