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 3,081,838 G→A A66T (GCA→ACA)  galP → galactose/proton symporter
RA 3,986,413 +C coding (1901/2547 nt) cyaA → class I adenylate cyclase
RA 4,106,389 C→A Q254H (CAG→CAT glpK ← glycerol kinase GlpK
RA 4,140,541 A→C I829S (ATT→AGT)  ppc ← phosphoenolpyruvate carboxylase
RA 4,442,780 C→T I130I (ATC→ATT ytfT → ABC transporter permease

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 946651 949087 2437 45 [44] [44] 45 pflB–[focA] pflB,[focA]
* * ÷ NZ_CP009273 1459321 1459592 272 45 [44] [42] 45 BW25113_RS25580 BW25113_RS25580
* * ÷ NZ_CP009273 1524292 1524687 396 45 [43] [44] 45 BW25113_RS26145–[BW25113_RS25600] BW25113_RS26145,[BW25113_RS25600]
* * ÷ NZ_CP009273 1972971 1973181 211 107 [0] [44] 46 flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* * ÷ NZ_CP009273 2027027 2027518 492 45 [42] [43] 45 drpB/ompC cell division protein DrpB/porin OmpC
* * ÷ NZ_CP009273 2337697 2337958 262 46 [44] [43] 50 yfaL/nrdA AIDA‑I family autotransporter adhesin YfaL/EhaC/ribonucleoside‑diphosphate reductase subunit alpha
* * ÷ NZ_CP009273 2462588 2463374 787 47 [44] [43] 45 [yfdH]–[BW25113_RS12270] [yfdH],[BW25113_RS12270]
* * ÷ NZ_CP009273 3280349 3280787 439 47 [44] [31] 45 [agaI]–[yraH] [agaI],[yraH]
* * ÷ NZ_CP009273 3786973 3787118 146 45 [39] [42] 47 [yibB] [yibB]
* * ÷ NZ_CP009273 3792313 3792922 610 45 [43] [42] 50 [waaU]–[waaZ] [waaU],[waaZ]
* * ÷ NZ_CP009273 3797548 3797934 387 46 [44] [44] 46 rfaS LPS core biosynthesis protein RfaS
* * ÷ NZ_CP009273 4127787 4129012 1226 45 [43] [42] 48 gldA–[fsa] gldA,[fsa]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =73 (0.690)64 (0.610) 45/450 1.5 51.6% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 47 (0.450)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 = 19729700 (0.000)107 (1.020) 65/450 0.4 100% 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