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
MC JC 257,908 Δ776 bp [crl] [crl]
RA 455,600 C→A G156G (GGC→GGA tig → peptidyl‑prolyl cis/trans isomerase (trigger factor)
MC JC 1,299,499 Δ1,199 bp intergenic (+254/‑485) ychE → / → oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
MC JC 1,978,503 Δ776 bp insB1insA insB1, insA
JC JC 1,979,486 IS5 (+) +4 bp intergenic (‑271/‑264) insA ← / → uspC IS1 repressor TnpA/universal stress protein
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 3,176,112 G→A P241L (CCC→CTC)  cpdA ← 3',5' cAMP phosphodiesterase
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 3,636,114 C→A intergenic (+221/+94) yhiM → / ← yhiN acid resistance protein, inner membrane/putative oxidoreductase
RA 3,768,131 A→T pseudogene (911/945 nt) rhsJ → Rhs‑family protein
RA 3,964,929 C→T E234E (GAG→GAA rhlB ← ATP‑dependent RNA helicase
RA 3,992,784 C→A Y544* (TAC→TAA cyaA → adenylate cyclase
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 123061 127537 4477 10 [9] [9] 11 [aceE]–[aceF] [aceE],[aceF]
* * ÷ NC_000913 2518099 2518203 105 11 [9] [9] 10 [alaX]–[alaW] [alaX],[alaW]
* * ÷ NC_000913 3423797–3424542 3424542 1–746 10 [6] [9] 10 [rrlD] [rrlD]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 3886788NA (NA)9 (0.250) 8/270 2.9 NA noncoding (11/29 nt) REP281 (repetitive extragenic palindromic) element; contains 1 REP sequences REP281 (repetitive extragenic palindromic) element; contains 1 REP sequences
?NC_000913 = 3886799 NA (NA)noncoding (22/29 nt) REP281 (repetitive extragenic palindromic) element; contains 1 REP sequences REP281 (repetitive extragenic palindromic) element; contains 1 REP sequences