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 | 859,587 | G→A | A164T (GCA→ACA) | fsa → | fructose‑6‑phosphate aldolase |
| 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 | 356981 | 357568 | 588 | 5 [0] | [1] 2 | lacA | galactoside O‑acetyltransferase |
| * | * | ÷ | NZ_CP009273 | 428526 | 428560 | 35 | 2 [1] | [1] 2 | nrdR | transcriptional regulator NrdR |
| * | * | ÷ | NZ_CP009273 | 579532 | 579601 | 70 | 2 [1] | [1] 2 | appY | DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 729484 | 729533 | 50 | 3 [0] | [1] 2 | BW25113_RS03630 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 732224 | 732247 | 24 | 2 [0] | [1] 2 | ybfQ/BW25113_RS03650 | ISAs1 family transposase/ISAs1 family transposase |
| * | * | ÷ | NZ_CP009273 | 869165 | 869184 | 20 | 2 [1] | [1] 3 | pdeI | EAL domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1172063 | 1172086 | 24 | 3 [1] | [1] 2 | [lolC]–[lolD] | [lolC],[lolD] |
| * | * | ÷ | NZ_CP009273 | 1206069 | 1206091 | 23 | 3 [1] | [1] 2 | mcrA | 5‑methylcytosine‑specific endonuclease McrA |
| * | * | ÷ | NZ_CP009273 | 1207781 | 1207833 | 53 | 3 [1] | [1] 2 | BW25113_RS25985/BW25113_RS25535 | protein YmgK/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1238468 | 1238483 | 16 | 2 [1] | [1] 2 | ldcA | muramoyltetrapeptide carboxypeptidase |
| * | * | ÷ | NZ_CP009273 | 1316463 | 1316481 | 19 | 3 [1] | [1] 2 | trpE | anthranilate synthase component I |
| * | * | ÷ | NZ_CP009273 | 1363763 | 1363769 | 7 | 2 [0] | [1] 2 | pspD | phage shock protein PspD |
| * | * | ÷ | NZ_CP009273 | 1432793 | 1432803 | 11 | 3 [0] | [0] 2 | nifJ | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 1538611 | 1538622 | 12 | 2 [1] | [1] 2 | narU/BW25113_RS07710 | nitrate/nitrite transporter NarU/leucine‑rich repeat domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1554302 | 1554304 | 3 | 2 [0] | [0] 2 | ddpB | ABC transporter permease |
| * | * | ÷ | NZ_CP009273 | 1631994 | 1632048 | 55 | 2 [0] | [1] 3 | [gnsB] | [gnsB] |
| * | * | ÷ | NZ_CP009273 | 1685850 | 1685865 | 16 | 2 [1] | [1] 2 | uidC | glucuronide uptake porin UidC |
| * | * | ÷ | NZ_CP009273 | 1715236 | 1715242 | 7 | 2 [1] | [0] 2 | slyA/ydhI | transcriptional regulator SlyA/DUF1656 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1751469 | 1751499 | 31 | 2 [1] | [1] 2 | pykF/lpp | pyruvate kinase PykF/murein lipoprotein Lpp |
| * | * | ÷ | NZ_CP009273 | 1899567 | 1899583 | 17 | 2 [0] | [0] 3 | yobD/mntP | DUF986 family protein/manganese efflux pump MntP |
| * | * | ÷ | NZ_CP009273 | 1972948 | 1972979 | 32 | 3 [1] | [1] 2 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 2371269 | 2371280 | 12 | 3 [0] | [1] 3 | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | * | ÷ | NZ_CP009273 | 2462804 | 2462848 | 45 | 2 [1] | [0] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2462890 | 2462927 | 38 | 2 [0] | [1] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 4080228 | 4080240 | 13 | 2 [1] | [1] 3 | fdhD/yiiG | formate dehydrogenase accessory sulfurtransferase FdhD/YiiG family protein |
| * | * | ÷ | NZ_CP009273 | 4316740 | 4316756 | 17 | 2 [1] | [1] 3 | yjdM/crfC | zinc ribbon domain‑containing protein YjdM/clamp‑binding protein CrfC |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 64 (3.150) | 28/166 | 0.0 | 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 | 1203246 = | 10 (0.490) | 9 (0.550) | 7/134 | 0.7 | 61.9% | 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) | 11 (0.550) | 8/164 | 0.8 | 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 (1.280) | 17/166 | 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 | |||||