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 |
| JC JC | 151,259 | IS5 (+) +4 bp | coding (338‑341/597 nt) | yadK ← | putative fimbrial protein YadK |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 374,809 | C→A | G314G (GGC→GGA) | mhpE → | 4‑hydroxy‑2‑oxovalerate aldolase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,084,175 | G→T | G267V (GGC→GTC) | efeB → | heme‑containing peroxidase/deferrochelatase |
| RA | 1,109,795 | C→G | A154G (GCC→GGC) | opgG → | osmoregulated periplasmic glucans (OPGs) biosynthesis protein G |
| RA | 1,337,873 | C→A | G681G (GGC→GGA) | acnA → | aconitate hydratase 1 |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,800,540 | C→A | Q33H (CAG→CAT) | infC ← | translation initiation factor IF‑3 |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,942,811 | G→T | V50V (GTG→GTT) | znuC → | Zn(2(+)) ABC transporter ATP binding subunit |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,010,669 | G→T | G24C (GGC→TGC) | yedL → | putative acetyltransferase YedL |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,702,306 | G→T | P55H (CCT→CAT) | recO ← | DNA repair protein RecO |
| RA | 2,984,095 | C→A | A10A (GCG→GCT) | kduI ← | 5‑dehydro‑4‑deoxy‑D‑glucuronate isomerase |
| RA | 3,336,604 | A→C | I67S (ATC→AGC) | ibaG ← | acid stress protein IbaG |
| 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 | 3,814,804 | G→T | G104V (GGC→GTC) | slmA → | nucleoid occlusion factor SlmA |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,860,232 | G→T | intergenic (‑116/‑51) | yidK ← / → yidL | putative transporter YidK/putative DNA‑binding transcriptional regulator YidL |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,276,558 | C→A | S363* (TCG→TAG) | pdeC → | c‑di‑GMP phosphodiesterase PdeC |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,500,177 | C→A | pseudogene (615/1199 nt) | yjgX ← | KpLE2 phage‑like element; putative phosphoethanolamine transferase YjgX, N‑terminal fragment |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102964 | 3104051 | 1088 | 39 [38] | [36] 48 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423770–3424234 | 3424533–3424238 | 5–764 | 39 [32] | [37] 40 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 61 (0.400) | 199 (1.460) | 85/244 | 0.1 | 75.2% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 77 (0.570) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 62 (0.400) | 80 (0.590) | 51/244 | 0.8 | 54.8% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 77 (0.570) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 264 (1.770) | 99/268 | 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 = | 289 (1.880) | 256 (1.680) | 95/274 | 0.1 | 63.8% | 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) | 177 (1.150) | 81/276 | 0.2 | 97.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||