Table 3.

Efficiency of the in silico process for predicting previously known sRNAs in six bacterial species

Gram	Strains	Total known sRNAs	sRNA genes in IGR		asRNA genes in CDS
			Known sRNA with RIT	Success (%)	Known asRNA with RITa	Success (%)b
−	E. coli MG1655	101	60	86.7	5	60
−	S. typhimurium LT2	79	51	70.6	0	NA
−	V. cholerae O1	40	31	90.4	9	55.5
−	P. aeruginosa PAO1	24	24	66.7	0	NA
+	S. aureus N315	55	38	76.3	1	100
+	L. monocytogenes EGD-e	50	27	29.6	10	70

^aThe RITs of the published asRNA genes were not characterized by authors.

The efficiency of sRNAs prediction was calculated from data for bona fide sRNA genes. Only sRNAs that had been experimentally validated by Northern blots, 5′ RACE and RT–PCR were taken into account. We excluded unconfirmed sRNAs from RNA-seq or tiling microarray data and 5′ or 3′ UTRs from mRNAs.

^bNA, Not Applicable.