Table 2. Gibbs Analysis of Modules 5 and 6.
| Fur Binding Sites in Module 5 | ||||||
|---|---|---|---|---|---|---|
| Motif | Motif Start Site* | Motif Stop Site** | Upstream Gene*** | Downstream Gene | Probability | Motif Identified in RegPrecise+ |
| 1 | 902085 | 902103 | futC A0871; Iron transport | ybeB A0872; Translation | 0.97 | Yes |
| 2 | 1946476 | 1946494 | A1857; Transport | A1858; Unknown | 0.81 | No |
| 3 | 2613428 | 2613446 | dprA A2506; DNA uptake | futA1 A2507; Iron transporter | 0.78 | No |
| 4++ | 2792428 | 2792446 | A2659; Unknown | A2660; Multicopper oxidase | 0.97 | No |
| 5++ | 2793956 | 2793974 | bfd A2661; Iron homeostasis | bfr A2663; Iron homeostasis | 0.95 | No |
| 6 | 7367 | 7385 | G0007; Iron Homeostasis | G0008; Unknown | 0.77 | No |
| 7 | 102222 | 102240 | tonB G0090; Transport | fecB G0091; Iron homeostasis | 0.90 | Yes |
| 8 | 112330 | 112348 | G0099; AraC Regulator | G0100; Transport | 0.62 | Yes |
| 9 | 119454 | 119472 | pchR G0104; Iron homeostasis | G0105; Unknown | 0.96 | Yes |
| 10 | 157500 | 157518 | exbB G0137; Transport | schT G0138; Iron homeostasis | 0.59 | Yes |
| 11 | 157651 | 157669 | exbB G0137; Transport | schT G0138; Iron homeostasis | 0.69 | Yes |
| 12 | 157686 | 157704 | exbB G0137; Transport | schT G0138; Iron homeostasis | 0.97 | Yes |
| CcmR Binding Sites in Module 6 | ||||||
| Motif | Motif Start Site | Motif Stop Site | Upstream Gene | Downstream Gene | Probability | Motif Identified in RegPrecise |
| 1 | 178199 | 178220 | A0170; Unknown | ccmR A0171; Regulator | 0.99 | Yes |
| 2 | 178231 | 178252 | A0170; Unknown | ccmR A0171; Regulator | 0.99 | Yes |
| 3 | 502490 | 502511 | sbtA A0470; Transport | A0471; Unknown | 0.98 | Yes |
| 4 | 503129 | 503150 | sbtA A0470; Transport | A0471; Unknown | 1 | Yes |
| 5 | 503544 | 503565 | A0471; Unknown | sbtB A0472; Unknown | 0.8 | Yes |
| 6 | 503576 | 503597 | A0471; Unknown | sbtB A0472; Unknown | 0.94 | Yes |
| 7 | 503615 | 503636 | A0471; Unknown | sbtB A0472; Unknown | 0.59 | Yes |
| 8 | 2370407 | 2370428 | A2287; Unknown | A2288; Unknown | 0.98 | No |
| 9 | 2370439 | 2370460 | A2287; Unknown | A2288; Unknown | 0.99 | No |
| 10 | 2452657 | 2452678 | mltA A2370; Metabolism | bicA A2371; Transport | 1 | Yes |
| 11 | 2452707 | 2452728 | mltA A2370; Metabolism | bicA A2371; Transport | 1 | Yes |
| 12 | 11474 | 11495 | G0009; Unknown | G0010; Unknown | 0.97 | No |
| 13 | 11506 | 11527 | G0009; Unknown | G0010; Unknown | 0.85 | No |
| 14 | 14517 | 14538 | porB G0011; Transport | pacL G0012; Transport | 0.83 | Yes |
| 15 | 14549 | 14570 | porB G0011; Transport | pacL G0012; Transport | 0.77 | Yes |
*Genomic location of the motif start site is shown.
**Genomic location of the motif stop site is shown.
***Gene names are indicated along with locus tags (‘SYNPCC7002_’ has been removed for ease of viewing) and functional roles.
+Genes in bold are those with motif sites identified in this study that had not previously been associated with the regulator under analysis.
++At the time of analysis these motifs were within intergenic regions, they now overlap slightly with annotated ORFs.