A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti

BMC Genomics

Table 3 Blast search results

E-value 7e-15 und target length >= 0.7 * query length
tax_group	known	cis-encoded antisense sRNA	cis-encoded mRNA leader	ORF	sense sRNA	trans-encoded sRNA
Sinorhizobium meliloti	n	103	385	8	462	203
Sinorhizobium meliloti	n	2	38	1	75	13
Sinorhizobium meliloti	y	7	39	0	134	15
Sinorhizobium	n	52	306	7	332	94
Sinorhizobium	y	2	7	0	295	0
Sinorhizobium/EnsiferGroup	n	0	0	0	0	0
Sinorhizobium/EnsiferGroup	y	0	0	0	72	0
Rhizobiaceae	n	105	604	15	1099	191
Rhizobiaceae	y	1	42	1	915	18
Rhizobiales	n	104	290	4	1538	242
Rhizobiales	y	6	145	0	1433	3
Alphaproteobacteria	n	10	47	2	696	9
Alphaproteobacteria	y	1	0	0	39	0
		0.059	0.15	0.03	0.44	0.061
Gammaproteobacteria	n	0	30	0	726	0
Gammaproteobacteria	y	0	0	0	225	0
Betaproteobacteria	n	6	27	3	881	0
Betaproteobacteria	y	0	0	0	556	0
delta/epsilonSubdivisions	n	0	3	0	228	0
delta/epsilonSubdivisions	y	0	0	0	212	0
unclassified Proteobacteria	n	0	0	0	2	0
unclassified Proteobacteria	y	0	0	0	1	0
Bacteria	n	0	6	0	610	0
Bacteria	y	0	0	0	442	0
other	n	1	6	0	105	3
other	y	1	32	0	592	3

Results of the BLAST search with sRNA trancripts against sequence databases with an E-value cut-off 7e-15 and the requirement that the hit covers at least 70% of the query are shown. Hits are classified as known (marked y in the "known"column) if annotation information is associated with the database sequence. Hit counts are given in taxonomic order. Hits to the taxonomic group do not include the hits to the subgroup which is listed above it. For the alpha-proteobacteria (including all subgroups), the percentage of "known" versus "unknown" hits for each class of transcript is listed. y, known; n, unknown.

ISSN: 1471-2164