Figure 1.

Annotation of TSSs. (A) TSSs were defined as primary (P), secondary (S) or internal (I). Primary TSSs were identified by higher read counts relative to secondary TSSs. Internal TSSs were located within the coding region (CDR) of a gene where a TSS was annotated for the gene immediately upstream. Primary and secondary internal TSSs (P,I and S,I respectively) were located within the CDR of a gene where there were no TSSs annotated for the gene immediately downstream. (B) Pie chart showing percentage distribution of TSSs within the S. Typhimurium transcriptome.