Fig. 5: Analysis of putative sites of Rho termination and overlap with intrinsic termination.

A C:G ratio of sequences surrounding predicted Rho termination sites. Nucleotide proportions were calculated by scanning 600 nt upstream and downstream of Rho regions identified in both replicates (Supplementary Data 4) using 25 nt windows. Plotted values represent the average ratios for all 1864 regions (blue), (937 for replicate 1 and 954 for replicate 2). Control plot (gray) represents average C:G ratios calculated in the same manner for 1864 random B. burgdorferi B31 genomic positions. B Comparison of annotated ORFs with Rho termination regions within or up to 800 bp downstream of their coding sequence to annotated ORFs with a primary or internal 3′ end with a significant intrinsic termination score. RNA-seq browser image (left) and northern analysis (right) for identified Rho regions and putative intrinsic terminators downstream of the (C) manA mRNA and (D) ospD mRNA. Browser images display ±BCM-seq and 3′RNA-seq reads as in Fig. 4. Northern analysis was performed on the same blot from Fig. 4 (RNAs were probed sequentially on the same membrane). The 5S blot in panel D was repeated from Fig. 4C/E. Putative terminator structures, modeled from the predicted hairpin structure for the manA and ospD 3′ end sequence (Supplementary Data 1) are displayed with the corresponding intrinsic termination score.