mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 345,403 | G→T | intergenic (+412/‑1) | yahL → / → yahM | uncharacterized protein YahL/uncharacterized protein YahM |
| RA | 568,802 | T→C | I36I (ATT→ATC) | ylcJ → | protein YlcJ |
| RA | 697,054 | (A)7→6 | intergenic (‑7/+3) | leuW ← / ← metT | tRNA‑Leu/tRNA‑Met |
| RA | 806,807 | G→T | P159T (CCT→ACT) | ybhC ← | outer membrane lipoprotein YhbC |
| 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 | 1,399,671 | G→T | intergenic (‑145/+50) | fnr ← / ← ogt | DNA‑binding transcriptional dual regulator FNR/methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| RA | 1,512,138 | G→T | S162I (AGC→ATC) | ydcS → | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| 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 |
| RA | 2,542,254 | G→T | R87S (CGC→AGC) | cysU ← | sulfate/thiosulfate ABC transporter inner membrane subunit CysU |
| RA | 2,555,317 | G→T | L138M (CTG→ATG) | eutK ← | putative structural protein, ethanolamine utilization microcompartment |
| RA | 2,715,617 | A→T | A65A (GCA→GCT) | eamB → | cysteine/O‑acetylserine exporter EamB |
| RA | 2,769,535 | C→A | intergenic (+49/‑168) | yfjQ → / → yfjR | CP4‑57 prophage; protein YfjQ/CP4‑57 prophage; putative DNA‑binding transcriptional regulator |
| RA | 2,943,207 | G→T | intergenic (‑62/‑130) | ygdI ← / → csdA | DUF903 domain‑containing lipoprotein YgdI/cysteine sulfinate desulfinase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,393,586 | G→T | G891G (GGC→GGA) | yhdP ← | AsmA2 domain‑containing protein |
| 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 | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,505,167 | C→A | G370G (GGC→GGA) | yjhB → | putative sialic acid transporter |
| JC JC | 4,543,608 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (494‑499/549 nt) | fimA → | type 1 fimbriae major subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196245 | 1211442 | 15198 | 71 [57] | [58] 63 | [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 | 3102950 | 3104084 | 1135 | 59 [56] | [57] 59 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423767–3424234 | 3424540–3424239 | 6–774 | 62 [57] | [57] 59 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 133 (0.800) | 78/268 | 0.4 | 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 = | 194 (1.130) | 191 (1.120) | 73/274 | 0.5 | 65.5% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 9 (0.050) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 161 (0.940) | 78/276 | 0.4 | 98.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.010) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||