Table 2. Position, characteristics and potentially affected genes by significantly large SSR in the CWL029 strain of C.pneumoniae, as well as the corresponding element in the two other strains.
| Position | SSR | Genes involved | J138 | AR39 |
|---|---|---|---|---|
| 10806 | C14 | Upstream of CPn0008 (UFO) | C14 | C14 |
| 13350 | C14 | Upstream of CPn0010 (UFO) | C13 | C11 |
| 20588 | C14 | pmp_2 | C13 | C14 |
| 58474 | C14 | CPn0043 (UFO) | C14 | C14 |
| 85336 | C14 | CPn0069 (UFO) | C9 | C9a |
| 507200 | G13 | pmp_10.2 | G14 | G13 |
| 1207061 | C13 | CPn1054 (UFO) | C12 | C11 |
| 1209609 | C12 | Upstream of CPn1055 (UFO) | C15 | C16 |
| 607260 | CGT4 + CG | CPn0525 (UFO) | CGT4 + CG | CGT4 + CG |
| 628400 | CAC4 + AC | CPn0542 (ABC transporter) | CAC4 + AC | CAC4 + AC |
| 956212 | GAA5 | yphC (GTPase) | GAA5 | GAA5 |
| 1150530 | CCT4 + CC | ftsH (protease) | CCT4 + CC | CCT4 + CC |
| 258158 | ATGCT3 | ypdP (UFO) | ATGCT3 | ATGCT3 |
| 396387 | TTTCT3 | CPn0352 (UFO) | TTTCT3 | TTTCT3 |
| 407929 | TAATT3 | Upstream of rpsD (sigma factor) | TAATT3 | TAATT3 |
| 1085124 | GCAGCT3 | glgA (glycogen synthase) | GCAGCT3 | GCAGCT3 |
| 492298 | GCAACA3 | pmp_6 | GCAACA3 | GCAACA3 |
The trinucleotide SSRs correspond to repeated codons. Since sometimes these elements end by a partial repeat we indicate this in subscript.
aIn the strain AR39 the gene is annotated as starting further downstream. As a consequence, the stretch of Cs is in the intergenic region.