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 | 118,140 | C→A | C169F (TGC→TTC) | nadC ← | quinolinate phosphoribosyltransferase (decarboxylating) |
| RA | 175,221 | G→T | A39S (GCG→TCG) | clcA → | chloride:H(+) antiporter ClcA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 262,942 | C→A | noncoding (72/76 nt) | thrW → | tRNA‑Thr |
| RA | 753,026 | T→C | intergenic (‑231/+159) | ybgD ← / ← gltA | putative fimbrial protein YbgD/citrate synthase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,690,971 | C→A | L374M (CTG→ATG) | ydgA → | conserved protein YdgA |
| 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 | 2,076,069 | A→T | I431F (ATC→TTC) | yeeR → | CP4‑44 prophage; inner membrane protein YeeR |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,285,185 | G→T | L270L (CTG→CTT) | yejM → | putative cardiolipin transport protein |
| RA | 2,469,105 | A→T | K298* (AAA→TAA) | yfdH → | CPS‑53 (KpLE1) prophage; bactoprenol glucosyl transferase |
| RA | 2,515,609 | C→A | intergenic (+166/+34) | insL‑3 → / ← pdeA | putative IS186/IS421 transposase/putative c‑di‑GMP phosphodiesterase PdeA |
| RA | 2,830,359 | G→T | A183S (GCC→TCC) | gutQ → | D‑arabinose 5‑phosphate isomerase GutQ |
| RA | 2,834,011 | G→T | A34S (GCC→TCC) | norW → | NADH:flavorubredoxin reductase |
| RA | 3,120,882 | G→T | A133D (GCT→GAT) | glcA ← | glycolate/lactate:H(+) symporter GlcA |
| 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 | 4,016,851 | G→T | V141F (GTT→TTT) | udp → | uridine phosphorylase |
| RA | 4,018,119 | G→T | A263S (GCC→TCC) | rmuC → | putative recombination limiting protein RmuC |
| RA | 4,192,613 | G→T | T8K (ACG→AAG) | thiG ← | 1‑deoxy‑D‑xylulose 5‑phosphate:thiol sulfurtransferase |
| 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 | 126323 | 126373 | 51 | 2 [1] | [1] 3 | aceF | pyruvate dehydrogenase, E2 subunit |
| * | * | ÷ | NC_000913 | 3103016 | 3104044 | 1029 | 3 [0] | [1] 2 | mutY | adenine DNA glycosylase |
| * | * | ÷ | NC_000913 | 3423792–3424234 | 3424515–3424242 | 9–724 | 3 [1] | [1] 2 | [rrlD] | [rrlD] |
| * | * | ÷ | NC_000913 | 3603211 | 3603223 | 13 | 2 [1] | [0] 2 | ftsY | signal recognition particle receptor |
| * | * | ÷ | NC_000913 | 3619399–3621072 | 3622174–3621092 | 21–2776 | 2 [1] | [1] 2 | rhsB | rhs element protein RhsB |
| * | * | ÷ | NC_000913 | 3803440 | 3803501 | 62 | 2 [1] | [1] 2 | waaB | UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑1, 6‑D‑galactosyltransferase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 374922 = | NA (NA) | 7 (0.380) | 3/262 | 2.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 1207790 = | 18 (0.920) | 13 (0.750) | 13/246 | 0.3 | 44.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 17 (0.990) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 31 (1.590) | 22 (1.140) | 20/276 | 0.1 | 58.8% | 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) | 30 (1.540) | 21/278 | 0.1 | 96.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 1 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 4323260 | NA (NA) | 3 (0.170) | 3/248 | 1.9 | NA | noncoding (21/34 nt) | other | REP324a |
| ? | NC_000913 | = 4326069 | NA (NA) | noncoding (18/34 nt) | other | REP325f | |||||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 13 (0.720) | 6/258 | 1.2 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||