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 | 46,053 | C→A | R83S (CGC→AGC) | yaaU → | putative transporter YaaU |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 391,045 | IS2 (–) +5 bp | pseudogene (795‑799/1458 nt) | yaiT → | putative autotransporter YaiT |
| RA | 492,312 | G→T | G74V (GGC→GTC) G74V (GGC→GTC) |
dnaX → dnaX → |
DNA polymerase III subunit tau DNA polymerase III subunit tau |
| RA | 804,606 | C→A | V368V (GTC→GTA) | ybhJ → | putative hydratase YbhJ |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 891,331 | C→G | R50G (CGC→GGC) | nfsA → | NADPH‑dependent nitroreductase NfsA |
| RA | 1,440,603 | G→T | A61E (GCG→GAG) | ydbK ← | putative pyruvate‑flavodoxin oxidoreductase |
| RA | 1,465,642 | C→G | pseudogene (251/2518 nt) | ydbA → | putative outer membrane protein, N‑terminal fragment |
| RA | 1,494,019 | C→A | T517N (ACT→AAT) | trg → | methyl‑accepting chemotaxis protein Trg |
| 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 | 2,293,064 | C→A | W614L (TGG→TTG) | ccmF ← | holocytochrome c synthetase membrane subunit CcmF |
| RA | 2,361,905 | G→T | L103M (CTG→ATG) | yfaX ← | putative DNA‑binding transcriptional regulator YfaX |
| RA | 2,754,531 | G→T | R78R (CGC→CGA) | ratA ← | ribosome association toxin RatA |
| RA | 2,801,113 | G→T | G50V (GGC→GTC) | nrdI → | dimanganese‑tyrosyl radical cofactor maintenance flavodoxin NrdI |
| RA | 2,883,764 | C→A | T125T (ACG→ACT) | casA ← | type I‑E CRISPR system Cascade subunit CasA |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,484,252 | C→A | T12K (ACG→AAG) | yheU → | UPF0270 family protein YheU |
| RA | 3,505,231 | C→A | A264S (GCG→TCG) | yhfS ← | putative aminotransferase YhfS |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC | 3,646,247 | Δ10 bp | intergenic (+20/‑43) | rlmJ → / → gor | 23S rRNA m(6)A2030 methyltransferase/glutathione reductase (NADPH) |
| RA | 3,815,835 | C→T | intergenic (‑67/+28) | pyrE ← / ← rph | orotate phosphoribosyltransferase/truncated RNase PH |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,145,883 | G→T | G630V (GGC→GTC) | pflD → | putative formate acetyltransferase 2 |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,281,187 | G→T | G403V (GGC→GTC) | yjcE → | putative transporter YjcE |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,375,584 | T→G | D25A (GAT→GCT) | epmB ← | lysine 2,3‑aminomutase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102991 | 3104059 | 1069 | 45 [41] | [42] 45 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423766–3424234 | 3424525–3424238 | 5–760 | 45 [42] | [34] 43 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 54 (0.340) | 198 (1.420) | 92/244 | 0.0 | 84.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 28 (0.200) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 54 (0.340) | 99 (0.710) | 56/244 | 0.7 | 72.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 28 (0.200) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 211 (1.370) | 91/268 | 0.1 | 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 = | 277 (1.750) | 268 (1.700) | 95/274 | 0.1 | 65.8% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 4 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 170 (1.070) | 87/276 | 0.2 | 97.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||