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 | 49,905 | T→G | L28R (CTC→CGC) | folA → | type 3 dihydrofolate reductase |
| 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 | 356981 | 357578 | 598 | 3 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 428493 | 428562 | 70 | 3 [1] | [1] 2 | nrdR | transcriptional regulator NrdR |
| * | * | ÷ | NZ_CP009273 | 716602 | 716635 | 34 | 2 [0] | [0] 2 | kdpE | two‑component system response regulator KdpE |
| * | * | ÷ | NZ_CP009273 | 739111 | 739151 | 41 | 4 [1] | [1] 2 | pxpB | 5‑oxoprolinase subunit PxpB |
| * | * | ÷ | NZ_CP009273 | 750047 | 750053 | 7 | 6 [1] | [1] 2 | gltA/BW25113_RS25495 | citrate synthase/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 806199 | 806273 | 75 | 2 [1] | [1] 2 | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | * | ÷ | NZ_CP009273 | 903061 | 903085 | 25 | 2 [1] | [1] 2 | ybjT | SDR family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 990866 | 990886 | 21 | 2 [1] | [1] 2 | ssuD | FMNH2‑dependent alkanesulfonate monooxygenase |
| * | * | ÷ | NZ_CP009273 | 1028248 | 1028278 | 31 | 2 [1] | [1] 3 | hyaA | hydrogenase 1 small subunit |
| * | * | ÷ | NZ_CP009273 | 1101454 | 1101463 | 10 | 2 [1] | [0] 3 | ymdB | O‑acetyl‑ADP‑ribose deacetylase |
| * | * | ÷ | NZ_CP009273 | 1357584 | 1357599 | 16 | 2 [1] | [0] 2 | puuC | aldehyde dehydrogenase PuuC |
| * | * | ÷ | NZ_CP009273 | 1561698 | 1561731 | 34 | 2 [0] | [1] 2 | BW25113_RS25995/digH | protein YddY/glycoside hydrolase family 10 protein |
| * | * | ÷ | NZ_CP009273 | 2001704 | 2001711 | 8 | 2 [1] | [0] 2 | yedD/yedE | lipoprotein/selenium metabolism membrane protein YedE/FdhT |
| * | * | ÷ | NZ_CP009273 | 3628487 | 3632892 | 4406 | 44 [0] | [0] 2 | [yhiM]–[uspB] | [yhiM],yhiN,pitA,[uspB] |
| * | * | ÷ | NZ_CP009273 | 3632960 | 3633038 | 79 | 2 [0] | [1] 2 | uspB | universal stress protein UspB |
| * | * | ÷ | NZ_CP009273 | 3633125 | 3633270 | 146 | 2 [1] | [1] 2 | uspB/uspA | universal stress protein UspB/universal stress protein UspA |
| * | * | ÷ | NZ_CP009273 | 3633314 | 3636186 | 2873 | 2 [1] | [0] 2 | uspA–[rsmJ] | uspA,BW25113_RS26225,BW25113_RS26230,dtpB,[rsmJ] |
| * | * | ÷ | NZ_CP009273 | 3636267 | 3636971 | 705 | 2 [0] | [0] 2 | [rsmJ]–[prlC] | [rsmJ],[prlC] |
| * | * | ÷ | NZ_CP009273 | 3637055 | 3646531–3645398 | 8344–9477 | 2 [0] | [1] 2 | [prlC]–BW25113_RS18160 | [prlC],rlmJ,gorA,dinQ,arsR,arsB,arsC,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) | 42 (2.170) | 24/170 | 0.0 | 59.2% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 29 (1.500) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 1 (0.050) | 14 (0.890) | 13/138 | 0.2 | 93.9% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 1 (0.060) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 1 (0.050) | 13 (0.830) | 11/138 | 0.3 | 93.5% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 1 (0.060) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 15 (0.790) | 10/168 | 0.5 | 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) | 33 (1.710) | 24/170 | 0.0 | 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 | 2282398 = | NA (NA) | 44 (2.280) | 23/170 | 0.0 | 100% | pseudogene (3/2532 nt) | yejO | autotransporter YejO |
| ? | NZ_CP009273 | = 3628486 | 0 (0.000) | coding (286/1053 nt) | yhiM | DUF2776 domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 3512437 = | 0 (0.000) | 23 (1.190) | 18/170 | 0.1 | 100% | intergenic (‑14/+387) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ |
| ? | NZ_CP009273 | = 3646590 | NA (NA) | pseudogene (3/379 nt) | BW25113_RS18165 | hypothetical protein | |||||
| * | ? | NZ_CP009273 | = 3512441 | 0 (0.000) | 7 (0.370) | 7/168 | 0.8 | 100% | intergenic (‑18/+383) | aroK/hofQ | shikimate kinase AroK/DNA uptake porin HofQ |
| ? | NZ_CP009273 | 3645397 = | NA (NA) | pseudogene (747/747 nt) | BW25113_RS18155 | hypothetical protein | |||||
| * | ? | NZ_CP009273 | = 4532507 | 8 (0.410) | 7 (0.410) | 6/152 | 0.9 | 26.3% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 32 (1.850) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||