Comparison of sRNA gene predictions obtained using sRNAscanner and sRNAPredict2.

aComplete lists of non-coding sRNA (including cis-regulatory & leader RNA) for the selected genomes were obtained from the Rfam database [34] which excludes tRNA and rRNA. Additional known sRNAs collated from the sRNAMap database [1] were also included in the lists.
bNumber of known and novel sRNA genes predicted using the following strategies: (1) sRNAscanner, (2) sRNAPredict2, (3) Predicted by BOTH sRNAscanner AND sRNAPredict2, (4) Predicted UNIQUELY by sRNAscanner and NOT by sRNAPredict2, (5) Predicted UNIQUELY by sRNAPredict2 and NOT by sRNAscanner. The sRNAscanner predictions were performed using the selected CSS cut-off (CSS>14).
*The sRNAPredict2 data shown for 11 genomes were reproduced from Livny et al., 2006 [20].
$K-12 and LT2 were newly analysed in this study using the latest version of sRNAPredict2 with the default parameters and blast partners described by Livny et al., 2006 [20].