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 103,922 Δ1 bp coding (879/918 nt) lpxC → UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase
RA 216,170 Δ1 bp coding (313/405 nt) rcsF ← Rcs stress response system protein RcsF
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
RA 2,277,556 (A)8→7 intergenic (‑130/‑52) yejK ← / → yejL nucleoid‑associated protein YejK/YejL family protein
RA 3,047,003 A→G Y399Y (TAT→TAC pepP ← Xaa‑Pro aminopeptidase
RA 3,332,444 G→T S55* (TCG→TAG)  mlaE ← lipid asymmetry maintenance ABC transporter permease subunit MlaE
RA 4,105,107 T→A D134V (GAT→GTT)  glpX ← class II fructose‑bisphosphatase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 275032–275642 286941–286350 10709–11910 36 [35] [35] 36 [BW25113_RS01350]–[BW25113_RS01405] [BW25113_RS01350],BW25113_RS01350,BW25113_RS23265,BW25113_RS01360,yagB,BW25113_RS26050,yagA,yagE,yagF,yagG,yagH,xynR,argF,argL,BW25113_RS23270,BW25113_RS01405,[BW25113_RS01405]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =46 (0.570)47 (0.580) 42/496 1.9 48.7% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 53 (0.660)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 2282398 =NA (NA)100 (1.240) 79/496 0.1 95.2% pseudogene (3/2532 nt) yejO autotransporter YejO
?NZ_CP009273 = 3793704 5 (0.060)coding (622/699 nt) rfaY lipopolysaccharide core heptose(II) kinase RfaY
* ? NZ_CP009273 = 3646589NA (NA)100 (1.250) 88/494 0.0 96.2% pseudogene (2/379 nt) BW25113_RS18165 hypothetical protein
?NZ_CP009273 3793700 = 4 (0.050)coding (626/699 nt) rfaY lipopolysaccharide core heptose(II) kinase RfaY