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 |
| RA | 481,275 | C→A | A20D (GCT→GAT) | acrR → | multidrug efflux transporter transcriptional repressor AcrR |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 3,206,635 | C→G | A77G (GCC→GGC) | rpoD → | RNA polymerase sigma factor RpoD |
| 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 | 357572 | 592 | 3 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 1158229 | 1158234 | 6 | 2 [1] | [1] 2 | lpoB | penicillin‑binding protein activator LpoB |
| * | * | ÷ | NZ_CP009273 | 1172264 | 1172340 | 77 | 2 [1] | [1] 2 | lolD | lipoprotein‑releasing ABC transporter ATP‑binding protein LolD |
| * | * | ÷ | NZ_CP009273 | 1205059 | 1205074 | 16 | 18 [0] | [0] 17 | BW25113_RS06005 | phage tail protein |
| * | * | ÷ | NZ_CP009273 | 1214897 | 1214929 | 33 | 2 [1] | [1] 4 | BW25113_RS06070/BW25113_RS25990 | hypothetical protein/autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1398052 | 1398069 | 18 | 2 [1] | [1] 2 | abgA | p‑aminobenzoyl‑glutamate hydrolase subunit AbgA |
| * | * | ÷ | NZ_CP009273 | 1459462 | 1459481 | 20 | 2 [1] | [1] 2 | BW25113_RS25580 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2505255 | 2505264 | 10 | 2 [0] | [1] 2 | mntH | Nramp family divalent metal transporter |
| * | * | ÷ | NZ_CP009273 | 3628487 | 3628945 | 459 | 38 [0] | [1] 2 | yhiM | DUF2776 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 3628991 | 3639570 | 10580 | 2 [1] | [0] 2 | [yhiM]–[rlmJ] | [yhiM],yhiN,pitA,uspB,uspA,BW25113_RS26225,BW25113_RS26230,dtpB,rsmJ,prlC,[rlmJ] |
| * | * | ÷ | NZ_CP009273 | 3639655 | 3641105 | 1451 | 2 [0] | [0] 2 | gorA–[dinQ] | gorA,[dinQ] |
| * | * | ÷ | NZ_CP009273 | 3641188 | 3643827 | 2640 | 2 [0] | [1] 2 | arsR–[arsC] | arsR,arsB,[arsC] |
| * | * | ÷ | NZ_CP009273 | 3643849 | 3646519–3645391 | 1543–2671 | 2 [1] | [1] 3 | [arsC]–[BW25113_RS18160] | [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) | 41 (1.560) | 21/170 | 0.2 | 51.9% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 38 (1.450) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 1 (0.040) | 15 (0.710) | 10/138 | 0.6 | 97.4% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 0 (0.000) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 1 (0.040) | 18 (0.850) | 11/138 | 0.5 | 97.8% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 0 (0.000) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 15 (0.580) | 8/168 | 1.0 | 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) | 37 (1.410) | 23/170 | 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 | 2282398 = | NA (NA) | 38 (1.450) | 12/170 | 0.6 | 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 | = 4532507 | 14 (0.530) | 9 (0.380) | 7/152 | 1.1 | 28.3% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 33 (1.410) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||