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 | 49,884 | C→T | P21L (CCG→CTG) | folA → | type 3 dihydrofolate reductase |
| RA | 934,891 | A→G | D3G (GAT→GGT) | serS → | serine‑‑tRNA ligase |
| 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 | 233650 | 233755 | 106 | 3 [2] | [2] 3 | BW25113_RS01085/BW25113_RS01090 | tRNA‑Asp/lipoprotein |
| * | * | ÷ | NZ_CP009273 | 235183 | 235233 | 51 | 3 [2] | [2] 4 | [BW25113_RS01095]–[BW25113_RS01100] | [BW25113_RS01095],[BW25113_RS01100] |
| * | * | ÷ | NZ_CP009273 | 255909 | 255949 | 41 | 3 [0] | [2] 3 | phoE/proB | phosphoporin PhoE/glutamate 5‑kinase |
| * | * | ÷ | NZ_CP009273 | 356969 | 357572 | 604 | 3 [2] | [2] 3 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 716369 | 716432 | 64 | 5 [2] | [2] 3 | BW25113_RS26090/kdpE | leader peptide SpeFL/two‑component system response regulator KdpE |
| * | * | ÷ | NZ_CP009273 | 993837 | 993869 | 33 | 4 [2] | [2] 3 | [elfA] | [elfA] |
| * | * | ÷ | NZ_CP009273 | 1098849 | 1098882 | 34 | 3 [2] | [1] 3 | csgD/csgB | biofilm master transcriptional regulator CsgD/curli minor subunit CsgB |
| * | * | ÷ | NZ_CP009273 | 1206611 | 1206686 | 76 | 5 [0] | [2] 3 | [mcrA] | [mcrA] |
| * | * | ÷ | NZ_CP009273 | 1524534 | 1524598 | 65 | 4 [2] | [1] 5 | BW25113_RS26145 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2099580 | 2099600 | 21 | 3 [0] | [2] 3 | wzy | O16 family O‑antigen polymerase |
| * | * | ÷ | NZ_CP009273 | 2563830 | 2563853 | 24 | 3 [2] | [2] 4 | eutE | aldehyde dehydrogenase EutE |
| * | * | ÷ | NZ_CP009273 | 2877632 | 2877655 | 24 | 6 [2] | [2] 3 | casA/cas3 | type I‑E CRISPR‑associated protein Cse1/CasA/CRISPR‑associated helicase/endonuclease Cas3 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 46 (1.950) | 26/164 | 0.1 | 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) | 10 (0.430) | 7/162 | 1.3 | 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) | 34 (1.440) | 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 | |||||
| * | ? | NZ_CP009273 | 4532499 = | 2 (0.080) | 9 (0.430) | 7/146 | 1.1 | 75.7% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 4 (0.190) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 2 (0.080) | 7 (0.330) | 6/146 | 1.3 | 70.8% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 4 (0.190) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||