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 |
| JC | 2,134,839 | Δ5 bp | coding (251‑255/1854 nt) | asmA ← | outer membrane assembly protein AsmA |
| MC JC | 2,459,864 | Δ10,215 bp | intS–torI | 17 genes intS, yfdG, yfdH, BW25113_RS12270, BW25113_RS26185, BW25113_RS12275, yfdK, BW25113_RS12285, yfdM, yfdN, BW25113_RS26000, BW25113_RS12305, yfdQ, yfdR, BW25113_RS12320, BW25113_RS12325, torI |
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| RA | 3,631,327 | T→G | L109R (CTG→CGG) | pitA → | inorganic phosphate transporter PitA |
| RA | 4,322,608 | A→C | V164G (GTG→GGG) | pmrB ← | two‑component system sensor histidine kinase PmrB |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 235454 | 270747–269666 | 34213–35294 | 134 [0] | [57] 59 | [BW25113_RS01100]–[BW25113_RS01325] | [BW25113_RS01100],BW25113_RS25420,yafV,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 | = 235453 | 0 (0.000) | 134 (1.290) | 112/492 | 0.0 | 100% | pseudogene (137/357 nt) | BW25113_RS01100 | hypothetical protein |
| ? | NZ_CP009273 | 269666 = | NA (NA) | intergenic (+2/+146) | ykfC/BW25113_RS01325 | reverse transcriptase domain‑containing protein/IS5‑like element IS5 family transposase | |||||
| * | ? | NZ_CP009273 | 360104 = | 44 (0.420) | 67 (0.640) | 59/492 | 1.8 | 56.1% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 61 (0.590) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 25 (0.240) | 76 (0.780) | 72/460 | 0.6 | 77.0% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 22 (0.230) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 25 (0.240) | 52 (0.540) | 48/460 | 2.6 | 69.6% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 22 (0.230) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 2457817 = | 8 (0.080) | 115 (1.110) | 101/492 | 0.1 | 93.5% | coding (670/756 nt) | mlaA | phospholipid‑binding lipoprotein MlaA |
| ? | NZ_CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑209) | BW25113_RS17830/BW25113_RS25760 | IS1‑like element IS1A family transposase/protein YrhD | |||||
| * | ? | NZ_CP009273 | = 2457826 | 2 (0.020) | 109 (1.050) | 98/490 | 0.1 | 98.2% | coding (661/756 nt) | mlaA | phospholipid‑binding lipoprotein MlaA |
| ? | NZ_CP009273 | 3576789 = | NA (NA) | coding (392/417 nt) | BW25113_RS17825 | YrhA family protein | |||||