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 | 49,910 | T→G | W30G (TGG→GGG) | folA → | type 3 dihydrofolate reductase |
| RA | 1,613,393 | A→T | D6V (GAT→GTT) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 3,511,988 | C→A | E146* (GAG→TAG) | aroK ← | shikimate kinase AroK |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356981 | 357576 | 596 | 2 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 380412 | 380420 | 9 | 6 [0] | [0] 2 | BW25113_RS01880/tauA | PIG‑L family deacetylase/taurine ABC transporter substrate‑binding protein |
| * | * | ÷ | NZ_CP009273 | 950209 | 950250 | 42 | 2 [1] | [1] 2 | focA/ycaO | formate transporter FocA/30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| * | * | ÷ | NZ_CP009273 | 1032537 | 1032598 | 62 | 3 [1] | [1] 2 | hyaF | hydrogenase expression/formation protein |
| * | * | ÷ | NZ_CP009273 | 1417992 | 1418045 | 54 | 3 [1] | [1] 3 | [trkG] | [trkG] |
| * | * | ÷ | NZ_CP009273 | 1459418 | 1459529 | 112 | 2 [1] | [1] 3 | BW25113_RS25580 | BW25113_RS25580 |
| * | * | ÷ | NZ_CP009273 | 1580836 | 1580887 | 52 | 2 [0] | [1] 2 | ydeP/ydeQ | acid resistance putative oxidoreductase YdeP/fimbrial protein |
| * | * | ÷ | NZ_CP009273 | 1633185 | 1633206 | 22 | 2 [1] | [1] 2 | cspI/rzpQ | cold shock protein CspI/DUF2514 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 2027304 | 2027387 | 84 | 3 [1] | [1] 2 | drpB/ompC | cell division protein DrpB/porin OmpC |
| * | * | ÷ | NZ_CP009273 | 2101613 | 2101651 | 39 | 2 [1] | [1] 3 | glf | UDP‑galactopyranose mutase |
| * | * | ÷ | NZ_CP009273 | 2144481 | 2144513 | 33 | 2 [1] | [1] 2 | yegI/yegJ | protein kinase YegI/DUF2314 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 2300296 | 2300341 | 46 | 3 [1] | [1] 3 | mqo/yojI | malate dehydrogenase (quinone)/microcin J25 efflux ABC transporter YojI |
| * | * | ÷ | NZ_CP009273 | 2336913 | 2336918 | 6 | 4 [0] | [0] 2 | yfaL | AIDA‑I family autotransporter adhesin YfaL/EhaC |
| * | * | ÷ | NZ_CP009273 | 2778510 | 2778538 | 29 | 2 [1] | [1] 2 | BW25113_RS25705/BW25113_RS13825 | DUF5507 domain‑containing protein/tRNA‑Ile |
| * | * | ÷ | NZ_CP009273 | 2980529 | 2980544 | 16 | 5 [1] | [1] 3 | yqeG/yqeH | amino acid permease/helix‑turn‑helix transcriptional regulator |
| * | * | ÷ | NZ_CP009273 | 3129918 | 3129955 | 38 | 2 [0] | [1] 2 | pitB/gss | inorganic phosphate transporter PitB/bifunctional glutathionylspermidine amidase/synthase |
| * | * | ÷ | NZ_CP009273 | 3262680 | 3262707 | 28 | 2 [1] | [0] 2 | yhaC | YhaC family protein |
| * | * | ÷ | NZ_CP009273 | 3448796 | 3448828 | 33 | 2 [0] | [1] 3 | gspA/gspC | type II secretion system protein GspA/type II secretion system protein GspC |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 15391 = | NA (NA) | 31 (1.570) | 25/158 | 0.0 | 84.5% | intergenic (+93/‑54) | dnaJ/BW25113_RS00080 | molecular chaperone DnaJ/IS4‑like element IS421 family transposase |
| ? | NZ_CP009273 | = 454255 | 6 (0.290) | intergenic (+99/‑89) | clpX/lon | ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La | |||||
| * | ? | NZ_CP009273 | = 287112 | NA (NA) | 14 (0.670) | 11/166 | 0.6 | 87.5% | intergenic (‑55/‑99) | BW25113_RS01405/BW25113_RS01410 | IS1‑like element IS1B family transposase/hypothetical protein |
| ? | NZ_CP009273 | 1903038 = | 2 (0.100) | intergenic (‑15/‑144) | mgrB/yobH | PhoP/PhoQ regulator MgrB/YobH family protein | |||||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 22 (1.060) | 18/166 | 0.2 | 40.0% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 33 (1.590) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 454244 = | 7 (0.340) | 29 (1.470) | 16/158 | 0.2 | 81.3% | intergenic (+88/‑100) | clpX/lon | ATP‑dependent protease ATP‑binding subunit ClpX/endopeptidase La |
| ? | NZ_CP009273 | = 604803 | NA (NA) | intergenic (+170/+112) | BW25113_RS03025/entD | IS4‑like element IS421 family transposase/enterobactin synthase subunit EntD | |||||
| * | ? | NZ_CP009273 | = 1046001 | NA (NA) | 14 (0.670) | 11/166 | 0.6 | 82.3% | intergenic (+15/+418) | BW25113_RS05135/cspH | IS1‑like element IS1D family transposase/cold shock‑like protein CspH |
| ? | NZ_CP009273 | = 1903046 | 3 (0.140) | intergenic (‑23/‑136) | mgrB/yobH | PhoP/PhoQ regulator MgrB/YobH family protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 14 (0.670) | 8 (0.480) | 7/134 | 0.8 | 52.9% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 3 (0.180) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 5 (0.240) | 3/164 | 1.9 | 83.5% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 1 (0.050) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 29 (1.400) | 19/166 | 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 | = 4532507 | 6 (0.290) | 6 (0.320) | 5/148 | 1.2 | 39.6% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 13 (0.700) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||