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 264,098 G→T L50L (CTC→CTA)  ykfH ← uncharacterized protein
RA 275,065 G→A T18I (ACC→ATC)  insH1 ← IS5 transposase and trans‑activator
RA 389,925 (T)6→7 intergenic (‑198/‑326) hemB ← / → yaiT 5‑aminolevulinate dehydratase (porphobilinogen synthase)/pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein
RA 482,230 G→A P725L (CCG→CTG)  acrB ← multidrug efflux system protein
RA 1,158,559 C→T Q231* (CAG→TAG)  ptsG → fused glucose‑specific PTS enzymes: IIB component/IIC component
RA 1,197,502 C→T G11R (GGA→AGA)  ymfD ← e14 prophage; putative SAM‑dependent methyltransferase
RA 1,544,022 1 bp→AA coding (39/1389 nt) narU ← nitrate/nitrite transporter
RA 1,726,006 C→A intergenic (‑86/‑17) ydhL ← / → nemR DUF1289 family protein/transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
RA 1,726,165 A→G Y48C (TAC→TGC)  nemR → transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
RA 1,755,792 G→T R32L (CGT→CTT)  pykF → pyruvate kinase I
RA 1,774,576 G→A G263E (GGG→GAG)  ydiB → quinate/shikimate 5‑dehydrogenase, NAD(P)‑binding
MC JC 1,978,503 Δ776 bp insB1–insA insB1, insA
RA 2,106,741 A→T S162S (TCT→TCA)  wbbH ← O‑antigen polymerase
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 2,679,525 G→T A1074D (GCT→GAT)  yphG ← DUF4380 domain‑containing TPR repeat protein
RA 2,795,396 C→A Q382K (CAG→AAG)  gabP → gamma‑aminobutyrate transporter
RA 2,817,170 C→A E112* (GAA→TAA)  yqaB ← fructose‑1‑P and 6‑phosphogluconate phosphatase
RA 2,976,638 T→G S14A (TCA→GCA)  galR → galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor
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 4,183,136 G→T R637L (CGT→CTT)  rpoB → RNA polymerase, beta subunit
RA 4,296,363 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
RA 4,604,698 C→A A186E (GCA→GAA)  bglJ → bgl operon transcriptional activator

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913_3_hsa_tpiA 3423716–3424234 3424556–3424238 5–841 42 [38] [41] 42 [rrfD]–[rrlD] [rrfD],[rrlD]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_hsa_tpiA = 12994980 (0.000)105 (1.190) 73/262 0.2 100% intergenic (+253/‑1684) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
?NC_000913_3_hsa_tpiA 1300698 = 0 (0.000)intergenic (+1453/‑484) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein