breseq  version 0.26.1  
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
MC JC 257,908 Δ776 bp [crl] [crl]
RA 697,151 A→G intergenic (‑18/+362) metT ← / ← asnB tRNA‑Met/asparagine synthetase B
RA 757,875 G→A D63N (GAC→AAC)  sdhB → succinate dehydrogenase, FeS subunit
RA 1,196,220 C→T H366H (CAC→CAT)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,232 C→T T370T (ACC→ACT)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,245 T→C L375L (TTA→CTA)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
RA 1,196,247 A→G L375L (TTA→TTG)  icd → isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
MC JC 1,674,993 1365 bp→81 bp coding (4‑1368/1389 nt) pntB ← pyridine nucleotide transhydrogenase, beta subunit
MC JC 1,978,503 Δ776 bp insB1–insA insB1, insA
RA 2,173,363 Δ2 bp intergenic (‑1/+1) gatC ← / ← gatC pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
RA 3,053,438 C→G L27L (CTG→CTC)  ubiH ← 2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding
RA 3,475,761 A→C I227S (ATC→AGC)  yheO ← putative PAS domain‑containing DNA‑binding transcriptional regulator
RA 3,560,455 +G intergenic (‑2/+1) glpR ← / ← glpR pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
RA 3,815,813 A→G intergenic (‑45/+21) pyrE ← / ← rph orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
MC JC 3,915,584 6827 bp→81 bp [atpC]–[atpI] [atpC], atpD, atpG, atpA, atpH, atpF, atpE, atpB, [atpI]
RA 4,240,372 G→T L16F (TTG→TTT)  psiE → phosphate starvation inducible protein
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA 4,360,235 G→T intergenic (‑204/+161) cadB ← / ← cadC putative lysine/cadaverine transporter/cadBA operon transcriptional activator

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 1166036 1167412 1377 21 [20] [20] 21 ndh ndh
* * ÷ NC_000913 1196256 1211488 15233 21 [20] [20] 21 [icd]–[icdC] 25 genes
[icd], ymfD, ymfE, lit, intE, xisE, ymfI, ymfJ, cohE, croE, ymfL, ymfM, oweE, aaaE, ymfR, beeE, jayE, ymfQ, stfP, tfaP, tfaE, stfE, pinE, mcrA, [icdC]
* * ÷ NC_000913 3423742–3424234 3424532–3424239 6–791 21 [20] [20] 21 [rrfD]–[rrlD] [rrfD], [rrlD]

Unassigned new junction evidence...
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 12994980 (0.000)56 (1.180) 52/410 0.0 100% intergenic (+253/‑1684) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
?NC_000913 1300698 = 0 (0.000)intergenic (+1453/‑484) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein