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 | 49,910 | T→G | W30G (TGG→GGG) | folA → | type 3 dihydrofolate reductase |
| RA | 859,587 | G→A | A164T (GCA→ACA) | fsa → | fructose‑6‑phosphate aldolase |
| MC JC | 1,613,500 | Δ4 bp | coding (124‑127/435 nt) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| 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 | 190955 | 190997 | 43 | 3 [1] | [1] 2 | ispC | 1‑deoxy‑D‑xylulose‑5‑phosphate reductoisomerase |
| * | * | ÷ | NZ_CP009273 | 356981 | 357567 | 587 | 3 [0] | [0] 2 | lacA | galactoside O‑acetyltransferase |
| * | * | ÷ | NZ_CP009273 | 434598 | 434645 | 48 | 2 [1] | [1] 2 | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | * | ÷ | NZ_CP009273 | 772202 | 772283 | 82 | 2 [1] | [1] 2 | tolA | cell envelope integrity protein TolA |
| * | * | ÷ | NZ_CP009273 | 849325 | 849354 | 30 | 2 [1] | [1] 2 | ybiR | anion transporter |
| * | * | ÷ | NZ_CP009273 | 2616965 | 2616970 | 6 | 2 [0] | [1] 3 | ppk1 | polyphosphate kinase 1 |
| * | * | ÷ | NZ_CP009273 | 3132288 | 3132298 | 11 | 2 [1] | [0] 6 | yghU | glutathione‑dependent disulfide‑bond oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 3569081 | 3569146 | 66 | 2 [1] | [1] 2 | gntU | gluconate transporter |
| * | * | ÷ | NZ_CP009273 | 3626675 | 3637014 | 10340 | 8 [0] | [1] 2 | [BW25113_RS18065]–[prlC] | [BW25113_RS18065],yhiM,yhiN,pitA,uspB,uspA,BW25113_RS26225,BW25113_RS26230,dtpB,rsmJ,[prlC] |
| * | * | ÷ | NZ_CP009273 | 3637103 | 3646518–3645391 | 8289–9416 | 2 [1] | [1] 2 | [prlC]–[BW25113_RS18160] | [prlC],rlmJ,gorA,dinQ,arsR,arsB,arsC,BW25113_RS18155,[BW25113_RS18160] |
| * | * | ÷ | NZ_CP009273 | 3682703 | 3682741 | 39 | 3 [1] | [1] 2 | bcsZ | cellulose synthase complex periplasmic endoglucanase BcsZ |
| * | * | ÷ | NZ_CP009273 | 3708051 | 3708071 | 21 | 3 [1] | [1] 3 | bisC | biotin sulfoxide reductase |
| * | * | ÷ | NZ_CP009273 | 3732688 | 3732691 | 4 | 2 [1] | [0] 2 | malS | alpha‑amylase |
| * | * | ÷ | NZ_CP009273 | 4049872 | 4049874 | 3 | 2 [0] | [0] 3 | glnL/glnA | nitrogen regulation protein NR(II)/glutamate‑‑ammonia ligase |
| * | * | ÷ | NZ_CP009273 | 4113111 | 4113112 | 2 | 2 [0] | [1] 2 | ftsN | cell division protein FtsN |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 59 (4.060) | 34/170 | 0.0 | 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) | 9 (0.630) | 7/168 | 0.7 | 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 (1.440) | 14/170 | 0.1 | 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 | = 2000783 | 9 (0.620) | 3 (0.230) | 3/154 | 1.3 | 24.8% | coding (1147/1488 nt) | amyA | alpha‑amylase |
| ? | NZ_CP009273 | = 2000836 | 10 (0.760) | coding (1200/1488 nt) | amyA | alpha‑amylase | |||||
| * | ? | NZ_CP009273 | = 3626674 | 0 (0.000) | 8 (0.550) | 8/170 | 0.6 | 100% | pseudogene (1145/1607 nt) | BW25113_RS18065 | YhiJ/YhiL family protein |
| ? | NZ_CP009273 | 3645396 = | NA (NA) | pseudogene (746/747 nt) | BW25113_RS18155 | hypothetical protein | |||||