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 | 874,860 | G→A | M221I (ATG→ATA) | yliI → | aldose sugar dehydrogenase YliI |
| RA | 1,431,900 | G→A | Q1048* (CAG→TAG) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| MC JC | 3,632,439 | Δ6 bp | coding (1438‑1443/1500 nt) | pitA → | inorganic phosphate transporter PitA |
| RA | 3,962,397 | C→T | Q3* (CAA→TAA) | wzzE → | ECA polysaccharide chain length modulation protein |
| RA | 4,477,499 | A→G | E122G (GAA→GGA) | lptG → | LPS export ABC transporter permease LptG |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 236741 | 270746–269666 | 32926–34006 | 137 [2] | [53] 54 | ivy–[BW25113_RS01325] | ivy,fadE,lpcA,yafJ,dpaA,yafQ,dinJ,yafL,rayT,BW25113_RS01160,lafU,dinB,yafN,yafO,yafP,BW25113_RS01190,prfH,pepD,gpt,frsA,crl,phoE,proB,proA,BW25113_RS01235,ykfI,yafW,ykfH,ykfG,yafX,ykfF,BW25113_RS01265,BW25113_RS25425,BW25113_RS25430,BW25113_RS25435,yafZ,ykfA,perR,BW25113_RS01295,BW25113_RS01300,BW25113_RS01305,ykfC,[BW25113_RS01325] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 236740 | 2 (0.020) | 134 (1.380) | 104/494 | 0.0 | 98.5% | intergenic (‑64/‑117) | yafV/ivy | 2‑oxoglutaramate amidase/Ivy family C‑type lysozyme inhibitor |
| ? | NZ_CP009273 | 269666 = | NA (NA) | intergenic (+2/+146) | ykfC/BW25113_RS01325 | reverse transcriptase domain‑containing protein/IS5‑like element IS5 family transposase | |||||
| * | ? | NZ_CP009273 | 1203246 = | 14 (0.140) | 62 (0.680) | 60/462 | 1.2 | 78.9% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 20 (0.220) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 14 (0.140) | 71 (0.780) | 66/462 | 0.8 | 81.1% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 20 (0.220) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 1911494 = | 2 (0.020) | 91 (0.930) | 75/494 | 0.6 | 97.9% | coding (980/1284 nt) | yebS | membrane integrity lipid transport subunit YebS |
| ? | NZ_CP009273 | 2095230 = | NA (NA) | pseudogene (1/354 nt) | wbbL | N‑acetylglucosaminyl‑diphospho‑decaprenol L‑rhamnosyltransferase WbbL | |||||
| * | ? | NZ_CP009273 | = 1911497 | 2 (0.020) | 139 (1.430) | 104/494 | 0.0 | 98.6% | coding (983/1284 nt) | yebS | membrane integrity lipid transport subunit YebS |
| ? | 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 | 2262322 = | 3 (0.030) | 99 (1.020) | 92/494 | 0.1 | 97.1% | intergenic (+28/‑11) | yeiR/lpxT | zinc‑binding GTPase YeiR/Kdo(2)‑lipid A phosphotransferase |
| ? | 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 | = 2262325 | 0 (0.000) | 87 (0.890) | 77/494 | 0.5 | 100% | intergenic (+31/‑8) | yeiR/lpxT | zinc‑binding GTPase YeiR/Kdo(2)‑lipid A phosphotransferase |
| ? | NZ_CP009273 | 2282398 = | NA (NA) | pseudogene (3/2532 nt) | yejO | autotransporter YejO | |||||