breseq  version 0.32.0b  
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 468,288 A→T K79* (AAG→TAG)  glnK → nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB
JC JC 2,400,257 IS5 (+) +4 bp intergenic (‑137/‑780) lrhA ← / → alaA transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2
RA 2,420,353 A→T intergenic (‑86/+135) hisJ ← / ← argT histidine/lysine/arginine/ornithine transporter subunit/lysine/arginine/ornithine transporter subunit
RA 2,860,628 T→A I95F (ATC→TTC)  rpoS ← RNA polymerase, sigma S (sigma 38) factor
JC JC 3,178,254 IS5 (+) +4 bp coding (56‑59/291 nt) yqiC → BMFP family putative fusogenic protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ CP009273 2084533 2085915 1383 55 [54] [54] 56 [hisG]–[hisC] [hisG], hisD, [hisC]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 360104 =NA (NA)206 (1.950) 120/294 0.0 NA intergenic (‑38/+557) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 = 360286 NA (NA)intergenic (‑220/+375) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
* ? CP009273 2507756 =NA (NA)108 (1.040) 82/288 0.1 99.1% intergenic (+33/‑54) nupC/insL1 nucleoside (except guanosine) transporter/IS186 transposase
?CP009273 = 4533433 1 (0.010)coding (502/549 nt) fimA major type 1 subunit fimbrin (pilin)
* ? CP009273 = 2509092NA (NA)89 (0.860) 72/288 0.4 92.8% intergenic (+170/+30) insL1/yfeA IS186 transposase/putative diguanylate cyclase
?CP009273 4533422 = 7 (0.070)coding (491/549 nt) fimA major type 1 subunit fimbrin (pilin)