mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 99,891 | C→T | A83V (GCC→GTC) | murG → | N‑acetylglucosaminyl transferase |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| JC JC | 771,258 | IS5 (–) +4 bp | intergenic (+647/‑197) | mngB → / → cydA | alpha‑mannosidase/cytochrome d terminal oxidase, subunit I |
| MC JC | 1,299,499 | Δ1,199 bp | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,354,761 | G→T | A237E (GCG→GAG) | sapB ← | antimicrobial peptide transport ABC transporter permease |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,025,248 | +TC | intergenic (+35/‑263) | yodD → / → yedP | uncharacterized protein/putative mannosyl‑3‑phosphoglycerate phosphatase |
| 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 |
| JC JC | 2,312,877 | IS5 (+) +4 bp | intergenic (‑128/‑608) | ompC ← / → rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| MC JC | 2,916,392 | Δ12 bp | coding (1336‑1347/2757 nt) | barA → | hybrid sensory histidine kinase, in two‑component regulatory system with UvrY |
| RA | 3,440,923 | C→T | G36D (GGC→GAC) | rpoA ← | RNA polymerase, alpha subunit |
| 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 | 3423748–3424234 | 3424567–3424238 | 5–820 | 29 [28] | [28] 29 | [rrfD]–[rrlD] | [rrfD], [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 4 (0.060) | 48 (0.820) | 40/266 | 0.8 | 91.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 5 (0.080) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 4 (0.060) | 60 (1.020) | 51/266 | 0.2 | 93.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 5 (0.080) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||