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 | 7,144 | C→A | E272D (GAG→GAT) | yaaJ ← | putative transporter YaaJ |
| RA | 28,272 | G→T | intergenic (+65/‑102) | rihC → / → dapB | ribonucleoside hydrolase RihC/4‑hydroxy‑tetrahydrodipicolinate reductase |
| RA | 32,266 | C→A | L484M (CTG→ATG) | carB → | carbamoyl phosphate synthetase subunit beta |
| RA | 189,303 | G→T | S68S (TCC→TCA) | map ← | methionine aminopeptidase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 559,046 | G→T | G25* (GGA→TGA) | sfmC → | putative fimbrial chaperone SfmC |
| RA | 580,273 | G→T | S58* (TCA→TAA) | ylcI ← | DLP12 prophage; DUF3950 domain‑containing protein YlcI |
| RA | 622,331 | G→T | S11I (AGC→ATC) | entS → | enterobactin exporter EntS |
| RA | 760,657 | C→A | A651E (GCG→GAG) | sucA → | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| RA | 849,358 | G→T | A247E (GCG→GAG) | rhtA ← | L‑threonine/L‑homoserine exporter |
| RA | 868,758 | G→T | S413S (TCG→TCT) | gsiA → | glutathione ABC transporter ATP binding subunit GsiA |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,058,640 | G→T | S186I (AGC→ATC) | torC → | cytochrome c menaquinol dehydrogenase TorC |
| RA | 1,447,224 | G→T | C20* (TGC→TGA) | feaR ← | DNA‑binding transcriptional activator FeaR |
| JC JC | 1,621,212 | IS5 (+) +4 bp | intergenic (‑75/‑117) | eamA ← / → ydeE | cysteine/O‑acetylserine exporter EamA/dipeptide exporter |
| 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 |
| RA | 1,920,117 | G→C | E870Q (GAA→CAA) | yebT → | intermembrane transport protein YebT |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,984,502 | G→T | R190R (CGA→AGA) | araG ← | arabinose ABC transporter ATP binding subunit |
| RA | 2,079,749 | G→T | S281R (AGC→AGA) | yeeA ← | putative transporter YeeA |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,204,907 | C→A | A104A (GCC→GCA) | yehL → | putative AAA(+) MoxR family ATPase YehL |
| RA | 2,488,746 | Δ1 bp | coding (423/1146 nt) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,575,228 | G→T | P77Q (CCG→CAG) | eutP ← | putative ethanolamine utilization protein EutP with nucleoside triphosphate hydrolase domain |
| RA | 2,870,483 | G→T | F274L (TTC→TTA) | truD ← | tRNA pseudouridine(13) synthase |
| RA | 2,941,694 | C→A | A292S (GCC→TCC) | gcvA ← | DNA‑binding transcriptional dual regulator GcvA |
| RA | 3,058,923 | C→A | V135F (GTT→TTT) | rpiA ← | ribose‑5‑phosphate isomerase A |
| RA | 3,113,188 | G→T | P97Q (CCG→CAG) | yghG ← | lipoprotein YghG |
| RA | 3,352,017 | C→A | D337Y (GAT→TAT) | arcB ← | sensory histidine kinase ArcB |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,414,676 | C→A | G271G (GGC→GGA) | acrE → | multidrug efflux pump membrane fusion lipoprotein AcrE |
| RA | 3,480,378 | G→A | P77L (CCC→CTC) | kefB ← | K(+) : H(+) antiporter KefB |
| 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 | 3,873,800 | G→T | L225L (CTC→CTA) | dgoK ← | 2‑dehydro‑3‑deoxygalactonokinase |
| RA | 3,908,515 | G→T | intergenic (‑149/+34) | pstB ← / ← pstA | phosphate ABC transporter ATP binding subunit/phosphate ABC transporter membrane subunit PstA |
| RA | 4,124,617 | C→A | G732C (GGT→TGT) | priA ← | primosome factor N' |
| RA | 4,125,373 | C→A | G480C (GGT→TGT) | priA ← | primosome factor N' |
| 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 | 4,434,110 | G→T | intergenic (‑86/‑3) | qorB ← / → ytfH | NAD(P)H:quinone oxidoreductase/putative transcriptional regulator YtfH |
| RA | 4,449,960 | C→A | intergenic (‑308/‑2) | ppa ← / → ytfQ | inorganic pyrophosphatase/galactofuranose ABC transporter periplasmic binding protein |
| RA | 4,539,099 | C→A | A135S (GCT→TCT) | nanC ← | N‑acetylneuraminic acid outer membrane channel |
| RA | 4,581,769 | G→A | T427M (ACG→ATG) | hsdM ← | type I restriction enzyme EcoKI methyltransferase component |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1640952 | 1641043 | 92 | 18 [17] | [17] 18 | essQ/cspB | Qin prophage; putative S lysis protein/Qin prophage; cold shock‑like protein CspB |
| * | * | ÷ | NC_000913 | 2470136 | 2470505 | 370 | 18 [16] | [17] 21 | [yfdI] | [yfdI] |
| * | * | ÷ | NC_000913 | 3102993 | 3104069 | 1077 | 18 [17] | [17] 19 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423785–3424234 | 3424530–3424242 | 9–746 | 20 [14] | [17] 19 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3499351 | 3499459 | 109 | 18 [16] | [17] 18 | [yhfL] | [yhfL] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 62 (0.780) | 32 (0.450) | 22/246 | 1.5 | 41.3% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 36 (0.510) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 63 (0.790) | 28 (0.400) | 24/246 | 1.3 | 37.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 36 (0.510) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 36 (0.470) | 29/270 | 1.1 | 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 = | 74 (0.930) | 77 (0.970) | 44/276 | 0.4 | 67.4% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 79 (0.990) | 50/278 | 0.3 | 95.2% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||