Fig. 5

Expression of false-CRISPRs found in S. aureus. The expression level of the elements was measured by reads per 25 bp per million total reads and the x-axis shows the position along the S. aureus 8325 genome in NCTC8325-4 (red line), RN4220-pRMC2 (black line) and RN4220-pRMC2-gp67 (blue line) cells. a The short CRISPR-like element, which was reported as a “CRISPR” in [32]. b The CRISPR-like element having overlap with a protein-coding gene is predicted to be tandem repeats. The regions containing STAR-like elements are represented by green lines. To evaluate the expression level of false-CRISPRs, we used TopHat2 [55] with default parameters to align the single-end reads, which were downloaded from NCBI SRA (http://www.ncbi.nlm.nih.gov/sra/; the accession number is SRP027410), to the S. aureus NCTC8325 genome