mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 49,791 | G→A | intergenic (+160/‑32) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 1,902,968 | Δ1 bp | coding (56/144 nt) | mgrB ← | PhoP/PhoQ regulator MgrB |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 3,754,231 | G→T | R127S (CGC→AGC) | selA ← | L‑seryl‑tRNA(Sec) selenium transferase |
| RA | 4,458,295 | T→G | I285S (ATC→AGC) | mgtA → | magnesium‑translocating P‑type ATPase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356981 | 357572 | 592 | 2 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 993127 | 993189 | 63 | 2 [0] | [0] 2 | ssuE/elfA | NADPH‑dependent FMN reductase/fimbrial protein |
| * | * | ÷ | NZ_CP009273 | 1540355 | 1540419 | 65 | 2 [1] | [1] 2 | yddL/yddG | porin/aromatic amino acid efflux DMT transporter YddG |
| * | * | ÷ | NZ_CP009273 | 1580944 | 1580963 | 20 | 2 [1] | [0] 2 | ydeP/ydeQ | acid resistance putative oxidoreductase YdeP/fimbrial protein |
| * | * | ÷ | NZ_CP009273 | 1888067 | 1888115 | 49 | 3 [1] | [1] 2 | yoaB/yoaC | RidA family protein/DUF1889 family protein |
| * | * | ÷ | NZ_CP009273 | 2050181 | 2050215 | 35 | 2 [1] | [0] 2 | amn/yeeN | AMP nucleosidase/YebC/PmpR family DNA‑binding transcriptional regulator |
| * | * | ÷ | NZ_CP009273 | 2051460 | 2051480 | 21 | 3 [1] | [0] 2 | yeeN/BW25113_RS10360 | YebC/PmpR family DNA‑binding transcriptional regulator/tRNA‑Asn |
| * | * | ÷ | NZ_CP009273 | 3354476 | 3354479 | 4 | 3 [0] | [0] 2 | gltD/gltF | glutamate synthase subunit GltD/DUF1120 domain‑containing protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 15391 = | NA (NA) | 22 (0.940) | 18/158 | 0.2 | 85.2% | intergenic (+93/‑54) | dnaJ/BW25113_RS00080 | molecular chaperone DnaJ/IS4‑like element IS421 family transposase |
| ? | NZ_CP009273 | = 454255 | 4 (0.160) | intergenic (+99/‑89) | clpX/lon | ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La | |||||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 43 (1.750) | 23/166 | 0.1 | NA | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | NA (NA) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 454243 = | 11 (0.450) | 33 (1.390) | 19/160 | 0.2 | 75.7% | intergenic (+87/‑101) | clpX/lon | ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La |
| ? | NZ_CP009273 | = 604803 | NA (NA) | intergenic (+170/+112) | BW25113_RS03025/entD | IS4‑like element IS421 family transposase/enterobactin synthase subunit EntD | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 19 (0.780) | 12/164 | 0.6 | 100% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 0 (0.000) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 10 (0.410) | 10/166 | 0.8 | 100% | intergenic (‑297/‑483) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | = 2283592 | NA (NA) | intergenic (‑68/‑387) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP | |||||
| * | ? | NZ_CP009273 | 2282398 = | NA (NA) | 27 (1.100) | 13/166 | 0.5 | 77.1% | pseudogene (3/2532 nt) | yejO | autotransporter YejO |
| ? | NZ_CP009273 | 3512437 = | 8 (0.330) | intergenic (‑14/+387) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ | |||||
| * | ? | NZ_CP009273 | = 2283591 | NA (NA) | 25 (1.030) | 17/164 | 0.3 | 76.0% | intergenic (‑67/‑388) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP |
| ? | NZ_CP009273 | = 3512441 | 8 (0.330) | intergenic (‑18/+383) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ | |||||
| * | ? | NZ_CP009273 | = 4267798 | 7 (0.300) | 17 (0.720) +CCG |
15/154 | 0.3 | 71.2% | coding (402/465 nt) | soxR | redox‑sensitive transcriptional activator SoxR |
| ? | NZ_CP009273 | 4267799 = | 7 (0.290) | coding (403/465 nt) | soxR | redox‑sensitive transcriptional activator SoxR | |||||