Table 1. Candidate sRNAs from Agrobacterium predicted based on RNA folding.
| ID of short RNA sequence | GenBank accession number of matched gene | Matched gene name | Number of hits | Strand | Start of short RNA | End of short RNA | Mismatch | Number of reads | Region | Start of candidate sRNA | End of candidate sRNA | Size of candidate sRNA (nt) |
| 1165572 | X82941.1 | A.radiobacter rosAR gene | 1 | + | 74 | 94 | A->16G40 | 1 | 5′flanking | 4 | 164 | 161 |
| 1076360 | AB247620.1 | Agrobacterium vitis genes for 16S rRNA | 21 | + | 2166 | 2184 | 5 | intergenic | 2096 | 2254 | 159 | |
| 1101007 | U59485.2 | Agrobacterium tumefaciens AtrC | 1 | + | 28379 | 28396 | 2 | intergenic | 28309 | 28466 | 158 | |
| 1101886 | U59485.2 | Agrobacterium tumefaciens AtrC | 1 | + | 27924 | 27941 | 11 | intergenic | 27854 | 28011 | 158 | |
| 1412534 | AF010180.1 | Agrobacterium tumefaciens plasmid pTiC58 TraI region | 1 | - | 151 | 171 | G->21A3 | 1 | 5′UTR | 81 | 241 | 161 |
| 1871124 | AB102735.2 | Agrobacterium tumefaciens rrnD operon genes for 16S rRNA | 3 | + | 86 | 104 | 470 | 5′flanking | 16 | 175 | 160 | |
| 1956060 | AY027490.1 | Agrobacterium tumefaciens ChvD gene | 1 | + | 2556 | 2573 | 4 | 3′UTR | 2486 | 2643 | 158 | |
| 333768 | CS573987.1 | Sequence 1 from Patent WO2007030432 | 1 | + | 6398 | 6416 | T->1A40 | 25 | unknown | 6328 | 6486 | 159 |
| 880854 | BD224018.1 | Gene switch | 2 | + | 155 | 174 | 1 | unknown | 85 | 244 | 160 | |
| 1167533 | X96435.1 | A.tumefaciens flaA | 3 | + | 1242 | 1260 | 2269 | intergenic | 1240 | 1395 | 156 | |
| 473095 | NC_003064.2 | Agrobacterium tumefaciens str. C58 plasmid At | 3 | - | 2483 | 2501 | 28 | intergenic | 2413 | 2584 | 172 | |
| 1010101 | AB247613.1 | Agrobacterium tumefaciens genes for 16S rRNA | 8 | + | 2265 | 2282 | T->3C40 | 2 | intergenic | 2195 | 2370 | 176 |
| 583983 | X69388.1 | A.tumefaciens sigA gene for vegetative sigma factor | 1 | + | 588 | 608 | 2 | 5′flanking | 518 | 686 | 169 | |
| 345524 | Y13942.1 | Agrobacterium radiobacter genomic DNA for glycerol trinitrate reductase | 1 | + | 387 | 404 | 1 | 5′flanking | 317 | 494 | 178 | |
| 1055788 | DJ043962.1 | Methods for enhancing abiotic stress tolerance in plants and compositions thereof | 2 | + | 10 | 27 | 10 | unknown | 1 | 148 | 148 | |
| 763581 | AF065246.1 | Agrobacterium tumefaciens strain Chry5 plasmid pTiChry5 scl pseudogene | 1 | - | 3173 | 3190 | 3 | intergenic | 3103 | 3260 | 158 |
Number of hits: total number of matches found for short RNA sequence