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 |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,023,757 | G→T | P43T (CCG→ACG) | yccS ← | putative transporter YccS |
| RA | 1,251,180 | C→A | Q39K (CAG→AAG) | dhaR → | DNA‑binding transcriptional dual regulator DhaR |
| RA | 1,397,145 | C→A | intergenic (+53/‑220) | insH‑4 → / → ynaJ | IS5 transposase and trans‑activator/DUF2534 domain‑containing protein YnaJ |
| 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 | 2,165,614 | C→A | intergenic (+93/‑54) | yegP → / → yegQ | DUF1508 domain‑containing protein YegP/putative peptidase YegQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,984,362 | C→A | intergenic (‑238/+49) | kduI ← / ← yqeF | 5‑dehydro‑4‑deoxy‑D‑glucuronate isomerase/putative acyltransferase |
| RA | 3,028,082 | C→A | A321E (GCG→GAG) | ghxQ → | guanine/hypoxanthine transporter GhxQ |
| RA | 3,116,464 | +G | coding (2649/4563 nt) | yghJ ← | putative lipoprotein YghJ |
| 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 | 3,622,646 | G→T | G1152V (GGC→GTC) | rhsB → | rhs element protein RhsB |
| RA | 3,802,739 | G→T | T107N (ACT→AAT) | waaO ← | UDP‑D‑glucose:(glucosyl)LPS alpha‑1,3‑glucosyltransferase |
| JC JC | 3,806,379 | IS1 (–) +9 bp | coding (681‑689/1125 nt) | waaG ← | lipopolysaccharide glucosyltransferase I |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,878,666 | G→T | P485Q (CCG→CAG) | gyrB ← | DNA gyrase subunit B |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,277,632 | G→T | R55L (CGA→CTA) | soxR → | DNA‑binding transcriptional dual regulator SoxR |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| MC JC | 4,503,072 | Δ14 bp | coding (347‑360/1329 nt) | insG ← | KpLE2 phage‑like element; IS4 putative transposase |
| RA | 4,576,361 | C→A | pseudogene (2227/2721 nt) | yjiV → | putative uncharacterized protein YjiV |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102942 | 3104068 | 1127 | 29 [28] | [28] 29 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423748–3424234 | 3424550–3424238 | 5–803 | 29 [26] | [28] 30 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 18 (0.200) | 131 (1.640) | 70/244 | 0.0 | 90.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 12 (0.150) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 18 (0.200) | 68 (0.850) | 43/244 | 0.5 | 83.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 12 (0.150) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 118 (1.350) | 67/268 | 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 = | 149 (1.650) | 128 (1.430) | 64/274 | 0.1 | 62.9% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 104 (1.150) | 58/276 | 0.2 | 94.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 6 (0.070) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||