| Name | Ab Precip | PE Conf | Guide Box | Target RNA | Target Position | Match/Mismatch | Notes |
| sR1 | F | + | D | 16S | U52 | 11/0 | CDP,Mod |
| sR2 | F | + | D | 23S | C1914 | 11/0 | CDP |
| sR3 | F | + | D | 23S | G2739 | 10/0 | No Pause |
| sR4 | N | + | D | 23S | G1995 | 10/0 | |
| sR5 | F,N | + | D | 16S | G1056 | 12/0 | CDP,Mod |
| sR6 | F | + | D | 23S | G2666 | 9/1 | |
| sR7 | F | + | D' | 23S | G2649 | 9/0 | CDP |
| D | 23S | U2692 | 10/0 | No Pause | |||
| sR8 | N | + | D' | 23S | U2972 | 9/1 | |
| D | 23S | G334 | 12/1 | ||||
| sR9 | F | + | D' | 16S | G926 | 8/0 | |
| sR10 | F | + | D' | tRNA Gly-CCC | C50 | 12/0 | |
| D | 23S | C2539 | 9/0 | ||||
| sR11 | F | + | D' | 23S | A2618 | 10/2 | |
| sR12 | F | + | D' | 23S | G1114 | 11/0 | No Pause |
| D | 23S | A1134 | 10/1 | CDP | |||
| sR13 | N | + | D' | 23S | G385 | 10/1 | |
| D | 23S | C2746 | 10/0 | CDP | |||
| sR14 | F,N | + | D | tRNA Gln-UUG | U34 | 10/0 | |
| sR15 | F | + | ?? | ||||
| sR16 | N | + | ?? | ||||
| sR17 | F | + | ?? | ||||
| sR18 | F,N | D' | 23S | G140 | 9/1 | ||
| sR19 | D | 16S | G672 | 9/1 | |||
| sR20 | D' | 23S | C2065 | 11/0 | |||
| sR21 | ?? | ||||||
| sR22 | D' | 23S | C2916 | 11/0 | |||
| D | 23S | U2893 | 10/0 | ||||
| D | 16S | U1310 | 10/1 | ||||
| sR23 | ?? | ||||||
| sR24 | ?? | ||||||
| sR25 | ?? | ||||||
| sR26 | ?? | ||||||
| sR27 | ?? | ||||||
| sR28 | D | 23S | C473 | 10/0 | |||
| sR29 | ?? |
Ab Precip: the precipitations from which the respective sRNAs
were recovered: F, antibody to aFIB; N, antibody to aNOP56. PE Conf:
the presence of the sRNA in total cellular RNA was verified by primer extension.
Guide
Box: the position of the guide within the sRNA (D or D' box associated).
Target RNA: predicted target of methylation. Target Position:
predicted nucleotide postion of methylation. Match/Mismatch: the
number of Watson-Crick and G-U matches / mismatches within the sRNA-target
RNA duplex. Notes: "CDP", dNTP concentration-dependent primer extension
pause observed at the predicted site of methylation, indicating a likely
2'-O-ribose methyl; "No Pause", no pause was detected at either high or
low dNTP concentrations; "Mod", known site of nucleotide modification of
unknown type in S. acidocaldarius 16S rRNA. Guides without notation
were not experimentally examined.