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 | 119,500 | A→C | intergenic (+157/‑4) | pdhR → / → aceE | pyruvate dehydrogenase complex transcriptional repressor PdhR/pyruvate dehydrogenase (acetyl‑transferring), homodimeric type |
| MC JC | 1,290,924 | 2651 bp→80 bp | coding (4‑2654/2676 nt) | adhE ← | bifunctional acetaldehyde‑CoA/alcohol dehydrogenase |
| MC JC | 1,749,959 | 1388 bp→80 bp | coding (5‑1392/1413 nt) | pykF → | pyruvate kinase PykF |
| MC JC | 1,931,909 | 1419 bp→81 bp | coding (4‑1422/1443 nt) | pyk → | pyruvate kinase |
| RA | 2,560,531 | G→T | N312K (AAC→AAA) | eutH ← | ethanolamine utilization protein EutH |
| RA | 3,081,838 | G→A | A66T (GCA→ACA) | galP → | galactose/proton symporter |
| RA | 4,140,482 | G→T | R849S (CGC→AGC) | ppc ← | phosphoenolpyruvate carboxylase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 380208 | 380542 | 335 | 43 [41] | [41] 43 | BW25113_RS01880/tauA | PIG‑L family deacetylase/taurine ABC transporter substrate‑binding protein |
| * | * | ÷ | NZ_CP009273 | 578583 | 579176 | 594 | 42 [41] | [41] 42 | [BW25113_RS26085]–[appY] | [BW25113_RS26085],[appY] |
| * | * | ÷ | NZ_CP009273 | 946689 | 949098 | 2410 | 42 [41] | [39] 48 | pflB–[focA] | pflB,[focA] |
| * | * | ÷ | NZ_CP009273 | 1972971 | 1973149 | 179 | 112 [0] | [37] 49 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 3798057 | 3798583 | 527 | 42 [40] | [40] 50 | [rfaS]–[rfaP] | [rfaS],[rfaP] |
| * | * | ÷ | NZ_CP009273 | 4127838 | 4128981 | 1144 | 44 [38] | [31] 46 | gldA–[fsa] | gldA,[fsa] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | 69 (0.670) | 81 (0.780) | 52/430 | 0.9 | 51.6% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 83 (0.800) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 45 (0.430) | 100 (1.040) | 67/398 | 0.2 | 75.6% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 23 (0.240) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 45 (0.430) | 68 (0.710) | 51/398 | 0.7 | 67.8% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 23 (0.240) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1463497 | NA (NA) | 94 (0.910) | 67/430 | 0.3 | 100% | intergenic (‑91/‑118) | BW25113_RS07355/BW25113_RS07365 | IS3‑like element IS2 family transposase/IS30‑like element IS30 family transposase |
| ? | NZ_CP009273 | 1590687 = | 0 (0.000) | pseudogene (1657/5422 nt) | BW25113_RS07915 | ECSE_1600 family autotransporter | |||||
| * | ? | NZ_CP009273 | = 1590691 | 0 (0.000) | 110 (1.060) | 78/430 | 0.1 | 100% | pseudogene (1653/5422 nt) | BW25113_RS07915 | ECSE_1600 family autotransporter |
| ? | NZ_CP009273 | = 1645805 | NA (NA) | intergenic (+11/‑3) | BW25113_RS08260/BW25113_RS25635 | IS3‑like element IS2 family transposase/tyrosine‑type recombinase/integrase | |||||
| * | ? | NZ_CP009273 | = 1972970 | 0 (0.000) | 112 (1.080) | 77/430 | 0.1 | 100% | intergenic (‑516/‑264) | 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 | |||||