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 |
| RA | 87,336 | C→A | S569R (AGC→AGA) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 141,380 | C→A | intergenic (‑155/‑51) | gcd ← / → hpt | quinoprotein glucose dehydrogenase/hypoxanthine phosphoribosyltransferase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 335,047 | IS1 (+) +9 bp | intergenic (‑25/‑225) | yahC ← / → yahD | uncharacterized protein YahC/ankyrin repeat‑containing protein YahD |
| RA | 772,783 | C→A | F442L (TTC→TTA) | cydA → | cytochrome bd‑I ubiquinol oxidase subunit I |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,097,052 | C→A | intergenic (+223/+513) | ycdU → / ← serX | uncharacterized protein YcdU/tRNA‑Ser |
| RA | 1,116,917 | T→C | D37D (GAT→GAC) | yceA → | UPF0176 protein YceA |
| RA | 1,197,425 | G→T | S36R (AGC→AGA) | ymfD ← | e14 prophage; putative SAM‑dependent methyltransferase |
| RA | 1,361,714 | C→A | R199S (CGC→AGC) | puuD → | gamma‑glutamyl‑gamma‑aminobutyrate hydrolase |
| RA | 1,439,379 | C→A | R469L (CGA→CTA) | ydbK ← | putative pyruvate‑flavodoxin oxidoreductase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,702,155 | G→T | intergenic (+26/‑78) | malY → / → add | negative regulator of MalT activity/cystathionine beta‑lyase/adenosine deaminase |
| 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 | 2,241,572 | G→T | R33S (CGT→AGT) | galS ← | DNA‑binding transcriptional dual regulator GalS |
| RA | 2,730,953 | T→C | noncoding (205/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 3,305,374 | G→T | A148A (GCC→GCA) | mtr ← | tryptophan:H(+) symporter Mtr |
| 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 | 3,696,654 | C→A | A66E (GCG→GAG) | bcsE → | c‑di‑GMP‑binding protein BcsE |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102949 | 3104054 | 1106 | 51 [48] | [48] 49 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423766–3424525 | 3424525 | 1–760 | 50 [48] | [34] 53 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 39 (0.210) | 274 (1.690) | 91/244 | 0.1 | 87.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 41 (0.250) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 39 (0.210) | 121 (0.750) | 59/244 | 0.7 | 76.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 41 (0.250) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 322 (1.810) | 110/268 | 0.0 | 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 = | 297 (1.620) | 303 (1.670) | 97/274 | 0.1 | 66.7% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 8 (0.040) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 208 (1.140) | 85/276 | 0.3 | 95.0% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 11 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||