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 | 49,765 | C→T | intergenic (+134/‑58) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 49,912 | G→T | W30C (TGG→TGT) | folA → | type 3 dihydrofolate reductase |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356981 | 357586 | 606 | 2 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 428511 | 428536 | 26 | 2 [1] | [1] 2 | nrdR | transcriptional regulator NrdR |
| * | * | ÷ | NZ_CP009273 | 647457 | 647469 | 13 | 2 [1] | [0] 2 | citC/dpiB | [citrate (pro‑3S)‑lyase] ligase/sensor histidine kinase DpiB |
| * | * | ÷ | NZ_CP009273 | 772579 | 772592 | 14 | 3 [1] | [1] 2 | tolA | cell envelope integrity protein TolA |
| * | * | ÷ | NZ_CP009273 | 1122293 | 1122294 | 2 | 3 [0] | [0] 2 | yceM | Gfo/Idh/MocA family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 1207675 | 1207692 | 18 | 2 [1] | [1] 2 | iraM/BW25113_RS25985 | anti‑adapter protein IraM/protein YmgK |
| * | * | ÷ | NZ_CP009273 | 1250327 | 1250331 | 5 | 7 [0] | [1] 2 | ycgV | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1290578 | 1290582 | 5 | 2 [0] | [0] 2 | BW25113_RS06460 | IS4 family transposase |
| * | * | ÷ | NZ_CP009273 | 1316118 | 1316138 | 21 | 2 [1] | [0] 2 | trpE | anthranilate synthase component I |
| * | * | ÷ | NZ_CP009273 | 1320818 | 1320849 | 32 | 3 [1] | [1] 3 | yciQ | DUF2207 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1333420 | 1333453 | 34 | 2 [1] | [1] 4 | ribA/pgpB | GTP cyclohydrolase II/phosphatidylglycerophosphatase B |
| * | * | ÷ | NZ_CP009273 | 1379245 | 1379263 | 19 | 2 [1] | [1] 2 | ycjX | YcjX family protein |
| * | * | ÷ | NZ_CP009273 | 1524311 | 1524369 | 59 | 2 [0] | [1] 2 | BW25113_RS07645/BW25113_RS26145 | RHS repeat protein/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1973025 | 1973046 | 22 | 2 [0] | [1] 2 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 2161860 | 2161875 | 16 | 2 [0] | [1] 3 | BW25113_RS10880/yegS | hypothetical protein/lipid kinase YegS |
| * | * | ÷ | NZ_CP009273 | 2753660 | 2753675 | 16 | 2 [1] | [0] 2 | yfjI | YfjI family protein |
| * | * | ÷ | NZ_CP009273 | 3830060 | 3830103 | 44 | 2 [1] | [1] 2 | BW25113_RS26245/setC | virulence RhuM family protein/sugar efflux transporter |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 270859 | NA (NA) | 26 (1.220) | 21/162 | 0.1 | 96.3% | intergenic (‑67/‑177) | BW25113_RS01325/mmuP | IS5‑like element IS5 family transposase/S‑methylmethionine permease |
| ? | NZ_CP009273 | = 481485 | 1 (0.050) | coding (269/648 nt) | acrR | multidrug efflux transporter transcriptional repressor AcrR | |||||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 26 (1.210) | 17/164 | 0.2 | 68.4% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 12 (0.560) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 481481 = | 1 (0.050) | 7 (0.330) | 7/164 | 1.1 | 87.5% | coding (265/648 nt) | acrR | multidrug efflux transporter transcriptional repressor AcrR |
| ? | NZ_CP009273 | 570047 = | NA (NA) | intergenic (+252/+146) | quuD/BW25113_RS02850 | antitermination protein QuuD/IS5‑like element IS5 family transposase | |||||
| * | ? | NZ_CP009273 | 1203246 = | 17 (0.790) | 4 (0.230) | 4/132 | 1.3 | 27.9% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 7 (0.410) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 20 (0.940) | 11/162 | 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) | 21 (0.980) | 17/164 | 0.2 | 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 | 4532499 = | 3 (0.140) | 14 (0.730) | 12/146 | 0.4 | 74.3% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 7 (0.370) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.140) | 8 (0.420) | 8/146 | 0.8 | 62.3% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 7 (0.370) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||