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 469,207 Δ1 bp coding (337/1773 nt) mdlA → ABC transporter family protein MdlA
RA 889,923 A→G intergenic (‑104/‑166) ybjL ← / → ybjM putative transport protein YbjL/putative inner membrane protein
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 1,250,927 C→A intergenic (‑89/‑139) dhaK ← / → dhaR dihydroxyacetone kinase subunit K/DNA‑binding transcriptional dual regulator DhaR
MC JC 1,299,499 Δ1,199 bp insH21 insH21
JC JC 1,879,829 Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp coding (115‑120/360 nt) yeaR ← DUF1971 domain‑containing protein YeaR
MC JC 1,978,503 Δ776 bp insB‑5–insA‑5 insB‑5, insA‑5
RA 2,173,363 Δ2 bp pseudogene (915‑916/1358 nt) gatC ← galactitol‑specific PTS enzyme IIC component
MC JC 2,279,236 Δ198 bp coding (328‑525/1191 nt) bcr ← multidrug efflux pump Bcr
RA 3,322,443 C→A M21I (ATG→ATT)  secG ← Sec translocon subunit SecG
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 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 658645 658680 36 2 [1] [1] 5 ybeM deamidated glutathione amidase, N‑terminal fragment
* * ÷ NC_000913 696829 696866 38 3 [1] [1] 2 [glnW]–[glnU] [glnW],[glnU]
* * ÷ NC_000913 1112230 1112334 105 2 [1] [0] 2 opgH osmoregulated periplasmic glucans (OPGs) biosynthesis protein H
* * ÷ NC_000913 1115975 1116068 94 3 [1] [1] 2 lpxL lauroyl acyltransferase
* * ÷ NC_000913 1196302 1211442 15141 2 [1] [1] 5 [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 1255026 1255067 42 2 [1] [1] 2 ycgV putative autotransporter adhesin YcgV
* * ÷ NC_000913 1341748 1341769 22 2 [1] [1] 2 lapB/pyrF lipopolysaccharide assembly protein B/orotidine‑5'‑phosphate decarboxylase
* * ÷ NC_000913 3423785–3424230 3424513–3424243 14–729 3 [1] [1] 2 [rrfD]–[rrlD] [rrfD],[rrlD]
* * ÷ NC_000913 3957085 3957149 65 2 [0] [1] 2 ilvY DNA‑binding transcriptional dual regulator IlvY

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 3363001 =43 (2.090)31 (1.520) 23/274 0.1 59.2% coding (195/2382 nt) yhcD putative fimbrial usher protein YhcD
?NC_000913 3766087 = 0 (0.000)coding (3905/4134 nt) rhsA rhs element protein RhsA
* ? NC_000913 = 3653230NA (NA)29 (1.410) 23/276 0.1 100% noncoding (1/1195 nt) IS5 repeat region
?NC_000913 = 3766089 0 (0.000)coding (3907/4134 nt) rhsA rhs element protein RhsA