mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 1,130,375 | T→C | 10.2% | K163K (AAA→AAG) | flgA ← | assembly protein for flagellar basal‑body periplasmic P ring |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,643,967 | C→G | 18.2% | G113A (GGC→GCC) | ydfU ← | Qin prophage; uncharacterized protein |
| RA | 1,690,814 | G→A | 12.9% | L321L (CTG→CTA) | ydgA → | DUF945 family protein |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,085,352 | C→G | 15.4% | A58A (GCG→GCC) | yeeE ← | UPF0394 family inner membrane protein |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,394,585 | T→C | 11.5% | I154V (ATC→GTC) | nuoL ← | NADH:ubiquinone oxidoreductase, membrane subunit L |
| RA | 2,834,598 | C→T | 10.0% | A230V (GCG→GTG) | norW → | NADH:flavorubredoxin oxidoreductase |
| RA | 3,674,690 | G→T | 8.8% | intergenic (+316/‑95) | yhjD → / → yhjE | inner membrane putative BrbK family alternate lipid exporter/putative MFS transporter; membrane protein |
| RA | 4,117,038 | C→A | 100% | V62L (GTA→TTA) | glpK ← | glycerol kinase |
| RA | 4,153,446 | A→G | 10.5% | intergenic (‑349/+249) | ppc ← / ← argE | phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
| RA | 4,586,255 | C→A | 8.8% | A170S (GCG→TCG) | hsdR ← | endonuclease R Type I restriction enzyme |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 366256 | 366356 | 101 | 7 [6] | [6] 7 | [lacZ] | [lacZ] |
| * | * | ÷ | NC_000913 | 3423788–3424517 | 3424517 | 1–730 | 7 [6] | [5] 8 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 11 (0.280) | 10 (0.290) | 6/244 | NT | 46.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 13 (0.380) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 11 (0.280) | 20 (0.580) | 20/244 | NT | 63.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 13 (0.380) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 2785546 = | 15 (0.390) | 3 (0.080) | 3/268 | NT | 17.4% | intergenic (‑537/+214) | ypjC/ileY | pseudogene/tRNA‑Ile |
| ? | NC_000913 | 2785568 = | 14 (0.370) | intergenic (‑559/+192) | ypjC/ileY | pseudogene/tRNA‑Ile | |||||
| * | ? | NC_000913 | = 4542691 | 31 (0.800) | 6 (0.170) | 3/258 | NT | 15.4% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542987 | 37 (1.020) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||