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 | 295809 | 295819 | 11 | 3 [1] | [0] 3 | paoC | aldehyde oxidoreductase molybdenum‑binding subunit PaoC |
| * | * | ÷ | NZ_CP009273 | 356981 | 357584 | 604 | 3 [0] | [2] 4 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 903008 | 903053 | 46 | 3 [2] | [2] 3 | ybjT | SDR family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 3629488 | 3629569 | 82 | 51 [0] | [1] 3 | [yhiN] | [yhiN] |
| * | * | ÷ | NZ_CP009273 | 3629580 | 3630834 | 1255 | 3 [2] | [2] 3 | [yhiN] | [yhiN] |
| * | * | ÷ | NZ_CP009273 | 3630867 | 3631792 | 926 | 3 [2] | [2] 3 | [pitA] | [pitA] |
| * | * | ÷ | NZ_CP009273 | 3632002 | 3632441 | 440 | 3 [2] | [2] 3 | pitA | inorganic phosphate transporter PitA |
| * | * | ÷ | NZ_CP009273 | 3632554 | 3632784 | 231 | 3 [2] | [2] 3 | [uspB] | [uspB] |
| * | * | ÷ | NZ_CP009273 | 3632801 | 3633083 | 283 | 3 [2] | [2] 3 | [uspB] | [uspB] |
| * | * | ÷ | NZ_CP009273 | 3633460 | 3633578 | 119 | 3 [2] | [2] 3 | [uspA] | [uspA] |
| * | * | ÷ | NZ_CP009273 | 3633685 | 3634106 | 422 | 4 [2] | [2] 3 | [uspA]–BW25113_RS26230 | [uspA],BW25113_RS26225,BW25113_RS26230 |
| * | * | ÷ | NZ_CP009273 | 3634140 | 3640245 | 6106 | 3 [2] | [2] 3 | dtpB–[gorA] | dtpB,rsmJ,prlC,rlmJ,[gorA] |
| * | * | ÷ | NZ_CP009273 | 3640284 | 3640469 | 186 | 4 [2] | [2] 3 | gorA | glutathione‑disulfide reductase |
| * | * | ÷ | NZ_CP009273 | 3640579 | 3641356 | 778 | 3 [2] | [2] 3 | [gorA]–dinQ | [gorA],dinQ |
| * | * | ÷ | NZ_CP009273 | 3641386 | 3641710 | 325 | 3 [2] | [2] 3 | dinQ/arsR | hypothetical protein/As(III)‑sensing metalloregulatory transcriptional repressor ArsR |
| * | * | ÷ | NZ_CP009273 | 3641801 | 3643715 | 1915 | 3 [2] | [0] 4 | arsR–[arsC] | arsR,arsB,[arsC] |
| * | * | ÷ | NZ_CP009273 | 3643780 | 3644101 | 322 | 6 [2] | [2] 3 | [arsC] | [arsC] |
| * | * | ÷ | NZ_CP009273 | 3644313 | 3644708 | 396 | 3 [1] | [0] 4 | [BW25113_RS18155] | [BW25113_RS18155] |
| * | * | ÷ | NZ_CP009273 | 3644841 | 3646512–3645397 | 557–1672 | 4 [2] | [2] 3 | [BW25113_RS18155]–[BW25113_RS18160] | [BW25113_RS18155],[BW25113_RS18160] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 28 (1.010) | 22/170 | 0.2 | 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 | 1203246 = | 31 (1.110) | 5 (0.220) | 5/138 | 1.5 | 20.8% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 13 (0.580) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 23 (0.840) | 17/168 | 0.4 | 92.1% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 2 (0.070) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 1 (0.040) | 37 (1.330) | 23/170 | 0.2 | 97.4% | 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) | 20 (0.720) | 19/170 | 0.3 | 74.1% | pseudogene (3/2532 nt) | yejO | autotransporter YejO |
| ? | NZ_CP009273 | 3512437 = | 7 (0.250) | intergenic (‑14/+387) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ | |||||
| * | ? | NZ_CP009273 | 2282398 = | NA (NA) | 47 (1.690) | 22/170 | 0.2 | 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 | = 2283591 | NA (NA) | 58 (2.110) | 32/168 | 0.0 | 93.6% | intergenic (‑67/‑388) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP |
| ? | NZ_CP009273 | = 3512441 | 4 (0.140) | intergenic (‑18/+383) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ | |||||
| * | ? | NZ_CP009273 | 4532499 = | 3 (0.110) | 16 (0.640) | 12/152 | 0.6 | 60.8% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 18 (0.720) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.110) | 24 (0.970) | 14/152 | 0.4 | 69.9% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 18 (0.720) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||