mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| JC | 1,673,557 | Δ120 bp | intergenic (‑56/‑237) | mdtJ ← / → tqsA | multidrug efflux system transporter/pheromone AI‑2 transporter |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423678–3424234 | 3424603–3424238 | 5–926 | 256 [253] | [253] 256 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 689045 | NA (NA) | 224 (0.540) | 151/300 | 2.7 | 49.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 889534 = | 230 (0.560) | coding (286/1686 nt) | ybjL | putative transporter | |||||
| * | ? | NC_000913 | 1207790 = | 64 (0.160) | 292 (0.790) | 171/268 | 0.4 | 86.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 38 (0.100) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 66 (0.160) | 303 (0.820) | 172/268 | 0.4 | 86.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 38 (0.100) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 454 (1.130) | 236/292 | 0.0 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 248 (0.600) | 148/300 | 3.0 | 50.4% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2413609 | 244 (0.590) | coding (140/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | = 3395691 | 226 (0.550) | 233 (0.570) | 157/298 | 2.1 | 51.3% | coding (568/3801 nt) | yhdP | DUF3971‑AsmA2 domains protein |
| ? | NC_000913 | 3395697 = | 218 (0.530) | coding (562/3801 nt) | yhdP | DUF3971‑AsmA2 domains protein | |||||