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 insB9[crl] insB9, insA9, [crl]
RA 652,063 A→G intergenic (‑207/‑172) citC ← / → dpiB citrate lyase synthetase/sensory histidine kinase DpiB
RA 745,356 A→C E64D (GAA→GAC pxpA → 5‑oxoprolinase component A
RA 889,923 A→G intergenic (‑104/‑166) ybjL ← / → ybjM putative transport protein YbjL/putative inner membrane protein
RA 1,020,961 A→G intergenic (‑42/‑177) sulA ← / → sxy cell division inhibitor SulA/transcriptional coactivator for CRP
RA 1,196,220 C→T H366H (CAC→CAT icd → isocitrate dehydrogenase
RA 1,196,232 C→T T370T (ACC→ACT icd → isocitrate dehydrogenase
RA 1,196,245 T→C L375M (TTA→CTG)  icd → isocitrate dehydrogenase
RA 1,196,247 A→G L375M (TTA→CTG icd → isocitrate dehydrogenase
RA 1,212,088 (C)8→7 intergenic (‑85/+172) iraM ← / ← ymgK anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK
RA 1,453,709 G→A intergenic (‑67/‑218) paaZ ← / → paaA oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase/phenylacetyl‑CoA 1,2‑epoxidase, monooxygenase subunit
JC JC 1,879,829 Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp coding (115‑120/360 nt) yeaR ← DUF1971 domain‑containing protein YeaR
RA 1,904,926 Δ1 bp coding (126/459 nt) yobD → conserved inner membrane protein YobD
MC JC 1,978,503 Δ776 bp insB‑5insA‑5 insB‑5, insA‑5
JC JC 2,168,543 IS2 (–) +5 bp intergenic (‑237/‑165) yegR ← / → yegS uncharacterized protein YegR/lipid kinase
RA 2,173,363 Δ2 bp pseudogene (915‑916/1358 nt) gatC ← galactitol‑specific PTS enzyme IIC component
RA 2,947,456 (C)5→6 noncoding (70/77 nt) metZ → tRNA‑Met
RA 3,354,487 C→T intergenic (‑437/‑238) yhcC ← / → gltB radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB
RA 3,560,455 +G pseudogene (151/758 nt) glpR ← DNA‑binding transcriptional repressor GlpR
RA 3,815,883 +C coding (667/687 nt) rph ← truncated RNase PH
RA 3,949,786 C→A A62S (GCG→TCG)  yifB ← putative magnesium chelatase YifB
RA 4,025,837 C→G P284A (CCG→GCG)  ubiD → 3‑octaprenyl‑4‑hydroxybenzoate decarboxylase
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,325,822 G→A intergenic (‑81/+577) yjdN ← / ← yjdM conserved protein YjdN/conserved protein YjdM
RA 4,325,847 2 bp→CA intergenic (‑106/+551) yjdN ← / ← yjdM conserved protein YjdN/conserved protein YjdM
RA 4,392,446 Δ1 bp intergenic (+11/‑26) glyV → / → glyX tRNA‑Gly/tRNA‑Gly
RA 4,392,453 C→T intergenic (+18/‑19) glyV → / → glyX tRNA‑Gly/tRNA‑Gly
RA 4,392,456 A→G intergenic (+21/‑16) glyV → / → glyX tRNA‑Gly/tRNA‑Gly

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 1196270 1211433 15164 12 [10] [10] 11 [icd]–[icdC] [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC]
* * ÷ NC_000913 3423770–3424234 3424525–3424239 6–756 11 [9] [10] 20 [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)38 (0.750) 27/266 0.7 100% intergenic (+253/‑33) ychE/insH21 putative inner membrane protein/IS5 transposase and trans‑activator
?NC_000913 1300698 = 0 (0.000)intergenic (+151/‑484) insH21/oppA IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein
* ? NC_000913 3363001 =76 (1.450)79 (1.520) 49/272 0.1 67.4% coding (195/2382 nt) yhcD putative fimbrial usher protein YhcD
?NC_000913 3766087 = 1 (0.020)coding (3905/4134 nt) rhsA rhs element protein RhsA
* ? NC_000913 = 3653230NA (NA)65 (1.240) 44/274 0.1 97.0% noncoding (1/1195 nt) IS5 repeat region
?NC_000913 = 3766089 2 (0.040)coding (3907/4134 nt) rhsA rhs element protein RhsA
* ? NC_000913 = 454269051 (0.970)14 (0.290) 11/256 2.4 24.2% intergenic (+57/‑425) fimE/fimA regulator for fimA/type 1 fimbriae major subunit
?NC_000913 = 4542986 40 (0.820)intergenic (+353/‑129) fimE/fimA regulator for fimA/type 1 fimbriae major subunit