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 | = 3653230 | NA (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 |