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 | 49,903 | T→G | D27E (GAT→GAG) | folA → | type 3 dihydrofolate reductase |
| RA | 50,279 | T→C | F153L (TTT→CTT) | folA → | type 3 dihydrofolate reductase |
| RA | 1,613,723 | G→C | G116A (GGC→GCC) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356952 | 357571 | 620 | 5 [3] | [3] 4 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 950153 | 950252 | 100 | 5 [3] | [2] 5 | focA/ycaO | formate transporter FocA/30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| * | * | ÷ | NZ_CP009273 | 1208161 | 1208197 | 37 | 4 [2] | [2] 4 | ycgX | DUF1398 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 3629488 | 3632559 | 3072 | 43 [0] | [2] 4 | yhiN–pitA | yhiN,pitA |
| * | * | ÷ | NZ_CP009273 | 3632574–3632597 | 3632962 | 366–389 | 4 [2] | [3] 5 | [uspB] | [uspB] |
| * | * | ÷ | NZ_CP009273 | 3633044 | 3633597 | 554 | 4 [3] | [2] 4 | [uspB]–[uspA] | [uspB],[uspA] |
| * | * | ÷ | NZ_CP009273 | 3633602 | 3634310 | 709 | 4 [2] | [3] 4 | [uspA]–[dtpB] | [uspA],BW25113_RS26225,BW25113_RS26230,[dtpB] |
| * | * | ÷ | NZ_CP009273 | 3634321 | 3634903 | 583 | 4 [3] | [3] 4 | dtpB | dipeptide/tripeptide permease DtpB |
| * | * | ÷ | NZ_CP009273 | 3634964 | 3646509–3645390 | 10427–11546 | 4 [3] | [0] 4 | [dtpB]–[BW25113_RS18160] | [dtpB],rsmJ,prlC,rlmJ,gorA,dinQ,arsR,arsB,arsC,BW25113_RS18155,[BW25113_RS18160] |
| * | * | ÷ | NZ_CP009273 | 4532589 | 4532617 | 29 | 4 [3] | [1] 5 | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 48 (1.510) | 28/166 | 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 | = 1391494 | NA (NA) | 21 (0.670) | 13/164 | 0.8 | 91.4% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 2 (0.060) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 1 (0.030) | 44 (1.380) | 25/166 | 0.2 | 97.8% | 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) | 41 (1.290) | 20/166 | 0.3 | 100% | pseudogene (3/2532 nt) | yejO | autotransporter YejO |
| ? | NZ_CP009273 | = 3629487 | 0 (0.000) | intergenic (+234/+81) | yhiM/yhiN | DUF2776 domain‑containing protein/NAD(P)/FAD‑dependent oxidoreductase | |||||
| * | ? | NZ_CP009273 | 4532499 = | 3 (0.090) | 15 (0.530) | 10/148 | 1.0 | 89.1% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 1 (0.040) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.090) | 10 (0.350) | 7/148 | 1.4 | 84.5% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 1 (0.040) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||