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 | 356976 | 357584 | 609 | 2 [1] | [1] 2 | [lacA] | [lacA] |
* | * | ÷ | NZ_CP009273 | 578967 | 579045 | 79 | 2 [1] | [1] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
* | * | ÷ | NZ_CP009273 | 724910 | 724950 | 41 | 3 [1] | [1] 2 | ybfA/rhsC | YbfA family protein/rhs element protein RhsC |
* | * | ÷ | NZ_CP009273 | 761397 | 761407 | 11 | 2 [0] | [1] 2 | mngR/mngA | mannosyl‑D‑glycerate transport/metabolism system transcriptional repressor MngR/PTS 2‑O‑a‑mannosyl‑D‑glycerate transporter subunit IIABC |
* | * | ÷ | NZ_CP009273 | 766335 | 766359 | 25 | 3 [1] | [0] 2 | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
* | * | ÷ | NZ_CP009273 | 896114 | 896170 | 57 | 5 [1] | [1] 3 | artJ/artM | ABC transporter substrate‑binding protein ArtJ/arginine ABC transporter permease ArtM |
* | * | ÷ | NZ_CP009273 | 903013 | 903070 | 58 | 2 [1] | [1] 3 | ybjT | SDR family oxidoreductase |
* | * | ÷ | NZ_CP009273 | 950203 | 950254 | 52 | 2 [0] | [0] 2 | focA/ycaO | formate transporter FocA/30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
* | * | ÷ | NZ_CP009273 | 982716 | 982741 | 26 | 4 [1] | [1] 2 | ompF/asnS | porin OmpF/asparagine‑‑tRNA ligase |
* | * | ÷ | NZ_CP009273 | 982921 | 982961 | 41 | 2 [0] | [1] 2 | ompF/asnS | porin OmpF/asparagine‑‑tRNA ligase |
* | * | ÷ | NZ_CP009273 | 993105 | 993214 | 110 | 3 [1] | [1] 2 | ssuE/elfA | NADPH‑dependent FMN reductase/fimbrial protein |
* | * | ÷ | NZ_CP009273 | 1193127 | 1193244 | 118 | 2 [0] | [0] 2 | BW25113_RS05920 | hypothetical protein |
* | * | ÷ | NZ_CP009273 | 1310742 | 1310750 | 9 | 2 [0] | [0] 2 | trpA | tryptophan synthase subunit alpha |
* | * | ÷ | NZ_CP009273 | 1323848 | 1323880 | 33 | 3 [1] | [1] 2 | sohB | protease SohB |
* | * | ÷ | NZ_CP009273 | 1459488 | 1459511 | 24 | 2 [1] | [0] 2 | BW25113_RS25580/BW25113_RS07350 | hypothetical protein/autotransporter domain‑containing protein |
* | * | ÷ | NZ_CP009273 | 1800500 | 1800529 | 30 | 2 [1] | [1] 2 | ydiY/pfkB | YdiY family protein/6‑phosphofructokinase II |
* | * | ÷ | NZ_CP009273 | 2027367 | 2027421 | 55 | 2 [0] | [0] 2 | drpB/ompC | cell division protein DrpB/porin OmpC |
* | * | ÷ | NZ_CP009273 | 2144484 | 2144509 | 26 | 4 [0] | [0] 4 | yegI/yegJ | protein kinase YegI/DUF2314 domain‑containing protein |
* | * | ÷ | NZ_CP009273 | 2170705 | 2170735 | 31 | 2 [1] | [1] 3 | gatY/fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
* | * | ÷ | NZ_CP009273 | 2337838 | 2337856 | 19 | 2 [0] | [1] 2 | yfaL/nrdA | AIDA‑I family autotransporter adhesin YfaL/EhaC/ribonucleoside‑diphosphate reductase subunit alpha |
* | * | ÷ | NZ_CP009273 | 2778501 | 2778523 | 23 | 3 [1] | [1] 2 | BW25113_RS25705/BW25113_RS13825 | DUF5507 domain‑containing protein/tRNA‑Ile |
* | * | ÷ | NZ_CP009273 | 3129929 | 3129954 | 26 | 2 [0] | [0] 2 | pitB/gss | inorganic phosphate transporter PitB/bifunctional glutathionylspermidine amidase/synthase |
* | * | ÷ | NZ_CP009273 | 3797710 | 3797726 | 17 | 3 [1] | [0] 3 | rfaS | LPS core biosynthesis protein RfaS |
* | * | ÷ | NZ_CP009273 | 3900164 | 3900171 | 8 | 2 [0] | [1] 2 | bglG/phoU | transcriptional antiterminator BglG/phosphate signaling complex protein PhoU |
* | * | ÷ | NZ_CP009273 | 4225578 | 4225668 | 91 | 2 [1] | [1] 2 | pgi/yjbE | glucose‑6‑phosphate isomerase/exopolysaccharide production protein YjbE |
* | * | ÷ | NZ_CP009273 | 4531449 | 4531515 | 67 | 3 [1] | [1] 2 | fimB/fimE | type 1 fimbria switch DNA invertase FimB/type 1 fimbria switch DNA invertase FimE |
* | * | ÷ | NZ_CP009273 | 4532453 | 4532527 | 75 | 3 [1] | [1] 2 | 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 | = 270859 | NA (NA) | 16 (0.740) | 14/162 | 0.4 | 69.8% | intergenic (‑67/‑177) | BW25113_RS01325/mmuP | IS5‑like element IS5 family transposase/S‑methylmethionine permease |
? | NZ_CP009273 | = 481485 | 7 (0.320) | coding (269/648 nt) | acrR | multidrug efflux transporter transcriptional repressor AcrR | |||||
* | ? | NZ_CP009273 | 360104 = | NA (NA) | 33 (1.500) | 23/164 | 0.1 | 53.2% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
? | NZ_CP009273 | = 360286 | 29 (1.320) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
* | ? | NZ_CP009273 | 481481 = | 5 (0.230) | 10 (0.460) | 7/164 | 1.1 | 66.7% | 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 | = 1391494 | NA (NA) | 7 (0.320) | 6/162 | 1.2 | 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) | 26 (1.180) | 19/164 | 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 |